IMB Jena Image Library of Biological Macromolecules (Last update: November 15, 2004) ------------------------------------------------------------------------------------------------------ Comprehensive Bending Classification of Nucleic Acid Double Helix Structures ------------------------------------------------------------------------------------------------------ Generalized bending measure M model M corresponds to comment circular line kink angle: a (radius of curvature: r)From circular line structures for which a single-kink line has an almost equal goodness of fit a quantitative relationship between the radius of curvature and the kink angle has been derived: kink angle = 465.4272 / (radius of curvature^0.82575). double-kink line classification I - sum of kink angles: a1 + a2; classification II - the largest kink angle: either a1 or a2, max(a1,a2) This classification is done independent of the value of the twist angle o. +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ Hint for printing: ================== If you want to have the complete information for each entry on one line direct printing from the browser does not work (for A4 or letter). So, save the file as text file. Load this file into your preferred word processor and decrease the pointsize in an appropriate manner. On many UNIX platforms you can also use the command pstext. For example, pstext -s5 input_file > output_file.ps generates a Postscript file from the input text file with pointsize 5. +++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++++ ------------------------------------------------------------------------------------------------------- TOTAL NUMBER OF STRUCTURES: 1201 ------------------------------------------------------------------------------------------------------- No bending (M = 0 °) Classification I = Classification II Number of structures: 322 ------------------------------------------------------------------------------------------------------- Slight bending ( 0 ° < M <= 10 °) Classification II (double kink: M = max(a1,a2)) (There are structures with 13 or more base pairs for which a double-kink helical axis is selected as the most appropriate description by the automatic approach, but the central segment consists of 0 or 1 base pairs only. In these cases the double-kink geometrical parameters make no sense. Therefore, these structures have to be viewed as single-kink structures. They are indicated by a * in the helical axis shape description). Number of structures: 226 ------------------------------------------------------------------------------------------------------- Moderate bending ( 10 ° < M <= 45 °) Classification II (double-kink: M=max(a1,a2)) (There are structures with 13 or more base pairs for which a double-kink helical axis is selected as the most appropriate description by the automatic approach, but the central segment consists of 0 or 1 base pairs only. In these cases the double-kink geometrical parameters make no sense. Therefore, these structures have to be viewed as single-kink structures. They are indicated by a * in the helical axis shape description). Number of structures: 580 ------------------------------------------------------------------------------------------------------- Strong bending (M > 45 °) Classification II (double-kink: M=max(a1,a2)) Number of structures: 73 ------------------------------------------------------------------------------------------------------- Structures with a goodness-of-fit value larger than 2 are indicated by #. ------------------------------------------------------------------------------------------------------- PDB NDB bp molecule method helical s(2) r a/a1 a2 a1+a2 M bending specific molecule type type axis shape class xxxx xxxxxxx xxx xxxxxxxx xxxxx xxxxxxxxxxx xxxxx xxxxx xxx xxx xxx xxx xxxxxxxx xxxxxxxxxxxxxxxxxxxxxx ------------------------------------------------------------------------------------------------------- 110d ddf039 6 nuc diff straight 0.676 0 no DNA intercalation complex: daunomycin 146d ------ 6 nuc NMR straight 0.180 0 no DNA groove binder complex: mithramycin 151d ddf044 6 nuc diff straight 0.430 0 no DNA intercalation complex: adriamycin 152d ddf045 6 nuc diff straight 0.391 0 no DNA intercalation complex: daunomycin 182d ddf049 6 nuc diff straight 0.164 0 no DNA intercalation complex: nogalamycin 185d ------ 6 nuc NMR straight 0.470 0 no DNA intercalation complex: triostin A 198d ddf050 6 nuc diff straight 0.329 0 no DNA intercalation complex: idarubicin 1agl ddf072 6 nuc diff straight 0.327 0 no DNA intercalation complex: bis-daunomycin 1ao1 ------ 6 nuc NMR straight 0.494 0 no DNA intercalation complex: cobalt(III)-pepleomycin 1bcb ------ 6 nuc NMR straight 0.098 0 no DNA triplex 1bce ------ 6 nuc NMR straight 0.049 0 no DNA triplex 1buf ------ 6 nuc NMR straight 0.091 0 no self-complementary DNA 1c9z dd0018 6 nuc diff straight 0.359 0 no DNA intercalation complex: tetracationic bis-intercalator D232 1cx3 ------ 6 nuc NMR straight 0.264 0 no DNA intercalation complex: bisnapthalamide Lu-79533 1d10 ddf020 6 nuc diff straight 0.422 0 no DNA intercalation complex: daunomycin 1d11 ddf001 6 nuc diff straight 0.395 0 no DNA intercalation complex: daunomycin 1d12 ddf019 6 nuc diff straight 0.405 0 no DNA intercalation complex: adriamycin 1d14 ddfp21 6 nuc diff straight 0.486 0 no DNA intercalation complex: 11-deoxodaunomycin 1d15 ddf022 6 nuc diff straight 0.407 0 no DNA intercalation complex: bis-daunorubicin 1d17 ddfa16 6 nuc diff straight 0.107 0 no DNA intercalation complex: nogalamycin 1d1u pd0152 6 prot-nuc diff straight 0.125 0 no moloney murine leukemia virus reverse transcriptase/DNA (enzyme) 1d21 ddfa14 6 nuc diff straight 0.105 0 no DNA intercalation complex: nogalamycin 1d22 ddfa15 6 nuc diff straight 0.143 0 no DNA intercalation complex: nogalamycin 1d33 ddf023 6 nuc diff straight 0.455 0 no DNA intercalation complex: daunomyicin 1d35 ddfb25 6 nuc diff straight 0.455 0 no DNA intercalation complex: daunorubicin derivative MAR70 1d36 ddf026 6 nuc diff straight 0.354 0 no DNA intercalation complex: daunorubicin derivative MAR70 1d37 ddf028 6 nuc diff straight 0.248 0 no DNA intercalation complex: idarubicin 4-O-demethyl-11-deoxydoxorubicin 1d38 ddf029 6 nuc diff straight 0.442 0 no DNA intercalation complex: idarubicin 1d3r bd0017 6 nuc diff straight 0.263 0 no B-DNA with special fearures 1d54 ddf035 6 nuc diff straight 0.634 0 no DNA intercalation complex: bis-daunorubicin 1d58 ddf036 6 nuc diff straight 0.467 0 no DNA intercalation complex: bsi-daunorubicin 1d67 ddf038 6 nuc diff straight 0.366 0 no DNA intercalation complex: idarubicin 1d97 bdfp24 6 nuc diff straight 0.320 0 no modified B-DNA 1da0 ddf018 6 nuc diff straight 0.639 0 no DNA intercalation complex: daunomycin 1da9 ddf040 6 nuc diff straight 0.865 0 no DNA intercalation complex: adriamycin 1dl8 dd0023 6 nuc diff straight 0.196 0 no 1em0 dd0027 6 nuc diff straight 0.276 0 no DNA porphyrin complex (no intercalation but stacking) 1f69 bd0039 6 nuc diff straight 0.142 0 no DNA 1f6c bd0040 6 nuc diff straight 0.296 0 no DNA 1g00 ad0010 6 nuc diff straight 0.163 0 no 1g5k ------ 6 nuc NMR straight 0.231 0 no 1gj1 ------ 6 nuc NMR straight 0.112 0 no 1i5v ------ 6 nuc NMR straight 1.326 0 no 1i6j pd0202 6 prot-nuc diff straight 0.206 0 no 1i7j ar0031 6 nuc diff straight 0.147 0 no 1ih1 bd0050 6 nuc diff straight 0.189 0 no 1ih2 ad0021 6 nuc diff straight 0.259 0 no 1ih3 ad0022 6 nuc diff straight 0.147 0 no 1ih4 ad0023 6 nuc diff straight 0.234 0 no 1ih6 ad0024 6 nuc diff straight 0.366 0 no 1imr ddf061 6 nuc diff straight 0.370 0 no DNA intercalation complex: iododoxorubicin 1ims ddf062 6 nuc diff straight 0.393 0 no DNA intercalation complex: iododoxorubicin 1ixy pd0333 6 prot-nuc diff straight 0.127 0 no 1j7t dr0006 6 nuc diff straight 1.360 0 no 1k2j ------ 6 nuc NMR straight 0.303 0 no 1k2k ------ 6 nuc NMR straight 0.276 0 no 1k82 pd0264 6 prot-nuc diff straight 0.209 0 no 1k9g dd0047 6 nuc diff straight 0.126 0 no 1kci dd0048 6 nuc diff straight 0.271 0 no 1kfv pd0277 6 prot-nuc diff straight 0.067 0 no 1l1t pd0292 6 prot-nuc diff straight 0.247 0 no 1l1z pd0293 6 prot-nuc diff straight 0.185 0 no 1l2b pd0294 6 prot-nuc diff straight 0.128 0 no 1l2c pd0295 6 prot-nuc diff straight 1.543 0 no 1l2d pd0296 6 prot-nuc diff straight 0.859 0 no 1l3z ar0040 6 nuc diff straight 0.169 0 1m0e pd0327 6 prot-nuc diff straight 0.174 0 no 1m5r pd0334 6 prot-nuc diff straight 0.108 0 no 1msw pd0345 6 prot-nuc diff straight 0.379 0 no 1mtg ------ 6 nuc NMR straight 0.179 0 no 1n0k ------ 6 nuc NMR straight 0.897 0 no 1n0o ------ 6 nuc NMR straight 0.062 0 no 1nab dd0054 6 nuc diff straight 0.887 0 no 1p20 dd0056 6 nuc diff straight 0.434 0 no 1p24 bd0063 6 nuc diff straight 0.371 0 no 1p25 bd0064 6 nuc diff straight 0.150 0 no 1p26 bd0065 6 nuc diff straight 0.164 0 no 1p51 pd0426 6 prot-nuc diff straight 0.503 0 no 1pbl ------ 6 nuc NMR straight 0.155 0 no RNA 1pbm ------ 6 nuc NMR straight 0.056 0 no RNA 1qch ------ 6 nuc NMR straight 0.243 0 no DNA intercalation complex: nogalamycin 1qda dd0022 6 nuc diff straight 0.886 0 no DNA intercalation complex: epidoxorubicin 1uqa ------ 6 nuc NMR straight 0.050 0 no self-complementary DNA 1uqb ------ 6 nuc NMR straight 0.091 0 no self-complementary DNA 1uqc ------ 6 nuc NMR straight 0.311 0 no self-complementary DNA 1uqd ------ 6 nuc NMR straight 0.027 0 no self-complementary DNA 1uqe ------ 6 nuc NMR straight 0.216 0 no self-complementary DNA 1uqf ------ 6 nuc NMR straight 0.162 0 no self-complementary DNA 1uqg ------ 6 nuc NMR straight 0.146 0 no self-complementary DNA 206d bdf062 6 nuc diff straight 0.303 0 no B-DNA with special features 215d ddf053 6 nuc diff straight 0.453 0 no DNA intercalation complex: morpholino-doxorubicin derivative 224d ddf052 6 nuc diff straight 0.089 0 no DNA intercalation complex: nogalamycin 234d ddf054 6 nuc diff straight 0.277 0 no DNA intercalation complex: morpholino-doxorubicin derivative 235d ddf055 6 nuc diff straight 0.324 0 no DNA intercalation complex: morpholino-doxorubicin derivative 236d ddf056 6 nuc diff straight 0.361 0 no DNA intercalation complex: morpholino-doxorubicin derivative 245d ddf063 6 nuc diff straight 0.120 0 no DNA intercalation complex: nogalamycin 251d bdf068 6 nuc diff straight 0.048 0 no B-DNA with special features 254d adfb62 6 nuc diff straight 0.145 0 no modified A-DNA 256d adfb72 6 nuc diff straight 0.170 0 no modified A-DNA 257d adf073 6 nuc diff straight 0.445 0 no plain A-DNA 258d ddf064 6 nuc diff straight 0.355 0 no DNA intercalation complex: nogalamycin 275d adfb63 6 nuc diff straight 0.116 0 no modified A-DNA 276d ddf066 6 nuc diff straight 0.372 0 no DNA intercalation complex: 2'-bromo-4'-epidaunorubicin 277d ddf067 6 nuc diff straight 0.776 0 no DNA intercalation complex: 2'-bromo-4'-epidaunorubicin 278d ddf068 6 nuc diff straight 0.663 0 no DNA intercalation complex: 2'-bromo-4'-epidaunorubicin 282d ddf069 6 nuc diff straight 0.073 0 no DNA intercalation complex: nogalamycin 288d ddf065 6 nuc diff straight 0.344 0 no DNA intercalation complex: 2'-bromo-4'-epidaunorubicin 2d34 ddfb24 6 nuc diff straight 0.381 0 no DNA intercalation complex: daunomycin 2da8 ------ 6 nuc NMR straight 0.855 0 no DNA intercalation complex: 2-carboxyquinoline 2des ddf041 6 nuc diff straight 0.557 0 no DNA intercalation complex: morpholino derivative of adriamycin 308d ddfb70 6 nuc diff straight 0.590 0 no DNA intercalation complex: daunomycin 310d arfs26 6 nuc diff straight 0.081 0 no plain A-RNA 332d ahh089 6 nuc diff straight 0.475 0 no DNA/RNA hybrid 343d adfb97 6 nuc diff straight 0.778 0 no modified A-DNA 366d ddf073 6 nuc diff straight 0.176 0 no DNA intercalation complex: acridine derivative (Daca) N-(2-(dimethylamino)ethyl)acridine-4-carboxamide 367d ddf074 6 nuc diff straight 0.235 0 no 377d arf0108 6 nuc diff straight 0.055 0 no plain A-RNA 380d ddfb76 6 nuc diff straight 0.531 0 no DNA intercalation complex: 2'-bromo-4'-epidaunorubicin 385d ddf078 6 nuc diff straight 0.305 0 no DNA intercalation complex: morpholino derivative of doxorubicin 386d