IMB Jena Image Library of Biological Macromolecules (Last update: November 15, 2004) ----------------------------------------------------------------- Comprehensive Bending Classification of Nucleic Acid Double Helix Structures Moderate bending ( 10 ° < M <= 45 °) Classification I (double-kink: M = 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 model description). ----------------------------------------------------------------- Number of structures: 533 + 2 PDB NDB bp molecule method helical s(2) r a/a2 a2 a1+a2 M type axis shape 188d adh057 8 nuc diff circular 0.111 91 11 1a66 ------ 12 prot-nuc NMR single-kink 0.118 11 11 1b1f ------ 10 prot-nuc model circular 0.155 94 11 1bna bdl001 12 nuc diff single-kink 0.070 11 11 1bpx pde0126 10 prot-nuc diff single-kink 0.226 11 11 1bpy pde0125 10 prot-nuc diff single-kink 0.106 11 11 1cez pd0086 13 prot-nuc diff circular 0.327 92 11 1cyz ------ 10 nuc NMR circular 0.264 92 11 1d28 bdl028 12 nuc diff circular 0.088 96 11 1duf ------ 12 nuc NMR circular 0.006 97 11 1fmq dd0034 12 nuc diff single-kink 0.090 11 11 1fms dd0035 12 nuc diff single-kink 0.075 11 11 1g8u bd0045 12 nuc diff circular 0.094 97 11 1g8v bd0046 12 nuc diff circular 0.100 93 11 1h9d pd0210 10 prot-nuc diff single-kink 0.255 11 11 1hjc pd0205 15 prot-nuc diff single-kink 0.198 11 11 1i3t bd0048 12 nuc diff single-kink 0.080 11 11 1mxj ------ 11 nuc NMR single-kink 0.063 11 11 1n1n ------ 10 nuc NMR single-kink 0.068 11 11 1n3f pd0361 10 prot-nuc diff single-kink 0.154 11 11 1nne pd0388 11 prot-nuc diff circular 0.218 90 11 1onm ------ 11 nuc NMR single-kink 0.050 11 11 1pib ------ 10 nuc NMR single-kink 0.212 11 11 1r3x ------ 8 nuc NMR circular 0.183 94 11 219d ------ 10 nuc NMR circular 0.037 96 11 289d gdl045 12 nuc diff single-kink 0.079 11 11 2bna bdl002 12 nuc diff single-kink 0.067 11 11 2ezg ------ 12 prot-nuc NMR single-kink 0.069 11 11 316d ddh071 8 nuc diff circular 0.231 96 11 388d bdlb84 12 nuc diff single-kink 0.076 11 11 3kbd ------ 16 nuc NMR single-kink 0.161 11 11 453d dd0013 12 nuc diff circular 0.083 98 11 195d gdl030 12 nuc diff circular 0.096 83 12 1a1i pdt059 10 prot-nuc diff single-kink 0.230 12 12 1a36 pde0141 22 prot-nuc diff double-kink 0.096 5 7 12 12 1bbx ------ 12 prot-nuc NMR single-kink 0.692 12 12 1bdv pd0025 21 prot-nuc diff circular 0.392 84 12 1bwt ------ 10 nuc NMR circular 0.077 83 12 1d45 gdl012 12 nuc diff single-kink 0.069 12 12 1dc0 bd0026 12 nuc diff circular 0.052 80 12 1dcv bd0028 10 nuc diff single-kink 0.178 12 12 1efs ------ 13 nuc NMR double-kink 0.042 8 4 12 12 1gtw ------ 15 prot-nuc diff single-kink 0.199 12 12 1hhx ------ 9 nuc NMR circular 0.105 82 12 1hry ------ 8 prot-nuc NMR circular 0.196 80 12 1hrz ------ 8 prot-nuc NMR circular 0.118 82 12 1ig9 pd0212 13 prot-nuc diff single-kink 0.106 12 12 1juw ------ 22 prot-nuc model double-kink 0.096 5 7 12 12 1kkv ------ 10 nuc NMR