ddf079 6 nuc diff straight 0.374 0 no DNA intercalation complex: anthraquinone derivative 418d dr0001 6 nuc diff straight 0.729 0 no 452d dd0012 6 nuc diff straight 0.224 0 no 465d dd0015 6 nuc diff straight 0.234 0 no DNA intercalation complex: 9-amino-(N-(2-dimethylamino)ethyl)acridine-4-carboxamide 482d dd0017 6 nuc diff straight 0.446 0 no DNA intercalation complex: N-hydroxymethyl-N-(2-methoxyethyl)-daunomycin 7ice pde047 6 prot-nuc diff straight 0.251 0 no DNA polymerase beta/DNA (enzyme) 7icf pde048 6 prot-nuc diff straight 0.385 0 no DNA polymerase beta/DNA (enzyme) 7icg pde049 6 prot-nuc diff straight 0.187 0 no DNA polymerase beta/DNA (enzyme) 7ich pde050 6 prot-nuc diff straight 0.433 0 no DNA polymerase beta/DNA (enzyme) 7ici pde051 6 prot-nuc diff straight 0.315 0 no DNA polymerase beta/DNA (enzyme) 7icj pde052 6 prot-nuc diff straight 0.353 0 no DNA polymerase beta/DNA (enzyme) 7ick pde053 6 prot-nuc diff straight 0.154 0 no DNA polymerase beta/DNA (enzyme) 7icl pde054 6 prot-nuc diff straight 0.242 0 no DNA polymerase beta/DNA (enzyme) 7icm pde055 6 prot-nuc diff straight 0.221 0 no DNA polymerase beta/DNA (enzyme) 7icn pde056 6 prot-nuc diff straight 0.181 0 no DNA polymerase beta/DNA (enzyme) 7ico pde057 6 prot-nuc diff straight 0.263 0 no DNA polymerase beta/DNA (enzyme) 7icp pde058 6 prot-nuc diff straight 0.211 0 no DNA polymerase beta/DNA (enzyme) 7icq pde059 6 prot-nuc diff straight 0.269 0 no DNA polymerase beta/DNA (enzyme) 7icr pde060 6 prot-nuc diff straight 0.152 0 no DNA polymerase beta/DNA (enzyme) 7ics pde061 6 prot-nuc diff straight 0.167 0 no DNA polymerase beta/DNA (enzyme) 7ict pde062 6 prot-nuc diff straight 0.235 0 no DNA polymerase beta/DNA (enzyme) 7icu pde063 6 prot-nuc diff straight 0.472 0 no DNA polymerase beta/DNA (enzyme) 7icv pde088 6 prot-nuc diff straight 0.361 0 no DNA polymerase beta/DNA (enzyme) 9ick pde0100 6 prot-nuc diff straight 0.153 0 no DNA polymerase beta/DNA (enzyme) 9icl pde0101 6 prot-nuc diff straight 0.183 0 no DNA polymerase beta/DNA (enzyme) 9icm pde0102 6 prot-nuc diff straight 0.183 0 no DNA polymerase beta/DNA (enzyme) 9icn pde0103 6 prot-nuc diff straight 0.216 0 no DNA polymerase beta/DNA (enzyme) 9ico pde0104 6 prot-nuc diff straight 0.195 0 no DNA polymerase beta/DNA (enzyme) 9icp pde0105 6 prot-nuc diff straight 0.198 0 no DNA polymerase beta/DNA (enzyme) 9icq pde0106 6 prot-nuc diff straight 0.222 0 no DNA polymerase beta/DNA (enzyme) 9icr pde0107 6 prot-nuc diff straight 0.285 0 no DNA polymerase beta/DNA (enzyme) 9ics pde0108 6 prot-nuc diff straight 0.342 0 no DNA polymerase beta/DNA (enzyme) 9ict pde0109 6 prot-nuc diff straight 0.284 0 no DNA polymerase beta/DNA (enzyme) 9icu pde0110 6 prot-nuc diff straight 0.212 0 no DNA polymerase beta/DNA (enzyme) 9icw pde0112 6 prot-nuc diff straight 0.265 0 no DNA polymerase beta/DNA (enzyme) 9icx pde0113 6 prot-nuc diff straight 0.222 0 no DNA polymerase beta/DNA (enzyme) 1hu0 pd0195 7 prot-nuc diff straight 0.238 0 no 1lwv pd0321 7 prot-nuc diff straight 0.145 0 no 1lww pd0322 7 prot-nuc diff straight 0.103 0 no 1lwy pd0323 7 prot-nuc diff straight 0.226 0 no 1lyr ------ 7 prot-nuc model straight 0.297 0 no 1n39 pd0357 7 prot-nuc diff straight 0.288 0 no 1n3a pd0355 7 prot-nuc diff straight 0.200 0 no 1n3c pd0356 7 prot-nuc diff straight 0.214 0 no 1nnj pd0389 7 prot-nuc diff straight 0.259 0 no 1o3z ar0046 7 nuc diff straight 0.067 0 no 1p71 pd0430 7 prot-nuc diff straight 0.325 0 no 1p78 pd0431 7 prot-nuc diff straight 0.304 0 no 1zqa pde027 7 prot-nuc diff straight 0.120 0 no DNA polymerase beta/DNA (enzyme) 1zqb pde028 7 prot-nuc diff straight 0.236 0 no DNA polymerase beta/DNA (enzyme) 1zqc pde029 7 prot-nuc diff straight 0.344 0 no DNA polymerase beta/DNA (enzyme) 1zqd pde030 7 prot-nuc diff straight 0.325 0 no DNA polymerase beta/DNA (enzyme) 1zqf pde032 7 prot-nuc diff straight 0.197 0 no DNA polymerase beta/DNA (enzyme) 1zqg pde033 7 prot-nuc diff straight 0.259 0 no DNA polymerase beta/DNA (enzyme) 1zqi pde035 7 prot-nuc diff straight 0.181 0 no DNA polymerase beta/DNA (enzyme) 1zqj pde036 7 prot-nuc diff straight 0.239 0 no DNA polymerase beta/DNA (enzyme) 1zqk pde037 7 prot-nuc diff straight 0.060 0 no DNA polymerase beta/DNA (enzyme) 1zql pde038 7 prot-nuc diff straight 0.163 0 no DNA polymerase beta/DNA (enzyme) 1zqn pde040 7 prot-nuc diff straight 0.245 0 no DNA polymerase beta/DNA (enzyme) 1zqo pde041 7 prot-nuc diff straight 0.261 0 no DNA polymerase beta/DNA (enzyme) 1zqp pde042 7 prot-nuc diff straight 0.129 0 no DNA polymerase beta/DNA (enzyme) 1zqr pde044 7 prot-nuc diff straight 0.335 0 no DNA polymerase beta/DNA (enzyme) 1zqs pde045 7 prot-nuc diff straight 0.293 0 no DNA polymerase beta/DNA (enzyme) 1zqt pde046 7 prot-nuc diff straight 0.256 0 no DNA polymerase beta/DNA (enzyme) 2bpf pde011 7 prot-nuc diff straight 0.384 0 no DNA polymerase beta/DNA (enzyme) 435d ar0010 7 nuc diff straight 0.206 0 no plain A-RNA 8ica pde089 7 prot-nuc diff straight 0.224 0 no DNA polymerase beta/DNA (enzyme) 8icb pde064 7 prot-nuc diff straight 0.198 0 no DNA polymerase beta/DNA (enzyme) 8icc pde065 7 prot-nuc diff straight 0.161 0 no DNA polymerase beta/DNA (enzyme) 8ice pde066 7 prot-nuc diff straight 0.128 0 no DNA polymerase beta/DNA (enzyme) 8ich pde069 7 prot-nuc diff straight 0.068 0 no DNA polymerase beta/DNA (enzyme) 8icj pde071 7 prot-nuc diff straight 0.110 0 no DNA polymerase beta/DNA (enzyme) 8icm pde074 7 prot-nuc diff straight 0.128 0 no DNA polymerase beta/DNA (enzyme) 8icn pde075 7 prot-nuc diff straight 0.059 0 no DNA polymerase beta/DNA (enzyme) 8ico pde076 7 prot-nuc diff straight 0.145 0 no DNA polymerase beta/DNA (enzyme) 8icp pde077 7 prot-nuc diff straight 0.113 0 no DNA polymerase beta/DNA (enzyme) 8icq pde078 7 prot-nuc diff straight 0.164 0 no DNA polymerase beta/DNA (enzyme) 8icr pde079 7 prot-nuc diff straight 0.128 0 no DNA polymerase beta/DNA (enzyme) 8ics pde080 7 prot-nuc diff straight 0.069 0 no DNA polymerase beta/DNA (enzyme) 8icu pde082 7 prot-nuc diff straight 0.137 0 no DNA polymerase beta/DNA (enzyme) 8icv pde083 7 prot-nuc diff straight 0.096 0 no DNA polymerase beta/DNA (enzyme) 8icw pde084 7 prot-nuc diff straight 0.174 0 no DNA polymerase beta/DNA (enzyme) 8icy pde086 7 prot-nuc diff straight 0.172 0 no DNA polymerase beta/DNA (enzyme) 8icz pde087 7 prot-nuc diff straight 0.086 0 no DNA polymerase beta/DNA (enzyme) 9ica pde091 7 prot-nuc diff straight 0.105 0 no DNA polymerase beta/DNA (enzyme) 9icj pde099 7 prot-nuc diff straight 0.109 0 no DNA polymerase beta/DNA (enzyme) 9icy pde0114 7 prot-nuc diff straight 0.109 0 no DNA polymerase beta/DNA (enzyme) 108d ------ 8 nuc NMR straight 0.381 0 no DNA intercalation complex: bis-thiazole orange 118d adh047 8 nuc diff straight 0.052 0 no plain A-DNA 187d adh056 8 nuc diff straight 0.057 0 no plain A-DNA 189d adh058 8 nuc diff straight 0.026 0 no plain A-DNA 1but ------ 8 nuc NMR straight 0.055 0 no plain B-DNA 1cp8 ------ 8 nuc NMR straight 0.631 0 no DNA groove binder complex: Uch9 1d0e pd0135 8 prot-nuc diff straight 0.285 0 no moloney murine leukemia virus reverse transcriptase/DNA (enzyme) 1d19 ------ 8 nuc NMR straight 0.109 0 no plain B-DNA 1d26 adhp36 8 nuc diff straight 0.034 0 no modified A-DNA 1d82 adh041 8 nuc diff straight 0.031 0 no plain A-DNA 1dns adh014 8 nuc diff straight 0.008 0 no plain A-DNA 1dsc ------ 8 prot-nuc NMR straight 0.749 0 no DNA intercalation complex: actinomycin D 1dsd ------ 8 prot-nuc NMR straight 0.200 0 no DNA intercalation complex: actinomycin D 1eka ------ 8 nuc NMR straight 0.218 0 no 1eki ------ 8 nuc NMR straight 0.962 0 no DNA groove binder complex: chromomycin 1enn bd0037 8 nuc NMR straight 0.186 0 no 1g80 ------ 8 nuc NMR straight 0.014 0 no 1gau ------ 8 prot-nuc NMR straight 0.169 0 no erythroid transcription factor GATA-1/DNA (regulatory) 1h38 ------ 8 prot-nuc diff straight 0.080 0 no 1huz pd0197 8 prot-nuc diff straight 0.129 0 no 1jtl dd0042 8 nuc diff straight 0.104 0 no 1k2z dd0046 8 nuc diff straight 0.071 0 no 1lc4 dr0007 8 nuc diff straight 0.158 0 no 1mwg ------ 8 nuc NMR straight 0.097 0 no RNA 1mwl dr0008 8 nuc diff straight 0.359 0 1nxr ------ 8 nuc NMR straight 0.121 0 no RNA/DNA hybrid 1oup pd0403 8 prot-nuc diff straight 0.514 0 no 203d ------ 8 nuc NMR straight 0.506 0 no psoralen crosslinked and mono-adducted DNA 209d ddh051 8 nuc diff straight 0.242 0 no DNA intercalation complex: N8-actinomycin D 250d bdh071 8 nuc diff straight 0.079 0 no plain B-DNA 28dn adh023 8 nuc diff straight 0.218 0 no plain A-DNA 295d adh033 8 nuc diff straight 0.034 0 no plain A-DNA 2d94 adh026 8 nuc diff straight 0.074 0 no plain A-DNA 315d ahh077 8 nuc diff straight 0.836 0 no DNA/RNA hybrid 337d adhb91 8 nuc diff straight 0.107 0 no modified A-DNA 338d adhb92 8 nuc diff straight 0.051 0 no modified A-DNA 339d adhb93 8 nuc diff straight 0.080 0 no modified A-DNA 340d adhb94 8 nuc diff straight 0.058 0 no modified A-DNA 341d adhb95 8 nuc diff straight 0.051 0 no modified A-DNA 342d adhb96 8 nuc diff straight 0.082 0 no modified A-DNA 345d adhb100 8 nuc diff straight 0.049 0 no modified A-DNA 346d adhb101 8 nuc diff straight 0.084 0 no modified A-DNA 371d adh0105 8 nuc diff straight 0.255 0 no plain A-DNA 3orc pd0022 8 prot-nuc diff straight 0.108 0 no cro protein/DNA (regulatory) 472d ar0022 8 nuc diff straight 0.205 0 no 473d dd0016 8 nuc diff straight 0.259 0 no DNA groove binder complex: netropsin 5ana adh024 8 nuc diff straight 0.245 0 no plain A-DNA 8drh ------ 8 nuc NMR straight 0.067 0 no DNA/RNA hybrid 9dna adh008 8 nuc diff straight 0.129 0 no plain A-DNA 1drn ------ 9 nuc NMR straight 0.302 0 no DNA/RNA hybrid 1gm5 pd0267 9 prot-nuc diff straight 0.127 0 no 122d bdjb49 10 nuc diff straight 0.368 0 no modified B-DNA 123d bdjb50 10 nuc diff straight 0.343 0 no modified B-DNA 158d bdj052 10 nuc diff straight 0.394 0 no plain B-DNA 169d ------ 10 nuc NMR straight 0.044 0 no DNA/RNA hybrid 183d bdjb57 10 nuc diff straight 0.222 0 no DNA decamer containing 7, 8-dihydro-8-oxoguanine 1aay pdt039 10 prot-nuc diff straight 0.209 0 no ZIF268 zinc finger/DNA (regulatory) 1axp ------ 10 nuc NMR straight 0.004 0 no DNA duplex with a purine rich strand 1bd1 bdj017 10 nuc diff straight 0.210 0 no plain B-DNA 1bhm pde020 10 prot-nuc diff straight 0.164 0 no restriction endonuclease BamHI/DNA (enzyme) 1cqo ------ 10 nuc NMR straight 0.395 0 no DNA 1cw9 bd0021 10 nuc diff straight 0.159 0 no modified B-DNA 1d02 pd0151 10 prot-nuc diff straight 0.163 0 no restriction endonuclease MunI/DNA (enzyme) 1d61 bdjb44 10 nuc diff straight 0.418 0 no modified B-DNA 1d62 bd0055 10 nuc diff straight 0.223 0 no 1da3 bdjb48 10 nuc diff straight 0.129 0 no modified B-DNA 1di2 pr0020 10 prot-nuc diff straight 0.277 0 no RNA binding protein/RNA (structural) 1ehv bd0032 10 nuc diff straight 0.048 0 no DNA 1en3 bd0033 10 nuc diff straight 0.391 0 no 1en9 bd0035 10 nuc diff straight 0.206 0 no 1ene bd0036 10 nuc diff straight 0.186 0 no 1k4s pd0255 10 prot-nuc diff straight 0.081 0 no 1ku7 pd0284 10 prot-nuc diff straight 0.238 0 no 1nfk pdt015 10 prot-nuc diff straight 0.255 0 no nuclear factor kappa-B/DNA (regulatory) 1rrd ------ 10 nuc NMR straight 0.126 0 no DNA/RNA hybrid 1rrr ------ 10 nuc NMR straight 0.031 0 no RNA duplex with a purine rich strand 252d bdj069 10 nuc diff straight 0.070 0 no plain B-DNA 274d gdjb29 10 nuc diff straight 0.034 0 no DNA groove binder complex: anthramycin 2bam pd0029 10 prot-nuc diff straight 0.275 0 no restriction endonuclease BamHI/DNA (enzyme) 307d bdj081 10 nuc diff straight 0.050 0 no plain B-DNA 318d adjb79 10 nuc diff straight 0.289 0 no modified A-DNA 322d adjb83 10 nuc diff straight 0.615 0 no modified A-DNA 325d adjb86 10 nuc diff straight 0.318 0 no modified A-DNA 375d gdj059 10 nuc diff straight 0.037 0 no DNA groove binder complex: netropsin (end-to-end binding of two netropsins) 382d adj0109 10 nuc diff straight 0.080 0 no plain A-DNA 3dnb bdj008 10 nuc diff straight 0.168 0 no mismatched B-DNA 476d bd0018 10 nuc diff straight 0.046 0 no B-DNA with special features 5dnb bdj019 10 nuc diff straight 0.359 0 no plain B-DNA 157d