circular 0.059 84 12 1mis ------ 8 nuc NMR circular 0.058 83 12 1mnv dd0053 9 prot-nuc diff circular 0.212 80 12 1mq3 pd0344 10 prot-nuc diff single-kink 0.077 12 12 1msf ------ 11 prot-nuc NMR single-kink 0.323 12 12 1n56 pd0362 12 prot-nuc diff circular 0.213 88 12 1njy pd0374 11 prot-nuc diff circular 0.232 88 12 1nkc pd0384 15 prot-nuc diff circular 0.104 82 12 1ql5 ------ 10 nuc NMR single-kink 0.208 12 12 1qsx ------ 12 nuc NMR single-kink 0.065 12 12 1s9m ------ 8 prot-nuc model circular 0.196 80 12 1sx9 ------ 8 prot-nuc model circular 0.196 80 12 1tf3 ------ 15 prot-nuc NMR single-kink 0.177 12 12 2d95 adh027 8 nuc diff circular 0.069 81 12 358d gdjb55 10 nuc diff single-kink 0.038 12 12 360d gdl056 12 nuc diff single-kink 0.088 12 12 389d bdlb85 12 nuc diff single-kink 0.080 12 12 3bdp pde0132 10 prot-nuc diff circular 0.235 81 12 3pvi pd0006 12 prot-nuc diff single-kink 0.870 12 12 455d bd0008 12 nuc diff circular 0.094 84 12 8icg pde068 7 prot-nuc diff circular 0.111 83 12 9bna bdl020 12 nuc diff single-kink 0.066 12 12 9icb pde092 7 prot-nuc diff circular 0.129 81 12 115d adhb11 8 nuc diff circular 0.076 78 13 193d ------ 8 nuc NMR circular 0.297 79 13 199d ------ 9 nuc NMR circular 0.137 75 13 1a0a pdt046 17 prot-nuc diff single-kink 0.370 13 13 1bdt pd0035 21 prot-nuc diff circular 0.317 77 13 1bp7 pd0026 24 prot-nuc diff circular 0.375 78 13 1dc1 pd0085 11 prot-nuc diff circular 0.681 79 13 1ej9 pd0125 22 prot-nuc diff double-kink 0.067 7 6 13 13 1eyu pd0147 11 prot-nuc diff single-kink 0.352 13 13 1gcc ------ 11 prot-nuc NMR single-kink 0.064 13 13 1gu4 ------ 15 prot-nuc diff single-kink 0.153 13 13 1ijw pd0213 11 prot-nuc diff single-kink 0.208 13 13 1jj6 pd0228 12 prot-nuc diff circular 0.202 77 13 1k7a pd0261 13 prot-nuc diff circular 0.237 78 13 1l3s pd0300 9 prot-nuc diff single-kink 0.088 13 13 1l3v pd0303 15 prot-nuc diff circular 0.331 73 13 1n37 ------ 8 nuc NMR circular 0.115 74 13 1n3e pd0360 10 prot-nuc diff single-kink 0.063 13 13 1nev ------ 10 nuc NMR circular 0.173 78 13 1qxb ------ 12 nuc NMR single-kink 0.173 13 13 1yuj ------ 11 prot-nuc NMR single-kink 0.097 13 13 204d ------ 8 nuc NMR circular 0.344 75 13 216d ghhb34 8 nuc diff circular 0.230 74 13 306d gdlb51 8 nuc diff circular 0.181 74 13 370d adh0104 8 nuc diff single-kink 0.137 13 13 372d adh0106 8 nuc diff circular 0.088 79 13 3ana adh007 8 nuc diff circular 0.149 79 13 421d dr0003 8 nuc diff single-kink 0.071 13 13 5bna ddl017 12 nuc diff circular 0.148 79 13 8icx pde085 7 prot-nuc diff circular 0.209 78 13 9icv pde0111 7 prot-nuc diff circular 0.190 74 13 0an8 adh010 8 nuc diff circular 0.067 67 14 159d gdhb25 8 nuc diff circular 0.211 72 14 194d bdl059 12 nuc diff single-kink 0.104 14 14 1a1j pdt060 10 prot-nuc diff single-kink 0.170 14 14 1a3q pdr032 11 prot-nuc diff circular 0.211 69 14 1d93 adh020 8 nuc diff circular 0.113 67 14 1d99 bdl011 12 nuc diff single-kink 0.088 14 14 1dsm ------ 11 nuc NMR circular 0.244 72 14 1ea4 pd0479 20 prot-nuc diff circular 0.159 70 14 1gu5 ------ 15 prot-nuc diff single-kink 0.080 14 14 1hg9 ------ 9 nuc NMR single-kink 0.117 14 14 1iv6 ------ 13 prot-nuc NMR circular 0.184 68 14 1jko pd0234 12 prot-nuc diff circular 0.282 69 14 1jkp pd0235 12 prot-nuc diff circular 0.223 70 14 1jkr pd0237 12 prot-nuc diff circular 0.189 67 14 1ksy pd0283 21 prot-nuc diff double-kink 0.151 7 7 14 14 1llm pd0312 12 prot-nuc diff single-kink 0.138 14 14 1mjm pd0245 10 prot-nuc diff circular 0.136 67 14 1njx pd0373 11 prot-nuc diff single-kink 0.205 14 14 1nk7 pd0380 9 prot-nuc diff single-kink 0.207 14 14 1opq ------ 12 nuc NMR circular 0.189 69 14 1qby ------ 11 nuc NMR single-kink 0.215 14 14 1qcu ar0020 11 nuc diff circular 0.127 70 14 1vj4 ------ 8 nuc diff circular 0.067 67 14 1zqm pde039 7 prot-nuc diff circular 0.305 67 14 369d adh0103 8 nuc diff circular 0.210 71 14 426d bd0004 11 nuc diff circular 0.181 70 14 4bdp pde0133 11 prot-nuc diff single-kink 0.131 14 14 4dnb bdlb13 12 nuc diff single-kink 0.078 14 14 1a02 pdt050 18 prot-nuc diff single-kink 0.101 15 15 1a1f pdt055 10 prot-nuc diff single-kink 0.252 15 15 1b0s ------ 10 nuc NMR circular 0.144 64 15 1bg1 pd0028 17 prot-nuc diff circular 0.203 64 15 1d42 ------ 8 nuc NMR circular 0.210 64 15 1mjp pd0247 9 prot-nuc diff circular 0.105 64 15 1nlw pd0387 18 prot-nuc diff double-kink 0.153 9 6 15 15 1qaj pd0134 8 prot-nuc diff circular 0.126 64 15 1skp ------ 11 nuc NMR single-kink 0.144 15 15 1yui ------ 11 prot-nuc NMR single-kink 0.118 15 15 1zqh pde034 7 prot-nuc diff circular 0.364 63 15 304d gdlb49 8 nuc diff circular 0.270 66 15 6cro pdr053 19 prot-nuc diff circular 0.184 64 15 7gat ------ 13 prot-nuc NMR circular 0.121 64 15 8ici pde070 7 prot-nuc diff circular 0.265 64 15 8ick pde072 7 prot-nuc diff circular 0.315 63 15 9icc pde093 7 prot-nuc diff circular 0.129 66 15 9ich pde097 7 prot-nuc diff circular 0.141 64 15 104d ------ 12 nuc NMR circular 0.111 59 16 197d adh059 8 nuc diff single-kink 0.129 16 16 1dnk pde005 7 prot-nuc diff circular 0.153 58 16 1drr ------ 10 nuc NMR single-kink 0.104 16 16 1f5t pd0170 41 prot-nuc diff double-kink 1.251 7 9 16 16 1kb2 pd0268 18 prot-nuc diff double-kink 0.252 9 7 16 16 1lat pdt030 18 prot-nuc diff double-kink 0.289 9 7 16 16 1m97 ------ 9 prot-nuc model circular 0.208 59 16 1mow pd0342 22 prot-nuc diff circular 0.493 58 16 1njz pd0375 10 prot-nuc diff circular 0.531 60 16 1nke pd0385 11 prot-nuc diff circular 0.278 58 16 1oka ------ 9 nuc NMR single-kink 0.146 16 16 1sdr arl062 12 nuc diff single-kink 0.102 16 16 1tn9 ------ 13 prot-nuc NMR circular 0.446 59 16 305d gdlb50 8 nuc diff circular 0.276 61 16 3bam pd0031 10 prot-nuc diff circular 1.146 60 16 9icf pde095 7 prot-nuc diff circular 0.109 58 16 1a31 pde0142 22 prot-nuc diff double-kink 0.096 9 8 17 17 