arl048 12 nuc diff straight 0.187 0 no mismatched A-RNA 1ckq pd0049 12 prot-nuc diff straight 0.216 0 no restriction endonuclease EcoRI/DNA (enzyme) 1cl8 pd0054 12 prot-nuc diff straight 0.247 0 no restriction endonuclease EcoRI/DNA (enzyme) 1eri pde001 12 prot-nuc diff straight 0.163 0 no restriction endonuclease EcoRI/DNA (enzyme) 1gd2 pd0180 12 prot-nuc diff straight 0.650 0 no 1qps pd0055 12 prot-nuc diff straight 0.143 0 no restriction endonuclease EcoRI/DNA (enzyme) 1qri pd0063 12 prot-nuc diff straight 0.247 0 no restriction endonuclease EcoRI/DNA (enzyme) 423d bd0001 12 nuc diff straight 0.191 0 no plain B-DNA 424d bd0002 12 nuc diff straight 0.181 0 no plain B-DNA 425d bd0003 12 nuc diff straight 0.162 0 no plain B-DNA 4bna bdlb04 12 nuc diff straight 0.103 0 no modified B-DNA 1lai ------ 13 nuc NMR straight 0.101 0 no 1lej ------ 13 nuc NMR straight 0.191 0 no 1qaa ------ 20 prot-nuc model straight 0.000 0 no LexA repressor/DNA 1fja ------ 6 prot-nuc NMR straight 4.685 0 no DNA intercalation complex: actinomycin D 1j9n ------ 6 prot-nuc NMR straight 5.903 0 no 1n1k ------ 6 nuc NMR straight 2.866 0 no 1n35 pr0087 6 prot-nuc diff straight 5.631 0 no 1nzm ------ 7 nuc NMR straight 5.708 0 no 1kd3 ar0036 10 nuc diff straight 2.147 0 no 1kd4 ar0037 10 nuc diff straight 3.100 0 no 1kd5 ar0038 10 nuc diff straight 2.315 0 no 1k71 bd0056 11 nuc diff straight 3.107 0 no 2hdc ------ 17 prot-nuc NMR single-kink*0.070 2 2 slight genesis protein (homologous to HNF-3)/DNA 1by4 pd0071 15 prot-nuc diff circular 0.205 424 3 slight 1osl ------ 18 prot-nuc NMR single-kink 0.012 3 3 slight 1cgc bdj039 10 nuc diff circular 0.067 336 4 slight plain B-DNA 1d60 bdjb43 10 nuc diff circular 0.039 340 4 slight modified B-DNA 1lpq pd0313 22 prot-nuc diff double-kink 0.041 2 4 6 4 slight 1lrr pd0315 12 prot-nuc diff circular 0.212 294 4 slight 1mse ------ 11 prot-nuc NMR circular 0.089 322 4 slight c-MYB/DNA 1pyi pdt017 14 prot-nuc diff circular 0.360 277 4 slight pyrimidine pathway regulator 1/DNA (regulatory) 474d gdjb58 10 nuc diff single-kink 0.029 4 4 slight DNA groove binder complex: netropsin 109d gdl033 12 nuc diff circular 0.073 263 5 slight DNA groove binder complex: bis-benzimidazole compound 121d gdl014 12 nuc diff circular 0.121 261 5 slight DNA groove binder complex: netropsin 167d bdj055 10 nuc diff circular 0.068 216 5 slight plain B-DNA 196d bdj060 10 nuc diff single-kink 0.102 5 5 slight plain B-DNA 1afz ------ 11 nuc NMR single-kink 0.116 5 5 slight DNA containing the human N-ras codon 12 sequence 1d44 gdl011 12 nuc diff circular 0.059 222 5 slight DNA groove binder complex: Hoechst 33258 1dk9 ------ 9 nuc NMR single-kink 0.051 5 5 slight DNA 1g14 ------ 12 nuc NMR circular 0.049 268 5 slight 1hq7 bd0047 12 nuc diff single-kink 0.094 5 5 slight 1imh pd0214 13 prot-nuc diff single-kink 0.169 5 5 slight 1lo1 ------ 13 prot-nuc NMR single-kink*0.086 5 5 slight 1qrh pd0062 12 prot-nuc diff circular 0.223 222 5 slight restriction endonuclease EcoRI/DNA (enzyme) 285d bdlb76 12 nuc diff circular 0.142 243 5 slight modified B-DNA 296d gdl028 12 nuc diff circular 0.070 219 5 slight DNA groove binder complex: Hoechst 33258 445d dd0006 12 nuc diff circular 0.060 223 5 slight B-DNA with special features 463d bd0014 10 nuc diff circular 0.052 245 5 slight B-DNA with special feature 468d ar0016 12 nuc diff single-kink 0.047 5 5 slight RNA drug complex 477d bd0019 10 nuc diff circular 0.051 227 5 slight B-DNA with special features 1agh ------ 11 nuc NMR circular 0.025 187 6 slight plain B-DNA 1bc7 pd0027 11 prot-nuc diff circular 0.159 188 6 slight serum response factor accessory protein 1A/DNA (regulatory) 1bjd ------ 12 nuc NMR circular 0.024 184 6 slight DNA dodecamer with a GT mismatch 1cvy dd0021 10 nuc diff circular 0.136 188 6 slight DNA groove binder complex: imidazole pyrrole polyamide 1d43 gdl010 12 nuc diff circular 0.067 213 6 slight DNA groove binder complex: Hoechst 33258 1dn9 bdl007 12 nuc diff single-kink 0.085 6 6 slight plain B-DNA 1dvl dd0024 10 prot-nuc diff circular 0.126 191 6 slight 1fkz ------ 11 nuc NMR circular 0.021 179 6 slight B-DNA 1fq2 bd0041 12 prot-nuc diff circular 0.079 181 6 slight 1ikk bd0051 10 prot-nuc diff circular 0.097 197 6 slight 1jgr bd0054 12 prot-nuc diff circular 0.071 183 6 slight 1jk1 pd0230 10 prot-nuc diff circular 0.137 200 6 slight 1odh ------ 13 prot-nuc diff circular 0.153 213 6 slight 1pyj ------ 11 nuc NMR circular 0.071 178 6 slight 1rvi ------ 12 nuc NMR circular 0.107 199 6 slight 265d bdlb72 12 nuc diff circular 0.042 204 6 slight modified B-DNA 269d gdlb43 12 nuc diff circular 0.041 207 6 slight DNA groove binder complex: Hoechst 33258 286d bdjb77 10 nuc diff circular 0.091 192 6 slight modified B-DNA 2ezf ------ 12 prot-nuc NMR single-kink 0.072 6 6 slight human HMG-I(Y) truncated form of second and third domain/DNA 328d gdl053 12 nuc diff circular 0.059 177 6 slight DNA groove binder complex: bisquaternary ammonium compound S7167 355d bdl084 12 nuc diff circular 0.082 177 6 slight plain B-DNA 3bna bdlb03 12 nuc diff circular 0.098 189 6 slight modified B-DNA 469d ar0015 12 nuc diff single-kink 0.043 6 6 slight RNA drug complex 470d ar0017 12 nuc diff single-kink 0.097 6 6 slight RNA drug complex 101d gdlb31 12 nuc diff single-kink 0.061 7 7 slight DNA groove binder complex: netropsin 1a1k pdt058 10 prot-nuc diff circular 0.083 164 7 slight zinc finger (ZIF268)/DNA (regulatory) 1a36 pde0141 22 prot-nuc diff double-kink 0.096 5 7 12 7 slight topoisomerase I/DNA (enzyme) 1cs2 ------ 12 nuc NMR circular 0.110 153 7 slight plain B-DNA 1d65 bdl038 12 nuc diff circular 0.057 172 7 slight plain B-DNA 1d68 ------ 10 nuc NMR circular 0.140 173 7 slight B-DNA 1dou bd0029 12 nuc diff circular 0.071 162 7 slight plain B-DNA 1ej9 pd0125 22 prot-nuc diff double-link 0.067 7 6 7 slight topoisomerase I/DNA (enzyme) 1fiu pd0177 10 prot-nuc diff circular 0.326 151 7 slight 1fky ------ 11 nuc NMR circular 0.021 151 7 slight mismatched B-DNA 1fos pdt014 19 prot-nuc diff single-kink 0.130 7 7 slight C-FOS:C-JUN/DNA (regulatory) 1g2d pd0186 15 prot-nuc diff circular 0.161 149 7 slight 1g2f pd0187 15 prot-nuc diff circular 0.150 154 7 slight 1g3x dd0037 12 prot-nuc diff circular 0.182 166 7 slight 1ilc bd0052 12 prot-nuc diff circular 0.127 152 7 slight 1j8l bd0053 12 prot-nuc diff circular 0.073 153 7 slight 1jnm pd0241 20 prot-nuc diff single-kink 0.203 7 7 slight 1juw ------ 22 prot-nuc model double-kink 0.096 5 7 12 7 slight 1ksy pd0283 21 prot-nuc diff double-kink 0.151 7 7 14 7 slight 1mnn pd0341 13 prot-nuc diff single-kink 0.182 7 7 slight 1naj ------ 12 nuc NMR circular 0.019 163 7 slight 1nk0 pd0376 11 prot-nuc diff single-kink 0.059 7 7 slight 1qms ------ 12 nuc NMR single-kink 0.018 7 7 slight DNA groove binder complex: calicheamicin 263d gdl039 12 nuc diff circular 0.068 155 7 slight DNA groove binder complex: tris-benzimidazole 266d bdlb73 12 nuc diff circular 0.042 174 7 slight modified B-DNA 298d gdl044 12 nuc diff circular 0.150 174 7 slight DNA groove binder complex: furan derivative of berenil 2d25 bdjb27 10 nuc diff circular 0.346 150 7 slight modified B-DNA 2dau ------ 12 nuc NMR circular 0.186 169 7 slight plain B-DNA 408d bdd003 10 nuc diff single-kink 0.188 7 7 slight DNA groove binder complex: imidazole-pyrrole polyamide 428d bd0005 12 nuc diff circular 0.074 166 7 slight plain B-DNA 447d dd0007 12 nuc diff circular 0.073 151 7 slight DNA groove binder complex: m-iodo-Hoechst 457d bd0010 12 nuc diff circular 0.054 162 7 slight mismatched B-DNA 102d gdl032 12 nuc diff single-kink 0.053 8 8 slight DNA groove binder complex: propamidine 1a1g pdt056 10 prot-nuc diff single-kink 0.111 8 8 slight variant zinc finger ZIF 268/DNA (regulatory) 1a1h pdt057 10 prot-nuc diff circular 0.182 147 8 slight zinc finger (ZIF268)/DNA (regulatory) 1am9 pdt062 38 prot-nuc diff circular 0.626 141 8 slight sterol regulatory element binding protein/DNA (regulatory) 1bc8 pd0020 9 prot-nuc diff circular 0.094 131 8 slight SAP-1 domain/DNA (regulatory) 1bw7 ------ 12 nuc NMR single-kink 0.214 8 8 slight DNA duplex with a replicable difluorotoluene/adenine pair 1cvx dd0020 10 nuc diff single-kink 0.150 8 8 slight plain B-DNA 1d20 ------ 10 nuc NMR single-kink 0.098 8 8 slight plain B-DNA 1d23 bdj025 10 nuc diff circular 0.296 138 8 slight plain B-DNA 1d27 bdlb26 12 nuc diff circular 0.036 141 8 slight mismatched B-DNA 1d57 bdj037 10 nuc diff single-kink 0.197 8 8 slight plain B-DNA 1d63 gdl016 12 nuc diff circular 0.100 136 8 slight DNA groove binder complex: berenil 1d64 gdl015 12 nuc diff circular 0.073 129 8 slight DNA groove binder complex: pentamidine 1d77 bdlb40 12 nuc diff circular 0.140 140 8 slight modified B-DNA 1d86 gdl018 12 nuc diff circular 0.080 137 8 slight DNA groove binder complex: netropsin 1dl4 ------ 11 nuc NMR circular 0.189 139 8 slight DNA intercalation complex: 1R,2S,3R,4S-tetrahydro-benzo[A]anthracene-2,3,4-triol 1edr bd0031 12 nuc diff circular 0.050 132 8 slight modified B-DNA 1eel dd0025 12 nuc diff single-kink 0.107 8 8 slight DNA groove binder complex: bis[piperidino-ethyl]-furamidine 1efs ------ 13 nuc NMR double-kink 0.042 8 4 12 8 slight DNA/RNA hybrid 1ftd dd0036 12 nuc diff circular 0.073 128 8 slight 1fzx ------ 12 nuc NMR circular 0.020 140 8 slight 1g3v bd0042 8 prot-nuc diff circular 0.090 128 8 slight 1gip ------ 12 nuc NMR circular 0.139 131 8 slight 1jgg pdt031 10 prot-nuc diff circular 0.276 131 8 slight even-skipped homeodomain/DNA (regulatory) 1jk2 pd0231 10 prot-nuc diff single-kink 0.110 8 8 slight 1k4t pd0256 10 prot-nuc diff circular 0.041 128 8 slight 1kkw ------ 10 nuc NMR circular 0.232 142 8 slight 1lex gdl037 12 nuc diff circular 0.094 129 8 slight DNA groove binder complex: lexitropsin 1nk8 pd0381 11 prot-nuc diff circular 0.115 143 8 slight 1prp gdl023 12 nuc diff circular 0.073 131 8 slight DNA groove binder complex: propamidine 1qc1 bd0015 10 nuc diff circular 0.058 133 8 slight plain B-DNA 249d bdl070 11 nuc diff circular 0.168 147 8 slight plain B-DNA 259d arh074 8 nuc diff circular 0.016 135 8 slight plain A-RNA 264d gdl026 12 nuc diff circular 0.075 134 8 slight DNA groove binder complex: Hoechst 33258 267d gdlb41 12 nuc diff circular 0.087 133 8 slight DNA groove binder complex: distamycin 270d bdlb74 12 nuc diff circular 0.046 147 8 slight modified B-DNA 2bdp pde0131 9 prot-nuc diff circular 0.064 133 8 slight DNA polymerase I fragment/DNA (enzyme) 2ezd ------ 12 prot-nuc NMR circular 0.038 128 8 slight human HMG-I(Y) second domain/DNA 2eze ------ 12 prot-nuc NMR circular 0.048 137 8 slight human HMG-I(Y) second domain/DNA 363d adls105 12 nuc diff circular 0.183 134 8 slight A-DNA with special features 407d bdd002 10 nuc diff circular 0.171 134 8 slight DNA groove binder complex: imidazole-pyrrole-hydroxypyrrole polyamide 432d dd0002 8 nuc diff circular 0.116 140 8 slight 444d dd0005 12 nuc diff single-kink 0.044 8 8 slight DNA groove binder complex: benzimidazole derivative 471d ar0018 12 nuc diff single-kink 0.121 8 8 slight RNA drug complex 113d bdl009 12 nuc diff circular 0.032 125 9 slight mismatched B-DNA 124d ------ 8 nuc NMR circular 0.043 119 9 slight DNA/RNA hybrid 128d gdlb19 12 nuc diff single-kink 0.097 9 9 slight DNA groove binder complex: Hoechst 33258 129d gdl021 12 nuc diff single-kink 0.097 9 9 slight DNA groove binder complex: Hoechst 33342 166d gdl027 12 nuc diff single-kink 0.060 9 9 slight DNA groove binder complex: gamma oxapentamidine 1a31 pde0142 22 prot-nuc diff double-kink 0.096 9 8 17 9 slight topoisomerase I/DNA (enzyme) 1an2 pdt023 22 prot-nuc diff double-kink 0.332 9 8 17 9 slight transcription factor max/DNA (regulatory) 1bdn bdl015 12 nuc diff circular 0.108 127 9 slight plain B-DNA 1d30 gdl008 12 nuc diff single-kink 0.056 9 9 slight DNA groove binder complex: Dapi 1d49 bdj031 10 nuc diff circular 0.188 127 9 slight plain B-DNA 1d56 bdj036 10 nuc diff single-kink 0.191 9 9 slight plain B-DNA 1f5t pd0170 41 prot-nuc diff double-kink 1.251 7 9 16 9 slight 1fyl pd0183 12 prot-nuc diff circular 0.021 114 9 1g75 bd0043 12 nuc diff circular 0.065 112 9 1g8n bd0044 12 nuc diff circular 0.063 118 9 1gat ------ 8 prot-nuc NMR circular 0.102 117 9 slight erythroid transcription factor GATA-1/DNA (Regulatory) 1jj8 pd0229 12 prot-nuc diff circular 0.141 117 9 slight 1jkq pd0236 12 prot-nuc diff circular 0.258 116 9 slight 1kb2 pd0268 18 prot-nuc diff double-kink 0.252 9 7 16 9 slight 1l3t pd0301 10 prot-nuc diff circular 0.209 114 9 slight 1l3u pd0302 11 prot-nuc diff single-kink 0.166 9 9 slight 1lat pdt030 18 prot-nuc diff double-kink 0.289 9 7 16 9 slight glucocorticoid receptor mutant/DNA (regulatory) 1le5 pd0307 11 prot-nuc diff circular 0.081 120 9 slight 1ley gdl038 12 nuc diff circular 0.099 116 9 slight DNA groove binder complex: monoimidazole lexitropsin 1m6f dd0052 12 nuc diff circular 0.084 115 9 slight 1mhd pd0243 13 prot-nuc diff single-kink 0.123 9 9 slight Smad MH1 domain/DNA 1mq2 pd0343 10 prot-nuc diff circular 0.160 115 9 slight 1ndn bdl021 12 nuc diff single-kink 0.212 9 9 slight B-DNA with special features 1njw pd0372 11 prot-nuc diff single-kink 0.101 9 9 slight 1nlw pd0387 18 prot-nuc diff double-kink 0.153 9 6 15 9 slight 1rxb arh064 8 nuc diff circular 0.015 126 9 slight plain A-RNA 1t7p pde0135 11 prot-nuc diff single-kink 0.248 9 9 slight DNA polymerase, thioredoxin /DNA (enzyme)thioredoxin 1vkx pdr033 11 prot-nuc diff single-kink 0.113 9 9 slight NF-KAPPA B P65 and P50 subunits/DNA (regulatory) 1zaa pdt006 10 prot-nuc diff single-kink 0.208 9 9 slight zinc finger ZIF268/DNA (regulatory) 202d ------ 8 nuc NMR circular 0.366 115 9 slight DNA intercalation complex: menogaril 214d ------ 11 nuc NMR circular 0.149 116 9 slight modified DNA 243d adh070 8 nuc diff circular 0.050 113 9 slight plain A-DNA 268d gdlb42 12 nuc diff single-kink 0.067 9 9 slight DNA groove binder complex: berenil 287d bdl078 12 nuc diff circular 0.110 113 9 slight plain B-DNA 297d bdlb82 12 nuc diff circular 0.080 122 9 slight modified B-DNA 2dbe gdl009 12 nuc diff single-kink 0.061 9 9 slight DNA groove binder complex: berenil 2dnd gdl003 12 nuc diff circular 0.151 121 9 slight DNA groove binder complex: distamycin 2nll pdr021 18 prot-nuc diff double-kink 0.394 9 9 18 9 slight retinoic acid/thyroid hormone receptors/DNA (regulatory) 302d gdl047 12 nuc diff circular 0.042 127 9 slight DNA groove binder complex: Hoechst 33258 303d gdl048 12 nuc diff circular 0.038 122 9 slight DNA groove binder complex: Hoechst 33258 344d adhb99 8 nuc diff circular 0.072 113 9 slight modified A-DNA 3hts pd0073 12 prot-nuc diff single-kink 0.080 9 9 slight heat shock transcription factor/DNA (regulatory) 403d bdd001 12 nuc diff circular 0.068 123 9 slight DNA groove binder complex: Hoechst 33342 431d bd0006 8 nuc diff circular 0.039 113 9 slight B-DNA with special features 449d dd0009 12 nuc diff circular 0.059 118 9 slight DNA groove binder complex: m-iodo derivative complex of Hoechst 456d bd0009 12 nuc diff circular 0.056 118 9 slight mismatched B-DNA 458d bd0011 12 nuc diff circular 0.106 117 9 slight modified B-DNA 459d dd0014 12 nuc diff circular 0.055 125 9 slight plsin B-DNA 7bna bdl005 12 nuc diff circular 0.074 125 9 slight plain B-DNA 8bna gdl006 12 nuc diff circular 0.141 122 9 slight DNA groove binder complex: Hoechst 33258 119d bdl042 12 nuc diff circular 0.585 101 10 slight plain B-DNA 127d gdl022 12 nuc diff single-kink 0.099 10 10 slight DNA groove binder complex: Hoechst 33258 130d gdlb20 12 nuc diff single-kink 0.149 10 10 slight DNA groove binder complex: Hoechst 33342 170d ------ 12 nuc NMR circular 0.639 110 10 slight DNA self-complementary duplex containing cytosine arabinoside 1a1l pdt061 10 prot-nuc diff circular 0.208 105 10 slight zinc finger/DNA (regulatory) 1apl pdt005 20 prot-nuc diff double-kink 0.193 10 9 20 10 slight MAT alpha 2 homeodomain/DNA (regulatory) 1cf7 pd0045 15 prot-nuc diff double-kink 0.239 7 10 17 10 slight transcription factor e2f-4 dp-2/DNA (regulatory) 1d29 bdl029 12 nuc diff circular 0.065 107 10 slight plain B-DNA 1d46 gdl013 12 nuc diff single-kink 0.071 10 10 slight DNA groove binder complex: Hoechst 33258 1d5y pd0078 20 prot-nuc diff double-kink 0.185 10 10 20 10 slight Rob transcription factor/DNA (regulatory) 1d85 gdlb17 12 nuc diff single-kink 0.126 10 10 slight DNA groove binder complex: netropsin 1d89 bdl047 12 nuc diff circular 0.182 108 10 slight plain B-DNA 1d98 bdl006 12 nuc diff circular 0.059 105 10 slight plain B-DNA 1dne gdl004 12 nuc diff circular 0.243 100 10 slight DNA groove binder complex: netropsin 1dnh gdl002 12 nuc diff single-kink 0.108 10 10 slight DNA groove binder complex: Hoechst 33258 1fym pd0184 12 prot-nuc diff circular 0.010 99 10 slight 1g7z ------ 8 nuc NMR circular 0.126 108 10 slight 1gxp ------ 22 prot-nuc diff circular 0.370 103 10 slight 1hjb pd0204 25 prot-nuc diff circular 0.291 99 10 slight 1i47 bd0049 12 nuc diff single-kink 0.080 10 10 slight 1iu3 pd0297 9 prot-nuc diff circular 0.217 105 10 slight 1jx4 pd0251 13 prot-nuc diff circular 0.129 108 10 slight 1jxl pd0252 12 prot-nuc diff single-kink 0.123 10 10 slight 1k78 pd0259 25 prot-nuc diff double-kink 0.252 10 10 20 10 slight 1kb4 pd0269 18 prot-nuc diff double-kink 0.209 9 10 19 10 slight 1kb6 pd0270 18 prot-nuc diff double-kink 0.227 8 10 18 10 slight 1l5u pd0304 12 prot-nuc diff single-kink 0.127 10 10 slight 1le9 pd0309 11 prot-nuc diff single-kink 0.171 10 10 slight 1lp7 bd0057 12 nuc diff circular 0.058 105 10 slight 226d ------ 10 nuc NMR single-kink 0.174 10 10 slight DNA groov ebinder complex: bizelesin 227d gdl036 12 nuc diff single-kink 0.035 10 10 slight DNA groove binder complex: 2,5-bis(4-guanylphenyl)furan 246d ahh071 8 nuc diff circular 0.069 110 10 slight DNA/RNA hybrid 271d bdl075 12 nuc diff circular 0.053 106 10 slight plain B-DNA 311d gdl052 12 nuc diff single-kink 0.052 10 10 slight DNA groove binder complex: bis-amidinium derivative of Hoechst 33258 365d gdj057 10 nuc diff single-kink 0.088 10 10 slight DNA groove binder complex: imidazole-pyrrole polyamide 448d dd0008 12 nuc diff circular 0.060 110 10 slight DNA groove binder complex: benzimidazole derivative 6bna gdlb05 12 nuc diff single-kink 0.063 10 10 slight DNA groove binder complex: netropsin 8icf pde067 7 prot-nuc diff circular 0.099 100 10 slight DNA polymerase beta/DNA (enzyme) 8ict pde081 7 prot-nuc diff circular 0.092 103 10 slight DNA polymerase beta/DNA (enzyme) 9ice pde094 7 prot-nuc diff circular 0.104 101 10 slight DNA polymerase beta/DNA (enzyme) 188d adh057 8 nuc diff circular 0.111 91 11 moderate plain A-DNA 1a35 pde0143 22 prot-nuc diff double-kink 0.061 11 9 20 11 moderate topoisomerase I/DNA (enzyme) 1a66 ------ 12 prot-nuc NMR single-kink 0.118 11 11 moderate nuclear factor of the activated T cell (NFATC1)/DNA 1b1f ------ 10 prot-nuc model circular 0.155 94 11 moderate RB69 DNA polymerase with T7 DNA polymerase primer/DNA (enzyme) 1bna bdl001 12 nuc diff single-kink 0.070 11 11 moderate plain B-DNA 1bpx pde0126 10 prot-nuc diff single-kink 0.226 11 11 moderate DNA polymerase beta/DNA (enzyme) 1bpy pde0125 10 prot-nuc diff single-kink 0.106 11 11 moderate DNA polymerase beta/DNA (enzyme) 1cez pd0086 13 prot-nuc diff circular 0.327 92 11 moderate T7 RNA polymerase/DNA (enzyme) 1cyz ------ 10 nuc NMR circular 0.264 92 11 moderate DNA groove binder complex: tri-imidazole 1d28 bdl028 12 nuc diff circular 0.088 96 11 moderate plain B-DNA 1dsz pd0115 15 prot-nuc diff double-kink 0.200 11 7 18 11 moderate retinoic receptor RXR-alpha and RAR-alpha/DNA (regulatory) 1du0 pd0014 20 prot-nuc diff double-kink 0.185 11 10 21 11 moderate engrailed homeodomain/DNA (regulatory) 1duf ------ 12 nuc NMR circular 0.006 97 11 moderate DNA 1f4k pd0167 21 prot-nuc diff double-kink 0.124 11 11 22 11 moderate 1fmq dd0034 12 nuc diff single-kink 0.090 11 11 moderate 1fms dd0035 12 nuc diff single-kink 0.075 11 11 moderate 1g8u bd0045 12 nuc diff circular 0.094 97 11 moderate 1g8v bd0046 12 nuc diff circular 0.100 93 11 moderate 1ga5 pd0191 20 prot-nuc diff double-kink 0.377 11 11 22 11 moderate 1h9d pd0210 10 prot-nuc diff single-kink 0.255 11 11 moderate 1hjc pd0205 15 prot-nuc diff single-kink 0.198 11 11 moderate 1i3t bd0048 12 prot-nuc diff single-kink 0.080 11 11 moderate 1mxj ------ 11 nuc NMR single-kink 0.063 11 11 moderate 1n1n ------ 10 nuc NMR single-kink 0.068 11 11 moderate 1n3f pd0361 10 prot-nuc diff single-kink 0.154 11 11 moderate 1nne pd0388 11 prot-nuc diff circular 0.218 90 11 moderate 1onm ------ 11 nuc NMR single-kink 0.050 11 11 moderate 1r3x ------ 8 nuc NMR circular 0.183 94 11 moderate DNA triplex with RNA third strand 219d ------ 10 nuc NMR circular 0.037 96 11 moderate DNA/RNA hybrid 289d gdl045 12 nuc diff single-kink 0.079 11 11 moderate DNA groove binder complex: furan derivative of berenil 2bna bdl002 12 nuc diff single-kink 0.067 11 11 moderate plain B-DNA 2ezg ------ 12 prot-nuc NMR single-kink 0.069 11 11 moderate human HMG-I(Y) third domain/DNA 316d ddh071 8 nuc diff circular 0.231 96 11 moderate DNA intercalation complex: F8-actinomycin 388d bdlb84 12 nuc diff single-kink 0.076 11 11 moderate modified B-DNA 3kbd ------ 16 nuc NMR single-kink 0.161 11 11 moderate DNA NF-kappa B binding site 453d dd0013 12 nuc diff circular 0.083 98 11 moderate DNA groove binder complex: bis-benzimidazole 195d gdl030 12 nuc diff circular 0.096 83 12 moderate DNA groove binder complex: netropsin 1a1i pdt059 10 prot-nuc diff single-kink 0.230 12 12 moderate zinc finger (ZIF268)/DNA (regulatory) 1bbx ------ 12 prot-nuc NMR single-kink 0.692 12 12 moderate Sso7d protein/DNA 1bdv pd0025 21 prot-nuc diff circular 0.392 84 12 moderate Arc repressor P22/DNA (regulatory) 1bwt ------ 10 nuc NMR circular 0.077 83 12 moderate plain B-DNA 1d45 gdl012 12 nuc diff single-kink 0.069 12 12 moderate DNA groove binder complex: Hoechst 33258 1dc0 bd0026 12 nuc diff circular 0.052 80 12 moderate A-DNA/B-DNA intermediate 1dcv bd0028 10 nuc diff single-kink 0.178 12 12 moderate plain B-DNA 1gtw ------ 15 prot-nuc diff single-kink 0.199 12 12 moderate 1hhx ------ 9 nuc NMR circular 0.105 82 12 moderate 1hry ------ 8 prot-nuc NMR circular 0.196 80 12 moderate sex reversal Y-chromosomal (SRY) protein/DNA 1hrz ------ 8 prot-nuc NMR circular 0.118 82 12 moderate sex reversal Y-chromosomal (SRY) protein/DNA 1ig9 pd0212 13 prot-nuc diff single-kink 0.106 12 12 moderate 1k8j ------ 14 nuc NMR double-kink 0.174 11 12 23 12 moderate 1kkv ------ 10 nuc NMR circular 0.059 84 12 moderate 1ksx pd0282 18 prot-nuc diff double-kink 0.111 12 12 24 12 moderate 1mis ------ 8 nuc NMR circular 0.058 83 12 moderate RNA duplex with tandem G:A mismatches 1mnv dd0053 9 prot-nuc diff circular 0.212 80 12 moderate 1mq3 pd0344 10 prot-nuc diff single-kink 0.077 12 12 moderate 1msf ------ 11 prot-nuc NMR single-kink 0.323 12 12 moderate c-MYB/DNA 1n4l ------ 16 prot-nuc diff double-kink 0.043 12 10 22 12 moderate 1n56 pd0362 12 prot-nuc diff circular 0.213 88 12 moderate 1njy pd0374 11 prot-nuc diff circular 0.232 88 12 moderate 1nkc pd0384 15 prot-nuc diff circular 0.104 82 12 moderate 1p47 pd0424 21 prot-nuc diff double-kink 0.286 7 12 19 12 moderate 1puf pd0455 19 prot-nuc diff double-kink 0.191 11 12 23 12 moderate 1ql5 ------ 10 nuc NMR single-kink 0.208 12 12 moderate DNA with T5-T6 photoadduct 1qsx ------ 12 nuc NMR single-kink 0.065 12 12 moderate DNA groove binder complex: Hoechst 33258 (2:1) 1s9m ------ 8 prot-nuc model circular 0.196 80 12 moderate human SOX9/DNA 1sx9 ------ 8 prot-nuc model circular 0.196 80 12 moderate human SOX9/DNA 1tf3 ------ 15 prot-nuc NMR single-kink 0.177 12 12 moderate transcription factor IIIA (TFIIIA) fingers 1-3/DNA 1tf6 pdt065 30 prot-nuc diff double-kink 1.040 12 12 24 12 moderate six NH2-terminal zinc fingers of transcription factor III (TFIIIA)/RNA 2d95 adh027 8 nuc diff circular 0.069 81 12 moderate plain A-DNA 2dgc pdt029 18 prot-nuc diff double-kink 0.099 12 12 24 12 moderate GCN4-bZIP protein/DNA (regulatory) 358d gdjb55 10 nuc diff single-kink 0.038 12 12 moderate DNA groove binder complex: netropsin (end-to-end binding of two netropsins) 360d gdl056 12 nuc diff single-kink 0.088 12 12 moderate DNA groove binder complex: ethyl derivative of furamidin 389d bdlb85 12 nuc diff single-kink 