1an2 pdt023 22 prot-nuc diff double-kink 0.332 9 8 17 17 1bf5 pdr052 17 prot-nuc diff circular 0.549 56 17 1cf7 pd0045 15 prot-nuc diff double-kink 0.239 7 10 17 17 1d78 adh038 8 nuc diff circular 0.088 56 17 1dsi ------ 11 nuc NMR single-kink 0.463 17 17 1f4s ------ 10 prot-nuc NMR circular 0.769 56 17 1ig4 ------ 12 prot-nuc NMR circular 0.150 54 17 1j47 ------ 14 prot-nuc NMR circular 0.113 54 17 1lv5 pd0317 10 prot-nuc diff circular 0.514 54 17 1o3s pd0400 11 prot-nuc diff circular 0.515 55 17 1pg9 ------ 12 nuc NMR circular 0.252 54 17 1qss pd0066 12 prot-nuc diff single-kink 0.287 17 17 1rmx ------ 10 nuc NMR circular 0.175 54 17 1rn9 ------ 10 nuc NMR single-kink 0.362 17 17 1rvh ------ 12 nuc NMR circular 0.224 57 17 1zqe pde031 7 prot-nuc diff circular 0.391 55 17 217d ghhb35 8 nuc diff circular 0.217 57 17 281d adh076 8 nuc diff circular 0.053 57 17 317d adh078 8 nuc diff circular 0.168 54 17 116d adl045 12 nuc diff circular 0.009 51 18 132d ------ 12 nuc NMR circular 0.138 53 18 144d gdlb24 12 nuc diff circular 0.189 53 18 1al5 ------ 12 nuc NMR circular 0.027 53 18 1b8i pd0042 13 prot-nuc diff single-kink 0.173 18 18 1d79 adh039 8 nuc diff circular 0.089 53 18 1dsa ------ 11 nuc NMR circular 0.550 52 18 1dsz pd0115 15 prot-nuc diff double-kink 0.200 11 7 18 18 1hlo pdt042 11 prot-nuc diff circular 0.292 52 18 1ig7 pd0211 13 prot-nuc diff single-kink 0.185 18 18 1kb6 pd0270 18 prot-nuc diff double-kink 0.227 8 10 18 18 1m77 ad0026 10 nuc diff circular 0.271 50 18 1n4b ------ 11 nuc NMR circular 1.847 51 18 1p7d pd0428 13 prot-nuc diff circular 0.110 50 18 1pdn pdr018 13 prot-nuc diff single-kink 0.280 18 18 1pik ------ 8 nuc NMR circular 0.198 52 18 260d adj075 10 nuc diff single-kink 0.111 18 18 2nll pdr021 18 prot-nuc diff double-kink 0.394 9 9 18 18 4gat ------ 13 prot-nuc NMR single-kink 0.108 18 18 8icl pde073 7 prot-nuc diff circular 0.117 51 18 171d ------ 12 nuc NMR circular 0.398 49 19 1apl pdt005 20 prot-nuc diff double-kink 0.193 10 9 19 19 1axv ------ 11 nuc NMR single-kink 0.467 19 19 1dno ah0007 10 nuc diff single-kink 0.128 19 19 1esg pd0139 8 prot-nuc diff circular 0.102 48 19 1kb4 pd0269 18 prot-nuc diff double-kink 0.209 9 10 19 19 1m6x pd0336 12 prot-nuc diff single-kink 0.153 19 19 1p3x ------ 8 nuc NMR circular 0.321 47 19 1p47 pd0424 21 prot-nuc diff double-kink 0.286 7 12 19 19 1qtm pd0067 12 prot-nuc diff single-kink 0.235 19 19 2ana adh006 8 nuc diff circular 0.079 49 19 2pvi pd0011 12 prot-nuc diff single-kink 0.460 19 19 334d gdj054 10 nuc diff single-kink 0.309 19 19 395d adj0112 10 nuc diff single-kink 0.051 19 19 479d ah0005 9 nuc diff single-kink 0.521 19 19 117d adl046 12 nuc diff circular 0.113 45 20 1a35 pde0143 22 prot-nuc diff double-kink 0.061 11 9 20 20 1bp8 ------ 8 nuc NMR circular 0.035 44 20 1cr3 ------ 11 nuc NMR circular 0.262 44 20 1d3x ------ 8 nuc NMR circular 0.155 45 20 1d5y pd0078 20 prot-nuc diff double-kink 0.185 10 10 20 20 1dcr bd0027 9 nuc diff circular 0.301 46 20 1dxn ------ 12 nuc NMR single-kink 0.608 20 20 1g9z pd0190 10 prot-nuc diff single-kink 0.172 20 20 1h9t pd0232 19 prot-nuc diff single-kink 0.369 20 20 1io4 pd0198 25 prot-nuc diff double-kink 0.277 13 7 20 20 1k78 pd0259 25 prot-nuc diff double-kink 0.252 10 10 20 20 1p4e pd0425 12 prot-nuc diff single-kink 0.159 20 20 1qes ------ 8 nuc NMR circular 0.261 46 20 1qsy pd0065 12 prot-nuc diff single-kink 0.238 20 20 2bpg pde012 7 prot-nuc diff circular 0.350 44 20 2hdd pdt043 20 prot-nuc diff double-kink 0.138 7 13 20 20 2ktq pd0030 12 prot-nuc diff single-kink 0.276 20 20 327d adjb88 10 nuc diff single-kink 0.221 20 20 384d adjb111 10 nuc diff single-kink 0.519 20 20 442d dd0003 12 nuc diff single-kink 0.331 20 20 443d dd0004 12 nuc diff single-kink 0.267 20 20 464d ar0014 7 nuc diff circular 0.168 46 20 4ktq pd0033 12 prot-nuc diff single-kink 0.276 20 20 9icg pde096 7 prot-nuc diff circular 0.098 46 20 126d bdj051 10 nuc diff single-kink 0.500 21 21 1awc pdt048 20 prot-nuc diff double-kink 0.214 13 8 21 21 1d70 ------ 8 nuc NMR circular 0.078 42 21 1du0 pd0114 20 prot-nuc diff double-kink 0.185 11 10 21 21 1flo pd0178 12 prot-nuc diff single-kink 0.129 21 21 1gtc ------ 8 nuc NMR circular 0.036 42 21 1lcd ------ 11 prot-nuc NMR circular 0.137 43 21 1qai pd0126 8 prot-nuc diff circular 0.398 43 21 218d bdlb58 12 nuc diff single-kink 0.145 21 21 404d ah0001 10 nuc diff single-kink 0.232 21 21 438d ar0011 8 nuc diff single-kink 0.262 21 21 107d ------ 7 nuc NMR circular 0.608 41 22 168d ahjs55 10 nuc diff circular 0.119 40 22 173d ddh048 8 nuc diff circular 0.770 41 22 1d96 ahj015 10 nuc diff single-kink 0.105 22 22 1djd ------ 11 nuc NMR single-kink 0.771 22 22 1f4k pd0167 21 prot-nuc diff double-kink 0.124 11 11 22 22 1f5e ------ 10 prot-nuc NMR single-kink 0.543 22 22 1ga5 pd0191 20 prot-nuc diff double-kink 0.377 11 11 22 22 1hlz pd0193 20 prot-nuc diff double-kink 0.385 13 9 22 22 1huo pd0196 7 prot-nuc diff circular 0.508 41 22 1i7v ------ 11 nuc NMR single-kink 0.701 22 22 1kln pde004 9 prot-nuc diff circular 0.254 40 22 1kqq ------ 15 prot-nuc NMR single-kink 0.248 22 22 1l3m ------ 12 nuc NMR circular 0.516 41 22 1lcc ------ 11 prot-nuc NMR single-kink 0.207 22 22 1n4l pd0359 16 prot-nuc diff double-kink 0.043 12 10 22 22 1n8c ------ 11 nuc NMR single-kink 0.611 22 22 1o9m ------ 8 nuc diff circular 0.367 40 22 1pgc ------ 12 nuc NMR single-kink 0.338 22 22 1tsr pdr022 20 prot-nuc diff single-kink 0.287 22 22 1tup pdr027 20 prot-nuc diff single-kink 0.282 22 22 1zqq pde043 7 prot-nuc diff circular 0.609 40 22 368d adh0102 8 nuc diff circular 0.095 41 22 141d ------ 13 nuc NMR single-kink 0.070 23 23 1bwg ------ 14 nuc NMR double-kink 0.155 15 8 23 23 1d18 ------ 8 nuc NMR circular 0.341 39 23 1hf0 pd0274 22 prot-nuc diff double-kink 0.417 6 17 23 23 1k8j ------ 14 nuc NMR double-kink 0.174 11 12 23 23 1puf pd0455 19 prot-nuc diff double-kink 0.191 11 12 23 23 1pvi pde017 12 prot-nuc diff single-kink 1.034 23 23 1rna arn035 14 nuc diff single-kink 0.080 23 23 1ttd ------ 12 nuc NMR single-kink 0.190 23 23 1wai ------ 25 prot-nuc model double-kink 1.153 15 8 23 23 212d adj065 10 nuc diff circular 0.072 38 23 333d arhb90 8 nuc diff circular 0.065 39 23 378d gdh060 8 nuc diff circular 0.217 39 23 5gat ------ 13 prot-nuc NMR single-kink 0.173 23 23 6gat ------ 13 prot-nuc NMR double-kink 0.058 10 13 23 23 138d adj051 10 nuc diff single-kink 0.240 24 24 142d ------ 13 nuc NMR circular 0.116 36 24 1coc ------ 12 nuc NMR single-kink 0.262 24 24 1dnz ad0006 10 nuc diff circular 0.121 36 24 1e3o pd0225 11 prot-nuc diff single-kink 0.563 24 24 1fyy ------ 12 nuc NMR circular 1.380 37 24 1g4d ------ 16 prot-nuc NMR double-kink 0.117 14 10 24 24 1ksx pd0282 18 prot-nuc diff double-kink 0.111 12 12 24 24 1nk6 pd0379 8 prot-nuc diff single-kink 0.264 24 24 1pqq ------ 11 nuc NMR single-kink 0.700 24 24 1tf6 pdt065 30 prot-nuc diff double-kink 1.040 12 12 24 24 222d ahj068 10 nuc diff single-kink 0.171 24 24 2d55 ddh037 8 nuc diff circular 1.207 36 24 2dgc pdt029 18 prot-nuc diff double-kink 0.099 12 12 24 24 2gat ------ 16 prot-nuc NMR double-kink 0.097 16 8 24 24 349d adj0103 10 nuc diff single-kink 0.397 24 24 3ktq pd0032 12 prot-nuc diff single-kink 0.265 24 24 434d ar0009 7 nuc diff circular 0.186 37 24 466d ar0013 7 nuc diff circular 0.187 37 24 103d ------ 12 nuc NMR single-kink 0.848 25 25 137d adj050 10 nuc diff single-kink 0.312 25 25 140d ------ 13 nuc NMR circular 0.138 35 25 175d ------ 10 nuc NMR circular 0.441 34 25 1bps ------ 9 nuc NMR circular 0.410 34 25 1glu pdrc01 18 prot-nuc diff double-kink 0.078 13 12 25 25 1i3j pd0200 20 prot-nuc diff double-kink 0.145 9 16 25 25 1jt0 pd0249 28 prot-nuc diff double-kink 0.777 12 13 25 25 1nkp pd0386 18 prot-nuc diff double-kink 0.176 11 14 25 25 1ofx ahj040 10 nuc diff single-kink 0.144 25 25 1qln ph0002 13 prot-nuc diff double-kink 0.310 13 12 25 25 3hdd pd0016 20 prot-nuc diff double-kink 0.151 10 15 25 25 6pax pd0050 24 prot-nuc diff double-kink 0.211 20 5 25 25 9ici pde098 7 prot-nuc diff circular 0.151 35 25 1ca5 pd0119 8 prot-nuc diff single-kink 0.429 26 26 1d9r bd0025 10 nuc diff single-kink 0.140 26 26 1dfm pd0101 14 prot-nuc diff double-kink 0.113 13 13 26 26 1f0o pd0149 11 prot-nuc diff single-kink 0.530 26 26 1hdd pdt004 20 prot-nuc diff double-kink 0.247 10 16 26 26 1jey pd0220 14 prot-nuc diff double-kink 0.155 13 13 26 26 1rtd pd0023 21 prot-nuc diff double-kink 0.160 15 11 26 26 1ubd pdt038 20 prot-nuc diff double-kink 0.179 16 10 26 26 348d adj0102 10 nuc diff single-kink 0.398 26 26 398d ahh0114 8 nuc diff circular 0.179 33 26 401d ad0001 10 nuc diff single-kink 0.356 26 26 411d ah0003 10 nuc diff single-kink 0.148 26 26 160d adj049 10 