0.080 12 12 moderate modified B-DNA 3bdp pde0132 10 prot-nuc diff circular 0.235 81 12 moderate DNA polymerase I/DNA (enzyme) 3pvi pd0006 12 prot-nuc diff single-kink 0.870 12 12 moderate restriction endonuclease PvuII/DNA (enzyme) 455d bd0008 12 nuc diff circular 0.094 84 12 moderate B-DNA with special features 8icg pde068 7 prot-nuc diff circular 0.111 83 12 moderate DNA polymerase beta/DNA (enzyme) 9bna bdl020 12 nuc diff single-kink 0.066 12 12 moderate plain B-DNA 9icb pde092 7 prot-nuc diff circular 0.129 81 12 moderate DNA polymerase beta/DNA (enzyme) 115d adhb11 8 nuc diff circular 0.076 78 13 moderate modified A-DNA 193d ------ 8 nuc NMR circular 0.297 79 13 moderate DNA intercalation complex: quinimycin 199d ------ 9 nuc NMR circular 0.137 75 13 moderate DNA groove binder complex: monoalkylated mitomycin C 1a0a pdt046 17 prot-nuc diff single-kink 0.370 13 13 moderate PHO4 bHLH domain/DNA (regulatory) 1awc pdt048 20 prot-nuc diff double-kink 0.214 13 8 21 13 moderate GABPalpha/beta ETS domain-ankyrin repeat heterodimer/DNA (regulatory) 1bdt pd0035 21 prot-nuc diff circular 0.317 77 13 moderate Arc repressor P22/DNA (regulatory) 1bp7 pd0026 24 prot-nuc diff circular 0.375 78 13 moderate group I mobile intron endonuclease I-Crei/DNA 1dc1 pd0085 11 prot-nuc diff circular 0.681 79 13 moderate 1dfm pd0101 14 prot-nuc diff double-kink 0.113 13 13 26 13 moderate restriction endonuclease BglII/DNA (enzyme) 1eyu pd0147 11 prot-nuc diff single-kink 0.352 13 13 moderate restriction endonuclease PvuII/DNA (enzyme) 1gcc ------ 11 prot-nuc NMR single-kink 0.064 13 13 moderate GCC-box binding domain/DNA 1glu pdrc01 18 prot-nuc diff double-kink 0.078 13 12 25 13 moderate glucocorticoid receptor/DNA (regulatory) 1gu4 ------ 15 prot-nuc diff single-kink 0.153 13 13 moderate 1hlz pd0193 20 prot-nuc diff double-kink 0.385 13 9 22 13 moderate 1ijw pd0213 11 prot-nuc diff single-kink 0.208 13 13 moderate 1io4 pd0198 25 prot-nuc diff double-kink 0.277 13 7 20 13 moderate 1jey pd0220 14 prot-nuc diff double-kink 0.155 13 13 26 13 moderate 1jj6 pd0228 12 prot-nuc diff circular 0.202 77 13 moderate 1jt0 pd0249 28 prot-nuc diff double-kink 0.777 12 13 25 13 moderate 1k7a pd0261 13 prot-nuc diff circular 0.237 78 13 moderate 1l3s pd0300 9 prot-nuc diff single-kink 0.088 13 13 moderate 1l3v pd0303 15 prot-nuc diff circular 0.331 73 13 moderate 1n37 ------ 8 nuc NMR circular 0.115 74 13 moderate 1n3e pd0360 10 prot-nuc diff single-kink 0.063 13 13 moderate 1nev ------ 10 nuc NMR circular 0.173 78 13 moderate 1qln ph0002 13 prot-nuc diff double-kink 0.310 13 12 25 13 moderate T7 RNA polymerase (T7 RNAP) initiation/DNA/RNA (enzyme) 1qxb ------ 12 nuc NMR single-kink 0.173 13 13 moderate 1yuj ------ 11 prot-nu NMR single-kink 0.097 13 13 moderate GAGA factor (GAGA-DBD)/DNA (regulatory) 204d ------ 8 nuc NMR circular 0.344 75 13 moderate monoadducted and crosslinked DNA 216d ghhb34 8 nuc diff circular 0.230 74 13 moderate DNA/RNA hybrid 2hdd pdt043 20 prot-nuc diff double-kink 0.138 7 13 20 13 moderate engrailed homeodomain/DNA (regulatory) 306d gdlb51 8 nuc diff circular 0.181 74 13 moderate DNA groove binder complex: distamycin 370d adh0104 8 nuc diff single-kink 0.137 13 13 moderate plain A-DNA 372d adh0106 8 nuc diff circular 0.088 79 13 moderate plain A-DNA 3ana adh007 8 nuc diff circular 0.149 79 13 moderate plain A-DNA 421d dr0003 8 nuc diff single-kink 0.071 13 13 moderate DNA/RNA hybrid 5bna ddl017 12 nuc diff circular 0.148 79 13 moderate DNA complex with other drug binding motif 6gat ------ 13 prot-nuc NMR double-kink 0.058 10 13 22 13 moderate AREA protein/DNA 8icx pde085 7 prot-nuc diff circular 0.209 78 13 moderate DNA polymerase beta/DNA (enzyme) 9icv pde0111 7 prot-nuc diff circular 0.190 74 13 moderate DNA polymerase beta/DNA (enzyme) 0an8 adh010 8 nuc diff circular 0.067 67 14 moderate plain A-DNA 159d gdhb25 8 nuc diff circular 0.211 72 14 moderate DNA groove binder complex: distamycin 194d bdl059 12 nuc diff single-kink 0.104 14 14 moderate plain B-DNA 1a1j pdt060 10 prot-nuc diff single-kink 0.170 14 14 moderate zinc finger (ZIF268)/DNA (regulatory) 1a3q pdr032 11 prot-nuc diff circular 0.211 69 14 moderate transcription factor NF-kappa B p50 homodimer/DNA (regulatory) 1bvo ------ 15 prot-nuc diff double-kink 0.240 14 14 28 14 moderate 1d93 adh020 8 nuc diff circular 0.113 67 14 moderate plain A-DNA 1d99 bdl011 12 nuc diff single-kink 0.088 14 14 moderate mismatched B-DNA 1dsm ------ 11 nuc NMR circular 0.244 72 14 moderate DNA groove binder complex: duocarmycin SA 1ea4 ------ 20 prot-nuc diff circular 0.159 70 14 moderate 1g4d ------ 16 prot-nuc NMR double-kink 0.117 14 10 24 14 moderate 1gu5 ------ 15 prot-nuc diff single-kink 0.080 14 14 moderate 1h6f pd0311 22 prot-nuc diff double-kink 0.366 13 14 27 14 moderate 1hg9 ------ 9 prot-nuc NMR single-kink 0.117 14 14 moderate 1iv6 ------ 13 prot-nuc NMR circular 0.184 68 14 moderate 1jko pd0234 12 prot-nuc diff circular 0.282 69 14 moderate 1jkp pd0235 12 prot-nuc diff circular 0.223 70 14 moderate 1jkr pd0237 12 prot-nuc diff circular 0.189 67 14 moderate 1llm pd0312 12 prot-nuc diff single-kink 0.138 14 14 moderate 1mjm pd0245 10 prot-nuc diff circular 0.136 67 14 moderate methionine repressor/DNA (regulatory) 1njx pd0373 11 prot-nuc diff single-kink 0.205 14 14 moderate 1nk7 pd0380 9 prot-nuc diff single-kink 0.207 14 14 moderate 1nkp pd0386 18 prot-nuc diff double-kink 0.176 11 14 25 14 moderate 1opq ------ 12 nuc NMR circular 0.189 69 14 moderate 1qby ------ 11 nuc NMR single-kink 0.215 14 14 moderate DNA intercalation complex: benzo[A]anthracene derivative 1qcu ar0020 11 nuc diff circular 0.127 70 14 moderate plain A-RNA 1vj4 ------ 8 nuc diff circular 0.067 67 14 moderate 1zqm pde039 7 prot-nuc diff circular 0.305 67 14 moderate DNA polymerase beta/DNA (enzyme) 369d adh0103 8 nuc diff circular 0.210 71 14 moderate plain A-DNA 426d bd0004 11 nuc diff circular 0.181 70 14 moderate plain B-DNA 4bdp pde0133 11 prot-nuc diff single-kink 0.131 14 14 moderate DNA polymerase I/DNA (enzyme) 4dnb bdlb13 12 nuc diff single-kink 0.078 14 14 moderate modified B-DNA 1a02 pdt050 18 prot-nuc diff single-kink 0.101 15 15 moderate NFAT/Fos-Jun/DNA 1a1f pdt055 10 prot-nuc diff single-kink 0.252 15 15 moderate zinc finger (ZIF268)/DNA 1b0s ------ 10 nuc NMR circular 0.144 64 15 moderate DNA groove binder complex: tri-imidazole 1bg1 pd0028 17 prot-nuc diff circular 0.203 64 15 moderate transcription factor Stat3-beta/DNA (regulatory) 1bwg ------ 14 nuc NMR double-kink 0.155 15 8 23 15 moderate DNA triplex 1d42 ------ 8 nuc NMR circular 0.210 64 15 moderate DNA 1h8a pd0290 25 prot-nuc diff double-kink 0.218 15 14 29 15 moderate 1hcq pdrc03 17 prot-nuc diff double-kink 0.133 13 15 28 15 moderate estrogen receptor/DNA (regulatory) 1j1v pd0371 13 prot-nuc diff double-kink 0.226 14 15 29 15 moderate 1k9h ------ 14 nuc NMR double-kink 0.086 12 15 27 15 moderate 1lq1 pd0314 15 prot-nuc diff double-kink 0.113 14 15 29 15 moderate 1mjp pd0247 9 prot-nuc diff circular 0.105 64 15 moderate methionine repressor/DNA (regulatory) 1nwq pd0395 20 prot-nuc diff double-kink 0.318 15 12 27 15 moderate 1qaj pd0134 8 prot-nuc diff circular 0.126 64 15 moderate moloney murine leukemia virus reverse transcriptase/DNA (enzyme) 1rtd pd0023 21 prot-nuc diff double-kink 0.160 15 11 26 15 moderate HIV-1 reverse transcriptase/DNA (enzyme) 1saa ------ 16 nuc NMR double-kink 0.113 15 14 29 15 moderate DNA 1skp ------ 11 nuc NMR single-kink 0.144 15 15 moderate DNA 1wai ------ 25 prot-nuc model double-kink 1.153 15 8 23 15 moderate DNA polymerase from bacteriophage RB69 1yui ------ 11 prot-nuc NMR single-kink 0.118 15 15 moderate GAGA factor (GAG-DBD)/DNA (regulatory) 1zqh pde034 7 prot-nuc diff circular 0.364 63 15 moderate DNA polymerase beta/DNA (enzyme) 304d gdlb49 8 nuc diff circular 0.270 66 15 moderate DNA groove binder complex: distamycin 3hdd pd0016 20 prot-nuc diff double-kink 0.151 10 15 25 15 moderate engrailed homeodomain/DNA (regulatory) 6cro pdr053 19 prot-nuc diff circular 0.184 64 15 moderate phage lambda cro protein/DNA (regulatory) 7gat ------ 13 prot-nuc NMR circular 0.121 64 15 moderate AREA protein/DNA 8ici pde070 7 prot-nuc diff circular 0.265 64 15 moderate DNA polymerase beta/DNA (enzyme) 8ick pde072 7 prot-nuc diff circular 0.315 63 15 moderate DNA polymerase beta/DNA (enzyme) 9icc pde093 7 prot-nuc diff circular 0.129 66 15 moderate DNA polymerase beta/DNA (enzyme) 9ich pde097 7 prot-nuc diff circular 0.141 64 15 moderate DNA polymerase beta/DNA (enzyme) 104d ------ 12 nuc NMR circular 0.111 59 16 moderate DNA/RNA hybrid 197d adh059 8 nuc diff single-kink 0.129 16 16 moderate plain A-DNA 1d2i pd0153 14 prot-nuc diff double-kink 0.129 13 16 29 16 moderate restriction endonuclease BglII/DNA (enzyme) 1dnk pde005 7 prot-nuc diff circular 0.153 58 16 moderate DNase I/DNA (enzyme) 1drr ------ 10 nuc NMR single-kink 0.104 16 16 moderate DNA/RNA hybrid 1egw pd0121 16 prot-nuc diff double-kink 0.139 16 16 32 16 moderate myocyte enhancer factor-2 (MEF2A)/DNA 1hdd pdt004 20 prot-nuc diff double-kink 0.247 10 16 27 16 moderate engrailed homeodomain/DNA (regulatory) 1i3j pd0200 20 prot-nuc diff double-kink 0.145 9 16 25 16 moderate 1k9l ------ 14 nuc NMR double-kink 0.122 16 16 32 16 moderate 1m97 ------ 9 prot-nuc model circular 0.208 59 16 moderate 1mdm pd0338 25 prot-nuc diff double-kink 0.162 13 16 29 16 moderate 1mdy pdt016 14 prot-nuc diff double-kink 0.266 16 16 32 16 moderate MyoD basic-helix-loop-helix (bHLH) domain/DNA (regulatory) 1mow pd0342 22 prot-nuc diff circular 0.493 58 16 moderate 1njz pd0375 10 prot-nuc diff circular 0.531 60 16 moderate 1oka ------ 9 nuc NMR single-kink 0.146 16 16 moderate DNA/RNA hybrid 1sdr arl062 12 nuc diff single-kink 0.102 16 16 moderate plain A-RNA 1tn9 ------ 13 prot-nuc NMR circular 0.446 59 16 moderate integrase/DNA (enzyme) 1tro pdr009 37 prot-nuc diff double-kink 0.717 15 16 31 16 moderate tryptophan repressor/DNA (regulatory) 1ubd pdt038 20 prot-nuc diff double-kink 0.179 16 10 26 16 moderate Yin-Yang 1 (YY1) protein/DNA 2gat ------ 16 prot-nuc NMR double-kink 0.097 16 8 24 16 moderate erythroid transcription factor GATA-1/DNA (regulatory) 305d gdlb50 8 nuc diff circular 0.276 61 16 moderate DNA groove binder complex: distamycin 3bam pd0031 10 prot-nuc diff circular 1.146 60 16 moderate restriction endonuclease BamHI/DNA (enzyme) 3gat ------ 16 prot-nuc NMR double-kink 0.130 12 16 28 16 moderate erythroid transcription factor GATA-1/DNA (regulatory) 9icf pde095 7 prot-nuc diff circular 0.109 58 16 moderate DNase I/DNA (enzyme) 1bf5 pdr052 17 prot-nuc diff circular 0.549 56 17 moderate tyrosine phosphorylated STAT-1 dimer/DNA (regulatory) 1d78 adh038 8 nuc diff circular 0.088 56 17 moderate plain A-DNA 1dh3 pd0102 20 prot-nuc diff double-kink 0.226 17 14 31 17 moderate 1dsi ------ 11 nuc NMR single-kink 0.463 17 17 moderate DNA groove binder complex: alkylated duocarmycin SA 1f4s ------ 10 prot-nuc NMR circular 0.769 56 17 moderate 1h89 pd0289 25 prot-nuc diff double-kink 0.294 17 10 27 17 moderate 1hf0 pd0274 22 prot-nuc diff double-kink 0.417 6 17 23 17 moderate 1ig4 ------ 12 prot-nuc NMR circular 0.150 54 17 moderate 1j47 ------ 14 prot-nuc NMR circular 0.113 54 17 moderate 1kbd ------ 16 nuc NMR double-kink 0.186 10 17 28 17 moderate 16 base-pair Dna related to the Hiv-1 kappa B site: 1lei pd0310 16 prot-nuc diff double-kink 0.144 17 14 31 17 moderate 1lv5 pd0317 10 prot-nuc diff circular 0.514 54 17 moderate 1mey pdtb41 24 prot-nuc diff double-kink 0.720 11 17 29 17 moderate designed zinc finger/DNA (regulatory) 1o3s pd0400 11 prot-nuc diff circular 0.515 55 17 moderate 1qss pd0066 12 prot-nuc diff single-kink 0.287 17 17 moderate DNA polymerase I (Klenow fragment)/DNA (enzyme) 1rmx ------ 10 nuc NMR circular 0.175 54 17 moderate 1rn9 ------ 10 nuc NMR single-kink 0.362 17 17 moderate 1rvh ------ 12 nuc NMR circular 0.224 57 17 moderate 1zqe pde031 7 prot-nuc diff circular 0.391 55 17 moderate DNA polymerase beta/DNA (enzyme) 217d ghhb35 8 nuc diff circular 0.217 57 17 moderate DNA/RNA hybrid 281d adh076 8 nuc diff circular 0.053 57 17 moderate plain A-DNA 317d adh078 8 nuc diff circular 0.168 54 17 moderate plain A-DNA 116d adl045 12 nuc diff circular 0.009 51 18 moderate plain A-DNA 132d ------ 12 nuc NMR circular 0.138 53 18 moderate self-complementary duplex with the HpaI restriction site 144d gdlb24 12 nuc diff circular 0.189 53 18 moderate DNA groove binder complex: bis-quaternary ammonium compound SN6999 1al5 ------ 12 nuc NMR circular 0.027 53 18 moderate RNA 1b8i pd0042 13 prot-nuc diff single-kink 0.173 18 18 moderate ultrabithorax (UBX)/extradenticle (EXD)/DNA (regulatory) 1bn9 ------ 15 nuc NMR double-kink 0.221 18 17 35 18 moderate DNA 1d79 adh039 8 nuc diff circular 0.089 53 18 moderate plain A-DNA 1dmu pd0108 17 prot-nuc diff double-kink 0.304 18 15 33 18 moderate restriction endonuclease BglI/DNA (enzyme) 1drg pd0113 15 prot-nuc diff double-kink 0.272 18 16 34 18 moderate 1dsa ------ 11 nuc NMR circular 0.550 52 18 moderate DNA groove binder complex: duocarmycin SA 1hlo pdt042 11 prot-nuc diff circular 0.292 52 18 moderate max/DNA (regulatory) 1ig7 pd0211 13 prot-nuc diff single-kink 0.185 18 18 moderate 1lmb pdr010 19 prot-nuc diff double-kink 0.388 18 18 36 18 moderate lambda repressor/DNA (regulatory) 1m77 ad0026 10 nuc diff circular 0.271 50 18 moderate 1n4b ------ 11 nuc NMR circular 1.847 51 18 moderate 1nk5 pd0378 13 prot-nuc diff double-kink 0.270 18 14 32 18 moderate 1p7d pd0428 13 prot-nuc diff circular 0.110 50 18 moderate 1pdn pdr018 13 prot-nuc diff single-kink 0.280 18 18 moderate paired domain protein (PRD)/DNA (regulatory) 1pik ------ 8 nuc NMR circular 0.198 52 18 moderate DNA intercalation complex: esperamicin A1 1qar ------ 18 prot-nuc model double-kink 0.144 18 15 33 18 moderate lambda P22 and 434 repressors/DNA (regulatory) 1rep pd0107 21 prot-nuc diff double-kink 0.276 9 18 27 18 moderate replication initiator protein (RepE)/DNA (regulatory) 260d adj075 10 nuc diff single-kink 0.111 18 18 moderate plain A-DNA 3cro pdr001 19 prot-nuc diff double-kink 0.145 18 18 36 18 moderate phage 434 cro protein/DNA (regulatory) 4gat ------ 13 prot-nuc NMR single-kink 0.108 18 18 moderate AREA protein/DNA 8icl pde073 7 prot-nuc diff circular 0.117 51 18 moderate DNA polymerase beta/DNA (enzyme) 171d ------ 12 nuc NMR circular 0.398 49 19 moderate self-complementary DNA 1a6y pd0008 20 prot-nuc diff double-kink 0.368 19 13 32 19 moderate orphan nuclear receptor RevErb/DNA (regulatory) 1axv ------ 11 nuc NMR single-kink 0.467 19 19 moderate DNA intercalation complex: benzo[A]pyrene derivative 1ddn pd0004 32 prot-nuc diff double-kink 1.259 19 19 38 19 moderate diphtheria toxin repressor/DNA (regulatory) 1dno ah0007 10 nuc diff single-kink 0.128 19 19 moderate DNA/RNA hybrid 1esg pd0139 8 prot-nuc diff circular 0.102 48 19 moderate restriction endonuclease BamHI/DNA (enzyme) 1lli pdr016 19 prot-nuc diff double-kink 0.413 18 19 37 19 moderate plain A-DNA 1m6x pd0336 12 prot-nuc diff single-kink 0.153 19 19 moderate 1mjo pd0246 18 prot-nuc diff double-kink 0.112 19 17 36 19 moderate methionine repressor/DNA (regulatory) 1p3x ------ 8 nuc NMR circular 0.321 47 19 moderate DNA triplex with 1-propynyl in the third strand 1qtm pd0067 12 prot-nuc diff single-kink 0.235 19 19 moderate DNA polymerase I/DNA (enzyme) 2ana adh006 8 nuc diff circular 0.079 49 19 moderate plain A-DNA 2pvi pd0011 12 prot-nuc diff single-kink 0.460 19 19 moderate restriction endonuclease PvuII/DNA (enzyme) 334d gdj054 10 nuc diff single-kink 0.309 19 19 moderate DNA groove binder complex: lexitropsin 395d adj0112 10 nuc diff single-kink 0.051 19 19 moderate plain A-DNA 479d ah0005 9 nuc diff single-kink 0.521 19 19 moderate DNA/RNA hybrid 117d adl046 12 nuc diff circular 0.113 45 20 moderate plain A-DNA 1bp8 ------ 8 nuc NMR circular 0.035 44 20 moderate DNA groove binder complex: mithramycin 1cr3 ------ 11 nuc NMR circular 0.262 44 20 moderate DNA intercalation complex: benzo[g]chrysene 1d3x ------ 8 nuc NMR circular 0.155 45 20 moderate DNA triplex 1dcr bd0027 9 nuc diff circular 0.301 46 20 moderate 1dgc pdt007 18 prot-nuc diff double-kink 0.138 20 20 40 20 moderate GCN4-bZIP protein/DNA (regulatory) 1dxn ------ 12 nuc NMR single-kink 0.608 20 20 moderate DNA/RNA hybrid 1g9z pd0190 10 prot-nuc diff single-kink 0.172 20 20 moderate 1h9t pd0232 19 prot-nuc diff single-kink 0.369 20 20 moderate 1hw2 pd0199 18 prot-nuc diff double-kink 0.246 20 13 33 20 moderate 1ma7 pd0337 16 prot-nuc diff double-kink 0.289 20 18 38 20 moderate 1mj2 pd0173 18 prot-nuc diff double-kink 0.124 20 15 35 20 moderate methionine repressor/DNA (regulatory) 1n5y pd0365 20 prot-nuc diff double-kink 0.228 20 11 31 20 moderate 1n6q pd0364 20 prot-nuc diff double-kink 0.229 20 8 28 20 moderate 1p4e pd0425 12 prot-nuc diff single-kink 0.159 20 20 moderate 1qes ------ 8 nuc NMR circular 0.261 46 20 moderate RNA with tandem GU mismatches 1qsy pd0065 12 prot-nuc diff single-kink 0.238 20 20 moderate DNA polymerase I (Klenow fragment)/DNA (enzyme 1trr pdr013 32 prot-nuc diff double-kink 1.070 19 20 39 20 moderate tryptophan repressor/DNA (regulatory) 1xbr pdt045 24 prot-nuc diff double-kink 1.028 20 10 30 20 moderate T domain/DNA (regulatory) 2bpg pde012 7 prot-nuc diff circular 0.350 44 20 moderate DNA polymerase beta/DNA (enzyme) 2dnj pde006 14 prot-nuc diff double-kink 0.351 20 20 40 20 moderate DNase I/DNA (enzyme) 2ktq pd0030 12 prot-nuc diff single-kink 0.276 20 20 moderate large fragment of DNA polymerase I/DNA (enzyme) 2ram pdr051 20 prot-nuc diff double-kink 0.303 20 20 40 20 moderate (regulatory) 327d adjb88 10 nuc diff single-kink 0.221 20 20 moderate modified A-DNA 384d adjb111 10 nuc diff single-kink 0.519 20 20 moderate modified A-DNA 3crx pd0104 17 prot-nuc diff double-kink 0.317 17 20 37 20 moderate Cre recombinase/DNA (enzyme) 405d ar0002 16 nuc diff double-kink 0.134 20 18 38 20 moderate mismatched A-RNA 442d dd0003 12 nuc diff single-kink 0.331 20 20 moderate DNA groove binder complex: benzimidazole derivative 443d dd0004 12 nuc diff single-kink 0.267 20 20 moderate NF-kappa B p65 (RelA) homodimer/DNA (regulatory) 464d ar0014 7 nuc diff circular 0.168 46 20 moderate mismatched A-RNA 4ktq pd0033 12 prot-nuc diff single-kink 0.276 20 20 moderate large fragemnt of DNA polymerase I/DNA (enzyme) 6pax pd0050 24 prot-nuc diff double-kink 0.211 20 5 25 20 moderate human Pax-6 paired domain/DNA 9icg pde096 7 prot-nuc diff circular 0.098 46 20 moderate DNA polymerase beta/DNA (enzyme) 126d bdj051 10 nuc diff single-kink 0.500 21 21 moderate plain B-DNA 1cma pdr008 18 prot-nuc diff double-kink 0.154 20 21 41 21 moderate methionine repressor/DNA (regulatory) 1d70 ------ 8 nuc NMR circular 0.078 42 21 moderate DNA octamer conatining the Pribnow box 1flo pd0178 12 prot-nuc diff single-kink 0.129 21 21 moderate 1gfx ------ 43 prot-nuc model double-kink 1.718 20 21 41 21 moderate lambda repressor/DNA (regulatory) 1gtc ------ 8 nuc NMR circular 0.036 42 21 moderate DNA/RNA hybrid 1j5g ------ 43 prot-nuc model double-kink 1.713 20 21 41 21 moderate 1lcd ------ 11 prot-nuc NMR circular 0.137 43 21 moderate lac repressor headpiece/DNA 1mjq pd0248 18 prot-nuc diff double-kink 0.134 19 21 40 21 moderate methionine repressor/DNA (regulatory) 1qai pd0126 8 prot-nuc diff circular 0.398 43 21 moderate moloney murine leukemia virus reverse transcriptase/DNA (enzyme) 218d bdlb58 12 nuc diff single-kink 0.145 21 21 moderate mismatched B-DNA 2or1 pdr004 19 prot-nuc diff double-kink 0.176 21 18 39 21 moderate phage 434 repressor/DNA (regulatory) 404d ah0001 10 nuc diff single-kink 0.232 21 21 moderate DNA/RNA hybrid 438d ar0011 8 nuc diff single-kink 0.262 21 21 moderate mismatched A-RNA 107d ------ 7 nuc NMR circular 0.608 41 22 moderate DNA groove binder complex: duocarmicyn 168d ahjs55 10 nuc diff circular 0.119 40 22 moderate DNA/RNA hybrid 173d ddh048 8 nuc diff circular 0.770 41 22 moderate DNA intercalation complex: actinomycin D 1au7 pdr034 24 prot-nuc diff double-kink 0.377 22 21 43 22 moderate Pit-1 POU domain homodimer/DNA (regulatory) 1b72 pd0075 19 prot-nuc diff double-kink 0.295 18 22 40 22 moderate HoxB1-Pbx1 heterodimer/DNA (regulatory) 1bdz ------ 14 nuc NMR double-kink 0.157 22 22 44 22 moderate DNA with the recognition sequence of the Myb protein 1d96 ahj015 10 nuc diff single-kink 0.105 22 22 moderate DNA/RNA hybrid 1djd ------ 11 nuc NMR single-kink 0.771 22 22 moderate DNA intercalation complex: 8,9,10,11-tetrahydro-benzo[A]anthracene-8,9,10-triol 1ecr pdte01 14 prot-nuc diff double-kink 0.243 22 13 35 22 moderate replication terminator protein (Tus)/DNA (regulatory) 1f5e ------ 10 prot-nuc NMR single-kink 0.543 22 22 moderate 1huo pd0196 7 prot-nuc diff circular 0.508 41 22 moderate 1i7v ------ 11 nuc NMR single-kink 0.701 22 22 moderate 1ign pdt035 18 prot-nuc diff double-kink 0.259 22 9 31 22 moderate RAP1/DNA (structural) 1kln pde004 9 prot-nuc diff circular 0.254 40 22 moderate DNA polymerase I (Klenow fragment)/DNA (enzyme) 1kqq ------ 15 prot-nuc NMR single-kink 0.248 22 22 moderate 1l3m ------ 12 prot-nuc NMR circular 0.516 41 22 moderate 1lcc ------ 11 prot-nuc NMR single-kink 0.207 22 22 moderate lac repressor headpiece/DNA 1n8c ------ 11 nuc NMR single-kink 0.611 22 22 moderate 1o9m ------ 8 nuc diff circular 0.367 40 22 moderate 1par pdr012 21 prot-nuc diff double-kink 0.489 22 11 33 22 moderate Arc repressor P22/DNA (regulatory) 1per pdr015 19 prot-nuc diff double-kink 0.188 22 19 41 22 moderate 434 repressor/DNA (regulatory) 1qp9 pd0148 20 prot-nuc diff double-kink 0.400 22 10 32 22 moderate 1rpe pdr011 19 prot-nuc diff double-kink 0.250 22 20 42 22 moderate 434 repressor/DNA (regulatory) 1tsr pdr022 20 prot-nuc diff single-kink 0.287 22 22 moderate p53 tumor suppressor/DNA (regulatory) 1tup pdr027 20 prot-nuc diff single-kink 0.282 22 22 moderate p53 tumor suppressor/DNA (regulatory) 1zqq pde043 7 prot-nuc diff circular 0.609 40 22 moderate DNA polymerase beta/DNA (enzyme) 368d adh0102 8 nuc diff circular 0.095 41 22 moderate plain A-DNA 9ant pd0007 14 prot-nuc diff double-kink 0.220 22 13 35 22 moderate antennapedia homeodomain/DNA (regulatory) 141d ------ 13 nuc NMR single-kink 0.070 23 23 moderate B-DNA 1d18 ------ 8 nuc NMR circular 0.341 39 23 moderate DNA 1lwa ------ 15 nuc NMR double-kink 0.468 23 20 43 23 moderate 1pvi pde017 12 prot-nuc diff single-kink 1.034 23 23 moderate restriction endonuclease PvuII/DNA (enzyme) 1rna arn035 14 nuc diff single-kink 0.080 23 23 moderate plain A-RNA 1ttd ------ 12 nuc NMR single-kink 0.190 23 23 moderate DNA dodecamer duplex containing a cis-synthymine cyclobutane dimer 212d adj065 10 nuc diff circular 0.072 38 23 moderate plain A-DNA 333d arhb90 8 nuc diff circular 0.065 39 23 moderate mismatched A-RNA 378d gdh060 8 nuc diff circular 0.217 39 23 moderate DNA groove binder complex: distamycin 5gat ------ 13 prot-nuc NMR single-kink 0.173 23 23 moderate AREA protein/DNA 138d adj051 10 nuc diff single-kink 0.240 24 24 moderate plain A-DNA 142d ------ 13 nuc NMR circular 0.116 36 24 moderate DNA 1cit pd0046 16 prot-nuc diff double-kink 0.287 24 19 43 24 moderate orphan nuclear receptor NGFI-B/DNA (regulatory) 1coc ------ 12 nuc NMR single-kink 0.262 24 24 moderate DNA dodecamer duplex containing a cis-synthymine cyclobutane dimer 1dnz ad0006 10 nuc diff circular 0.121 36 24 moderate plain A-DNA 1dp7 pd0111 16 prot-nuc diff double-kink 0.366 24 24 48 24 moderate human regulatory factor X1 (hRFX1)/DNA (regulatory) 1e3o pd0225 11 prot-nuc diff single-kink 0.563 24 24 moderate 1fyy ------ 12 nuc NMR circular 1.380 37 24 moderate 1h88 pd0288 25 prot-nuc diff double-kink 0.341 24 13 37 24 moderate 1lfu ------ 14 prot-nuc NMR double-kink 0.662 24 16 40 24 moderate 1nk6 pd0379 8 prot-nuc diff single-kink 0.264 24 24 moderate 222d ahj068 10 nuc diff single-kink 0.171 24 24 moderate DNA/RNA hybrid 2d55 ddh037 8 nuc diff circular 1.207 36 24 moderate DNA intercalation complex: actinomycin D 2drp pdt011 18 prot-nuc diff double-kink 0.191 24 14 38 24 moderate two zinc finger binding domain of tramtrack protein/DNA (regulatory) 2hmi pd0005 18 prot-nuc diff double-kink 0.432 24 17 41 24 moderate HIV-1 reverse transcriptase/DNA (enzyme) 349d adj0103 10 nuc diff single-kink 0.397 24 24 moderate plain A-DNA 3ktq pd0032 12 prot-nuc diff single-kink 0.265 24 24 moderate large fragment of polymerase I/DNA (enzyme) 434d ar0009 7 nuc diff circular 0.186 37 24 moderate mismatched A-RNA 466d ar0013 7 nuc diff circular 0.187 37 24 moderate plain A-RNA 103d ------ 12 nuc NMR single-kink 0.848 25 25 moderate DNA 137d adj050 10 nuc diff single-kink 0.312 25 25 moderate plain A-DNA 140d ------ 13 nuc NMR circular 0.138 35 25 moderate A-DNA 175d ------ 10 nuc NMR circular 0.441 34 25 moderate self-complementary duplex DNA containing sheared GA pairs 1ahd ------ 14 prot-nuc NMR double-kink 0.412 25 12 37 25 moderate antennapedia homeodomain/DNA 1an4 pdt027 20 prot-nuc diff double-kink 1.782 25 23 48 25 moderate basic/helix-loop-helix/leucine zipper (b/HLH/Z) domain of the transcription factor upstream stimulatory factor (USF)/DNA (regulatory) 1b3t pd0024 18 prot-nuc diff double-kink 0.196 25 24 49 25 moderate Epstein-Barr virus origin binding protein (EBNA1)/DNA (structural) 1bps ------ 9 nuc NMR circular 0.410 34 25 moderate DNA intercalation complex: 1,2,3-trihydroxy-1,2,3,4-tetrahydrbenzo[A]pyrene 1cqt pd0092 14 prot-nuc diff double-kink 0.533 12 25 37 25 moderate OCA-B peptide, Oct-1 POU domain/DNA (regulatory) 1ofx ahj040 10 nuc diff single-kink 0.144 25 25 moderate DNA/RNA hybrid 2hap pd0090 19 prot-nuc diff double-kink 0.406 25 10 35 25 moderate heme activator protein (HAP1)/DNA (regulatory) 9ici pde098 7 prot-nuc diff circular 0.151 35 25 moderate DNA polymerase beta/DNA (enzyme) 1ca5 pd0119 8 prot-nuc diff single-kink 0.429 26 26 moderate hyperthermophile chromosomal protein Ss07d/Sac7d/DNA (structural) 1d9r bd0025 10 nuc diff single-kink 0.140 26 26 moderate mismatched B-DNA 1f0o pd0149 11 prot-nuc diff single-kink 0.530 26 26 moderate 1h0m ------ 18 prot-nuc diff double-kink 0.279 26 13 39 26 moderate 1hwt pd0089 20 prot-nuc diff double-kink 0.286 26 17 43 26 moderate heme activator protein (HAP-1)/DNA (regulatory) 1zme pdt044 16 prot-nuc diff double-kink 0.408 26 21 47 26 moderate PUT3/DNA (regulatory) 2bop pdv001 16 prot-nuc diff double-kink 0.505 26 26 52 26 moderate bovine papillomavirus-1 E2 binding domain/DNA 2crx pd0103 17 prot-nuc diff double-kink 0.334 26 12 38 26 moderate Cre recombinase/DNA (enzyme) 348d adj0102 10 nuc diff single-kink 0.398 26 26 moderate modified A-DNA 398d ahh0114 8 nuc diff circular 0.179 33 26 moderate DNA/RNA hybrid 401d ad0001 10 nuc diff single-kink 0.356 26 26 moderate plain A-DNA 411d ah0003 10 nuc diff single-kink 0.148 26 26 moderate DNA duplex with with incorporated 2'-O-modified Rna analogues 160d adj049 1 nuc diff circular 0.228 32 27 moderate plain A-DNA 172d adh054 8 nuc diff circular 0.149 32 27 moderate plain A-DNA 1b69 ------ 13 prot-nuc NMR double-kink 0.509 11 27 38 27 moderate integrase/DNA (enzyme) 1c7u ------ 20 prot-nuc NMR double-kink 0.524 27 27 54 27 moderate transcription factor MEF2A/DNA (regulatory) 1d69 ------ 10 nuc NMR circular 1.693 32 27 moderate DNA with adjacent GA mismatches 1d90 adhb17 8 nuc diff circular 0.247 31 27 moderate mismatched A-DNA 1d91 adh018 8 nuc diff circular 0.190 31 27 moderate mismatched A-DNA 1dhh ------ 9 nuc NMR circular 0.222 31 27 moderate DNA/RNA hybrid 1ekh ------ 8 nuc NMR circular 1.109 32 27 moderate DNA groove binder complex: chrommycin A3 1f44 pd0166 15 prot-nuc diff single-kink 0.276 27 27 moderate 1i6h ph0004 9 prot-nuc diff circular 1.079 31 27 moderate 1lu5 dd0050 12 nuc diff single-kink 0.175 27 27 moderate 1o3q pd0398 11 prot-nuc diff single-kink 0.663 27 27 moderate 1oct pdt019 14 prot-nuc diff double-kink 0.340 18 27 45 27 moderate Oct-1 POU domain/DNA (regulatory) 1pue pdt033 15 prot-nuc diff double-kink 0.185 27 12 39 27 moderate transcription factor PU.1 ETS domain/DNA (regulatory) 1qph ad0005 12 nuc diff circular 0.110 32 27 moderate plain A-DNA 1rpd ------ 42 prot-nuc model double-kink 1.081 24 27 51 27 moderate phage 434 repressor tetramer (two dimers)/DNA (regulatory) 1skn pdt064 13 prot-nuc diff single-kink 0.196 27 27 moderate transcription factor Skn-1/DNA (regulatory) 1srs pdt021 18 prot-nuc diff circular 0.554 31 27 moderate serum response factor (SRF)/DNA (regulatory) 1tau pde024 8 prot-nuc diff single-kink 0.788 27 27 moderate Taq polymerase/B-octylglucoside/DNA (enzyme) 319d adjb80 10 nuc diff circular 0.358 32 27 moderate modified A-DNA 414d ad0002 10 nuc diff single-kink 0.222 27 27 moderate plain A-DNA 161d ahj052 10 nuc diff circular 0.273 30 28 moderate DNA/RNA hybrid 1d83 ------ 8 nuc NMR circular 0.477 30 28 moderate DNA groove binder complex: chromomycin A3 1ekd ------ 8 nuc NMR circular 0.876 30 28 moderate 1evp ah0011 10 nuc diff single-kink 0.368 28 28 moderate DNA/RNA hybrid 1fok pde0127 19 prot-nuc diff double-kink 0.483 28 28 56 28 moderate restriction endonuclease FokI/DNA (enzyme)i 1g9y pd0189 24 prot-nuc diff double-kink 0.702 28 22 50 28 moderate 1ksb ------ 9 prot-nuc NMR circular 0.201 30 28 moderate 1l3l pd0298 20 prot-nuc diff double-kink 0.236 19 28 47 28 moderate 1nk3 ------ 14 prot-nuc NMR double-kink 0.446 28 19 47 28 moderate vnd/NK-2 homeodomain/DNA 1nkb pd0383 13 prot-nuc diff double-kink 0.228 28 15 43 28 moderate 1svc pdt022 10 prot-nuc diff single-kink 0.452 28 28 moderate transcription factor NF-kappa B p50 homodimer/DNA (regulatory) 2stw ------ 17 prot-nuc NMR double-kink 0.266 28 10 38 28 moderate ETS1 transcription factor/DNA 323d adjb84 10 nuc diff circular 0.332 30 28 moderate modified A-DNA 396d adj0113 10 nuc diff single-kink 0.279 28 28 moderate plain A-DNA 412d ah0004 10 nuc diff single-kink 0.141 28 28 moderate DNA with special features 1bl0 pdr056 22 prot-nuc diff double-kink 0.428 29 27 56 29 moderate multiple antibiotic resistance protein (MARA)/DNA (regulatory) 1d88 ahj044 10 nuc diff single-kink 0.207 29 29 moderate DNA/RNA hybrid 1hx4 ------ 11 nuc NMR single-kink 0.650 29 29 moderate 1kfo ar0039 18 nuc diff double-kink 0.135 29 29 58 29 moderate 1muh pd0347 18 prot-nuc diff double-kink 0.212 29 19 48 29 moderate 1mus pd0350 18 prot-nuc diff double-kink 0.209 29 18 47 29 moderate 1rcs ------ 20 prot-nuc NMR double-kink 0.148 20 29 49 29 moderate tryptophan repressor/DNA (regulatory) 1yfv ------ 8 nuc NMR circular 0.357 29 29 moderate plain A-RNA 409d ar0004 8 nuc diff single-kink 0.237 29 29 moderate mismatched A-RNA 410d ah0002 10 nuc diff single-kink 0.133 29 29 moderate A-DNA with special features 440d ad0003 10 nuc diff single-kink 0.246 29 29 moderate plain A-DNA 1aio ddlb73 12 nuc diff single-kink 0.221 30 30 moderate DNA complex with other drug binding motif 1c0w pd0069 21 prot-nuc diff double-kink 1.309 30 28 58 30 moderate diphtheria toxin repressor/DNA (regulatory) 1d9h ah0006 10 nuc diff single-kink 0.148 30 30 moderate DNA/RNA hybrid 1fj5 ------ 11 nuc NMR single-kink 0.387 30 30 moderate 1hwv ------ 11 nuc NMR single-kink 0.286 30 30 moderate 1k3w pd0253 18 prot-nuc diff double-kink 0.218 19 30 49 30 moderate 1mur pd0349 18 prot-nuc diff double-kink 0.218 19 30 49 30 moderate 1nk9 pd0382 12 prot-nuc diff single-kink 0.306 30 30 moderate 1qbp ar0025 14 nuc diff single-kink 1.303 30 30 moderate mismatched A-RNA 1rxa arh063 8 nuc diff single-kink 0.229 30 30 moderate plain A-RNA 220d adj066 10 nuc diff circular 0.121 28 30 moderate plain A-DNA 441d ad0004 8 nuc diff circular 0.153 28 30 moderate plain A-DNA 1c8c pd0143 8 prot-nuc diff single-kink 0.465 31 31 moderate 1d13 adj022 10 nuc diff circular 0.120 27 31 moderate plain A-DNA 1j5o pd0316 18 prot-nuc diff double-kink 0.807 31 18 49 31 moderate 1lb2 pd0306 20 prot-nuc diff double-kink 0.191 19 31 50 31 moderate 1le8 pd0308 19 prot-nuc diff double-kink 0.366 30 31 61 31 moderate 1mm8 pd0340 18 prot-nuc diff double-kink 0.261 31 16 47 31 moderate 320d adj081 10 nuc diff single-kink 0.391 31 31 moderate plain A-DNA 433d ar0008 14 nuc diff double-kink 0.488 31 30 61 31 moderate mismatched A-RNA 1dnt ah0008 10 nuc diff single-kink 0.190 32 32 moderate DNA/RNA hybrid 1j59 pd0299 13 prot-nuc diff double-kink 0.372 15 32 47 32 moderate 1je8 pd0219 20 prot-nuc diff double-kink 0.138 32 31 63 32 moderate 1nk2 ------ 16 prot-nuc NMR double-kink 0.646 32 27 59 32 moderate vnd/NK-2 homeodomain/DNA 221d adj067 10 nuc diff single-kink 0.319 32 32 moderate plain A-DNA 240d adj069 10 nuc diff circular 0.285 26 32 moderate plain A-DNA 1a73 pd0002 20 prot-nuc diff double-kink 0.238 33 30 63 33 moderate intron encoded homing endonuclease I-PpoI/DNA (enzyme) 1a74 pde140 20 prot-nuc diff double-kink 0.237 33 31 64 33 moderate intron encoded homing endonuclease I-PpoI/DNA (enzyme) 1exi pd0145 21 prot-nuc diff single-kink*0.533 33 33 moderate 1jj4 pd0227 16 prot-nuc diff double-kink 0.518 32 33 65 33 moderate 1kbu pd0271 16 prot-nuc diff single-kink 0.352 33 33 moderate 1o3r pd0399 11 prot-nuc diff single-kink 0.347 33 33 moderate 1qet ------ 8 nuc NMR circular 0.517 25 33 moderate RNA with tandem GU mismatches 1yrn pdt028 18 prot-nuc diff double-kink 0.339 29 33 62 33 moderate MATa1/MAT alpha 2 homeodomain heterodimer/DNA (regulatory) 1ysa pdt002 16 prot-nuc diff double-kink 0.385 16 33 48 33 moderate yeast transcriptional activator GCN4 basic region leucine zipper (bZIP)/DNA (regulatory) 326d adjb87 10 nuc diff circular 0.466 25 33 moderate modified A-DNA 383d adjb110 10 nuc diff single-kink 0.218 33 33 moderate modified A-DNA 100d ahj060 10 nuc diff circular 0.416 24 33 moderate DNA/RNA hybrid 1byx ------ 8 nuc NMR circular 0.426 24 34 moderate DNA/RNA hybrid 1ca6 pd0120 8 prot-nuc diff single-kink 0.510 34 34 moderate hyperthermophile chromosomal protein Ss07d/Sac7d/DNA (structural) 1cz0 pd0097 20 prot-nuc diff double-kink 0.259 34 31 65 34 moderate intron encoded homing endonuclease I-PpoI/DNA (enzyme) 1d92 adh019 nuc diff circular 0.291 24 34 moderate mismatched A-DNA 1j46 ------ 14 prot-nuc NMR double-kink 0.278 13 34 47 34 moderate 1tc3 pde0128 19 prot-nuc diff double-kink 0.407 34 32 66 34 moderate Tc3 transposase/DNA (enzyme) 485d ar0019 8 nuc diff circular 0.526 24 34 moderate DNA/RNA hybrid 4kbd ------ 16 nuc NMR double-kink 0.298 21 34 55 34 moderate DNA NF-kappa B binding site 1azp pdr047 8 prot-nuc diff single-kink 0.632 35 35 moderate hyperthermophile chromosomal protein Sac7d/DNA (structural) 1bnz pd0012 8 prot-nuc diff single-kink 1.004 35 35 moderate hyperthermophile chromosomal protein Sso7d/DNA (structural) 1cyq pd0096 20 prot-nuc diff double-kink 0.291 35 31 66 35 moderate intron encoded homing endonuclease I-PpoI/DNA (enzyme) 1guc ------ 8 nuc NMR circular 0.426 23 35 moderate RNA with tandem GU mismatches 1hlv pd0192 21 prot-nuc diff double-kink 0.237 16 35 51 35 moderate 1ir5 ------ 17 nuc NMR double-kink 0.598 35 21 56 35 moderate 1ouq pd0404 21 prot-nuc diff double-kink 0.663 35 28 63 35 moderate 1tgh pdt024 12 prot-nuc diff circular 0.476 23 35 moderate TATA-box binding protein (TBP)/DNA (regulatory) 1vol pdt032 16 prot-nuc diff circular 0.703 23 35 moderate transcription factor IIB (TFIIB)/TATA box-binding protein (TBP)/DNA (regulatory) 207d ------ 10 nuc NMR single-kink 0.388 35 35 moderate DNA groove binder complex: mithramycin 255d arl037 12 nuc diff single-kink 1.398 35 35 moderate mismatched A-RNA 1d8x bd0024 10 nuc diff single-kink 0.116 36 36 moderate mismatched B-DNA 1dn6 adi009 9 nuc diff circular 0.619 22 36 moderate plain A-DNA 1muv ------ 8 nuc NMR circular 0.265 22 36 moderate 1o3t pd0401 13 prot-nuc diff double-kink 0.306 36 12 48 36 moderate 1qkg ------ 10 nuc NMR circular 0.715 22 36 moderate DNA with special features 439d ar0012 8 prot-nuc diff circular 0.374 22 36 moderate 1bf4 pd0088 8 prot-nuc diff single-kink 0.785 37 37 moderate hyperthermophile chromosomal protein Sso7d/DNA (regulatory) 1cfl ------ 10 nuc NMR single-kink 0.455 37 37 moderate B-DNA with special features 1g4q ah0012 10 nuc diff single-kink 0.446 37 37 moderate 1kc6 pd0272 12 prot-nuc diff single-kink 0.619 37 37 moderate 1mxk ------ 10 nuc NMR single-kink 0.437 37 37 moderate 1qp7 pd0059 16 prot-nuc diff single-kink*0.613 37 37 moderate purine repressor/DNA (regulatory) 2cgp pdt049 26 prot-nuc diff double-kink 0.153 37 37 74 37 moderate catabolite gene activator protein (CAP)/DNA (regulatory) 2lef ------ 15 prot-nuc NMR double-kink 0.407 37 30 67 37 moderate lymphoid enhancer-binding factor (LEF-1) high-mobility-group (HMG) domain/DNA 2stt ------ 17 prot-nuc NMR double-kink 0.722 17 37 54 37 moderate human ETS1 oncoprotein/DNA 1akh pdr049 19 prot-nuc diff double-kink 0.289 20 38 58 38 moderate MATa1/MAT alpha 2 homeodomain heterodimer/DNA (regulatory) 1cjg ------ 22 prot-nuc NMR single-kink*1.309 38 38 moderate Lac repressor/DNA (regulatory) 1ckt pd0051 16 prot-nuc diff double-kink 0.240 24 38 62 38 moderate high-mobility-group (HMG) protein/DNA (regulatory) 1co0 ------ 20 prot-nuc NMR double-kink 0.772 16 38 54 38 moderate 1dnx ah0009 10 nuc diff circular 0.376 21 38 moderate DNA/RNA hybrid 1jb8 ah0019 10 nuc diff single-kink 0.346 38 38 moderate 1n14 ------ 13 nuc NMR double-kink 0.990 37 38 75 38 moderate 1nh2 pd0369 16 prot-nuc diff double-kink 0.161 25 38 63 38 moderate 1qp4 pd0058 16 prot-nuc diff single-kink*0.660 38 38 moderate purine repressor/DNA (regulatory) 1rv5 pd0013 10 prot-nuc diff single-kink 0.308 38 38 moderate restriction endonuclease EcoRV/DNA (enzyme) 1ytb pdt012 12 prot-nuc diff circular 0.412 21 38 moderate TATA-box binding protein (TBP)/DNA (regulatory) 321d adj082 10 nuc diff circular 0.399 21 38 moderate plain A-DNA 1bdh pdr028 16 prot-nuc diff single-kink*0.532 39 39 moderate purine repressor/DNA (regulatory) 1d87 ahj043 10 nuc diff circular 0.411 20 39 moderate DNA/RNA hybrid 1qp0 pd0057 16 prot-nuc diff single-kink*0.644 39 39 moderate purine repressor/DNA (regulatory) 1qqa pd0060 16 prot-nuc diff single-kink*0.551 39 39 moderate purine repressor/DNA (regulatory) 1qqb pd0061 16 prot-nuc diff single-kink*0.551 39 39 moderate purine repressor/DNA (regulatory) 1vpw pdt063 16 prot-nuc diff single-kink*0.489 39 39 moderate purine repressor/DNA (regulatory) 213d adjb61 10 nuc diff circular 0.539 20 39 moderate modified A-DNA 324d adjb85 10 nuc diff circular 0.344 20 39 moderate modified A-DNA 1b01 pd0091 10 prot-nuc diff single-kink 1.128 40 40 moderate transcriptional repressor CopG/DNA (regulatory) 1efa pd0118 17 prot-nuc diff double-kink 0.465 40 20 60 40 moderate Lac repressor/DNA (regulatory) 1ewq pd0142 21 prot-nuc diff double-kink 0.660 27 40 57 40 moderate 1jwl pd0250 14 prot-nuc diff double-kink 0.786 40 31 71 40 moderate 1mnm pdr036 25 prot-nuc diff double-kink 1.552 40 24 64 40 moderate MAT alpha2/MCM1/DNA (regulatory) 1wet pdr030 16 prot-nuc diff single-kink*0.712 40 40 moderate purine repressor/DNA (regulatory) 1ytf pdt036 16 prot-nuc diff double-kink 0.204 22 40 62 40 moderate TATA-box binding protein (TBP)/DNA (regulatory) 1a34 prv020 9 prot-nuc diff circular 0.148 19 41 moderate satellite tobacco mosaic virus protein/RNA (structural) 1bdi pdr029 16 prot-nuc diff single-kink*0.598 41 41 moderate purine repressor/DNA (regulatory) 1exj pd0146 21 prot-nuc diff double-kink 0.605 16 41 57 41 moderate 1jfi pd0221 17 prot-nuc diff double-kink 0.508 41 39 80 41 moderate 1qn4 pd0154 14 prot-nuc diff double-kink 0.307 41 32 73 41 moderate TATA-box binding protein (TBP)/DNA (regulatory) 1qpz pd0056 16 prot-nuc diff single-kink*0.554 41 41 moderate purine repressor/DNA (regulatory) 2gli pdt008 20 prot-nuc diff double-kink 1.264 31 41 72 41 moderate five finger GLI/DNA (regulatory) 2pue pdr043 16 prot-nuc diff single-kink*0.474 41 41 moderate 1jfs pd0223 16 prot-nuc diff single-kink*0.484 42 42 moderate 1pnr pdr020 16 prot-nuc diff single-kink*0.801 42 42 moderate purine repressor/DNA (regulatory) 2pua pdr040 16 prot-nuc diff single-kink 0.561 42 42 moderate 2pug pdr045 16 prot-nuc diff single-kink*0.542 42 42 moderate purine repressor/DNA (regulatory) 1az0 pde139 10 prot-nuc diff single-kink 0.195 43 43 moderate restriction endonuclease EcoRV/DNA (enzyme) 1bss pde0139 10 prot-nuc diff single-kink 0.145 43 43 moderate restriction endonuclease EcoRV/DNA (enzyme) 1bua pde0146 10 prot-nuc diff single-kink 0.207 43 43 moderate restriction endonuclease EcoRV/DNA (enzyme) 1jft pd0224 16 prot-nuc diff single-kink*0.557 43 43 moderate 1zay pd0109 16 prot-nuc diff single-kink*0.429 43 43 moderate purine repressor/DNA (regulatory) 2puf pdr044 16 prot-nuc diff single-kink 0.483 43 43 moderate purine repressor/DNA (regulatory) 2rve pde002 16 prot-nuc diff double-kink 0.454 43 40 82 43 moderate restriction endonuclease EcoRV/DNA (enzyme) 402d ar0001 8 nuc diff circular 1.463 18 43 moderate mismatched A-RNA 1c9b pd0112 17 prot-nuc diff double-kink 0.914 43 44 87 44 moderate TATA-box binding protein (TBP)/DNA (regulatory) 1eop pd0133 10 prot-nuc diff single-kink 0.218 44 44 moderate restriction endonuclease EcoRV/DNA (enzyme) 1gdt pde0115 34 prot-nuc diff double-kink 0.588 44 31 75 44 moderate gamma delta resolvase/DNA (enzyme) 1lbg pdr026 16 prot-nuc diff single-kink 0.666 44 44 moderate lactose operon repressor/DNA (regulatory) 1rva pde014 10 prot-nuc diff single-kink 0.280 44 44 moderate restriction endonuclease EcoRV/DNA (enzyme) 1c4l ------ 9 nuc NMR single-kink 0.873 45 45 moderate RNA including a CU base pair 1rvc pde016 10 prot-nuc diff single-kink 0.288 45 45 moderate restriction endonuclease EcoRV/DNA (enzyme) 2irf pd0076 36 prot-nuc diff double-kink 3.961 20 14 34 20 moderate interferon regulatory factor 2/DNA (regulatory) 1fjl pde025 41 prot-nuc diff double-kink 2.521 31 31 62 31 moderate paired (Pax) class cooperative homeodomain dimer/DNA (regulatory) 1ju1 ------ 23 nuc NMR double-kink 3.481 32 32 64 32 moderate 1luh ------ 8 nuc NMR circular 2.835 18 43 moderate 1azq pdr048 8 prot-nuc diff single-kink 0.364 46 46 strong hyperthermophile chromosomal protein Sac7D/DNA (structural) 1jh9 pd0226 16 prot-nuc diff single-kink*0.369 46 46 strong 1rvb pde015 10 prot-nuc diff single-kink 0.217 46 46 strong restriction endonuclease EcoRV/DNA (enzyme) 2puc pdr042 16 prot-nuc diff single-kink 0.442 46 46 strong purine repressor/DNA (regulatory) 2pud pdr046 16 prot-nuc diff single-kink 0.470 46 46 strong purine repressor/DNA (regulatory) 1cw0 pd0100 12 prot-nuc diff single-kink 0.508 47 47 strong very short patch repair (Vsr) endonuclease/DNA (enzyme) 1icg ah0015 8 nuc diff single-kink 1.101 47 47 strong 1id9 ah0016 8 nuc diff single-kink 1.296 47 47 strong 1ruo pdr025 30 prot-nuc diff double-kink 1.164 46 47 94 47 strong catabolite gene activator protein (CAP)/DNA (regulatory) 2pub pdr041 16 prot-nuc diff single-kink 0.455 47 47 strong purine repressor/CO repressor/DNA (regulatory) 1cgp pdr006 30 prot-nuc diff double-kink 0.389 48 44 92 48 strong catabolite gene activator protein(CAP)/DNA (regulatory) 1ic8 pd0208 21 prot-nuc diff double-kink 0.737 18 48 66 48 strong 1j5n ------ 15 prot-nuc NMR single-kink 0.419 48 48 strong 1qrv pd0110 9 prot-nuc diff single-kink 0.412 48 48 strong high mobility group protein D/DNA (regulatory) 1run pdr024 30 prot-nuc diff double-kink 0.527 48 42 90 48 strong catabolite gene activator protein (CAP)/DNA (regulatory) 2kbd ------ 16 nuc NMR double-kink 0.231 30 48 78 48 strong DNA NF-kappa B binding site 1ais pdr031 17 prot-nuc diff double-kink 0.617 49 29 78 49 strong TATA-BOX binding protein (TBP)/DNA (regulatory) 1iha ah0018 8 nuc diff single-kink 0.993 49 49 strong 1qne pd0163 14 prot-nuc diff double-kink 0.376 49 37 86 49 strong transcription initiation factor TFIID-1/DNA (regulatory) 1b95 pd0038 10 prot-nuc diff single-kink 0.307 50 50 strong restriction endonuclease EcoRV/DNA (enzyme) 1bsu pde0145 10 prot-nuc diff single-kink 0.050 50 50 strong restriction endonuclease EcoRV/DNA (enzyme) 1eon pd0131 10 prot-nuc diff single-kink 0.238 50 50 strong restriction endonuclease EcoRV/DNA (enzyme) 1idw ah0017 8 nuc diff single-kink 1.023 50 50 strong 1ub8 ud0027 7 nuc diff circular 1.997 15 50 strong 1eo4 pd0130 9 prot-nuc diff single-kink 0.342 51 51 strong restriction endonuclease EcoRV/DNA (enzyme) 1l1m ------ 23 prot-nuc NMR double-kink 0.217 51 41 92 51 strong 399d adl047 12 nuc diff single-kink 1.203 51 51 strong plain A-DNA 1bgb pd0010 10 prot-nuc diff single-kink 0.340 52 52 strong restriction endonuclease EcoRV/DNA (enzyme) 1iaw pd0207 16 prot-nuc diff double-kink 0.590 52 21 73 52 strong 1lwt pd0320 36 prot-nuc diff double-kink 1.483 52 19 71 52 strong 1b94 pd0037 10 prot-nuc diff single-kink 0.190 53 53 strong restriction endonuclease EcoRV/DNA (enzyme) 1b96 pd0039 10 prot-nuc diff single-kink 0.211 53 53 strong restriction endonuclease EcoRV/DNA (enzyme) 422d ar0007 8 nuc diff single-kink 1.338 53 53 strong 1b97 pd0040 10 prot-nuc diff single-kink 0.272 54 54 strong restriction endonuclease EcoRV/DNA (enzyme) 1gt0 ------ 23 prot-nuc diff double-kink 0.821 55 17 72 55 strong 1au5 ------ 8 nuc NMR single-kink 0.833 56 56 strong DNA with intrastrand crosslink 1cdw pdt034 16 prot-nuc diff double-kink 0.533 56 48 104 56 strong TATA-BOX binding protein (TBP)/DNA (regulatory) 1lws pd0319 34 prot-nuc diff double-kink 1.163 56 17 73 56 strong 1eoo pd0132 12 prot-nuc diff single-kink 0.235 57 57 strong restriction endonuclease EcoRV/DNA (enzyme) 1hbx pd0233 25 prot-nuc diff single-kink 1.881 57 57 strong 1k6o pd0258 23 prot-nuc diff double-kink 1.853 21 57 78 57 strong 1ngm pd0368 19 prot-nuc diff double-kink 0.573 57 38 95 57 strong 4rve pde003 10 prot-nuc diff single-kink 0.503 57 57 strong restriction endonuclease EcoRV/DNA (enzyme) 1d3u pd0070 23 prot-nuc diff double-kink 0.683 58 44 102 58 strong TATA-BOX binding protein (TBP)/DNA (regulatory) 1eo3 pd0129 9 prot-nuc diff single-kink 0.184 58 58 strong restriction endonuclease EcoRV/DNA (enzyme) 1ipp pde0144 20 prot-nuc diff double-kink 0.311 62 12 74 62 strong intron-encoded homing endonuclease I-PpoI/DNA (enzyme) 1oh8 ------ 10 prot-nuc diff single-kink 1.397 63 63 strong 1owf ------ 20 prot-nuc diff double-kink 0.579 24 65 89 65 strong 1ouz ------ 20 prot-nuc diff double-kink 0.574 25 67 92 67 strong 1owg ------ 20 prot-nuc diff double-kink 0.468 28 67 95 67 strong 1e3m pd0201 17 prot-nuc diff single-kink 1.164 70 70 strong 1ng9 pd0367 17 prot-nuc diff single-kink 1.020 71 71 strong 1a84 ------ 12 nuc NMR single-kink 0.852 78 78 strong DNA with intrastrand crosslink 2d47 adl025 12 nuc diff single-kink 3.186 53 53 strong plain A-DNA 1j9h ar0034 9 nuc diff circular 3.280 12 60 strong 1dfu pr0018 15 prot-nuc diff double-kink 3.516 62 31 93 62 strong ribosomal protein L25/RNA (structural) 1bpz pde0124 16 prot-nuc diff double-kink 2.241 64 32 96 64 strong DNA polymerase beta/nicked DNA (enzyme) 1n96 ------ 8 nuc NMR circular 34.159 9 76 strong 4crx pd0047 34 prot-nuc diff double-kink 3.227 24 82 106 82 strong Cre recombinase/DNA (enzyme) 5crx pd0048 32 prot-nuc diff double-kink 2.926 29 83 112 83 strong Cre recombinase/DNA (enzyme) 1ihf pdt040 34 prot-nuc diff double-kink 3.423 92 82 174 92 strong integration host factor/DNA (regulatory) 1nyd ------ 9 nuc NMR circular 2.264 3 188 strong 1aoi pd0001 146 prot-nuc diff superhelix strong histone/DNA (structural) (nucleosome core particle) 1eqz pd0137 146 prot-nuc diff superhelix strong 1f66 pd0171 146 prot-nuc diff superhelix strong 1id3 pd0209 146 prot-nuc diff superhelix strong 1kx3 pd0285 146 prot-nuc diff superhelix strong 1kx4 pd0286 146 prot-nuc diff superhelix strong 1m1a pd0330 146 prot-nuc diff superhelix strong 1m18 pd0328 146 prot-nuc diff superhelix strong 1m19 pd0329 146 prot-nuc diff superhelix strong 1kx5 pd0287 147 prot-nuc diff superhelix strong ------------------------------------------------------------------------------------------------------- Abbreviations ------------------------------------------------------------------------------------------------------- PDB Protein Data Bank NDB Nucleic Acid Database bp base pair number diff diffraction model theoretical model NMR nuclear magnetic resonance spectroscopy prot protein nuc nucleic acid prot-nuc protein-nucleic acid complex carb carbohydrate plane plane s(2) goodness of fit r radius of curvature (circular line) a kink angle (single-kink line) a1, a2 kink angles (double-kink line) o twist angle (double-kink line) l1, l2, l3 lenght of segments 1, 2, and 3 measured in bp (double-kink model)