nuc diff circular 0.228 32 27 172d adh054 8 nuc diff circular 0.149 32 27 1d69 ------ 10 nuc NMR circular 1.693 32 27 1d90 adhb17 8 nuc diff circular 0.247 31 27 1d91 adh018 8 nuc diff circular 0.190 31 27 1dhh ------ 9 nuc NMR circular 0.222 31 27 1ekh ------ 8 nuc NMR circular 1.109 32 27 1f44 pd0166 15 prot-nuc diff single-kink 0.276 27 27 1h6f pd0311 22 prot-nuc diff double-kink 0.366 13 14 27 27 1h89 pd0289 25 prot-nuc diff double-kink 0.294 17 10 27 27 1i6h ph0004 9 prot-nuc diff circular 1.079 31 27 1k9h ------ 14 nuc NMR double-kink 0.086 12 15 27 27 1kbd ------ 16 prot NMR double-kink 0.186 10 17 27 27 1lu5 dd0050 12 nuc diff single-kink 0.175 27 27 1nwq pd0395 20 prot-nuc diff double-kink 0.318 15 12 27 27 1o3q pd0398 11 prot-nuc diff single-kink 0.663 27 27 1qph ad0005 12 nuc diff circular 0.110 32 27 1rep pd0107 21 prot-nuc diff double-kink 0.276 9 18 27 27 1skn pdt064 13 prot-nuc diff single-kink 0.196 27 27 1srs pdt021 18 prot-nuc diff circular 0.554 31 27 1tau pde024 8 prot-nuc diff single-kink 0.788 27 27 319d adjb80 10 nuc diff circular 0.358 32 27 414d ad0002 10 nuc diff single-kink 0.222 27 27 161d ahj052 10 nuc diff circular 0.273 30 28 1bvo ------ 15 prot-nuc diff double-kink 0.240 14 14 28 28 1d83 ------ 8 nuc NMR circular 0.477 30 28 1ekd ------ 8 nuc NMR circular 0.876 30 28 1evp ah0011 10 nuc diff single-kink 0.368 28 28 1hcq pdrc03 17 prot-nuc diff double-kink 0.133 13 15 28 28 1ksb ------ 9 nuc NMR circular 0.201 30 28 1mey pdtb41 24 prot-nuc diff double-kink 0.720 11 17 28 28 1n6q pd0364 20 prot-nuc diff double-kink 0.229 20 8 28 28 1svc pdt022 10 prot-nuc diff single-kink 0.452 28 28 323d adjb84 10 nuc diff circular 0.332 30 28 396d adj0113 10 nuc diff single-kink 0.279 28 28 3gat ------ 16 prot-nuc NMR double-kink 0.130 12 16 28 28 412d ah0004 10 nuc diff single-kink 0.141 28 28 1d2i pd0153 14 prot-nuc diff double-kink 0.129 13 16 29 29 1d88 ahj044 10 nuc diff single-kink 0.207 29 29 1h8a pd0290 25 prot-nuc diff double-kink 0.218 15 14 29 29 1hx4 ------ 11 nuc NMR single-kink 0.650 29 29 1j1v pd0371 13 prot-nuc diff double-kink 0.226 14 15 29 29 1lq1 pd0314 15 prot-nuc diff double-kink 0.113 14 15 29 29 1mdm pd0338 25 prot-nuc diff double-kink 0.162 13 16 29 29 1saa ------ 16 nuc NMR double-kink 0.113 15 14 29 29 1yfv ------ 8 nuc NMR circular 0.357 29 29 409d ar0004 8 nuc diff single-kink 0.237 29 29 410d ah0002 10 nuc diff single-kink 0.133 29 29 440d ad0003 10 nuc diff single-kink 0.246 29 29 1aio ddlb73 12 nuc diff single-kink 0.221 30 30 1d9h ah0006 10 nuc diff single-kink 0.148 30 30 1fj5 ------ 11 nuc NMR single-kink 0.387 30 30 1hwv ------ 11 nuc NMR single-kink 0.286 30 30 1nk9 pd0382 12 prot-nuc diff single-kink 0.306 30 30 1qbp ar0025 14 nuc diff single-kink 1.303 30 30 1rxa arh063 8 nuc diff single-kink 0.229 30 30 1xbr pdt045 24 prot-nuc diff double-kink 1.028 20 10 30 30 220d adj066 10 nuc diff circular 0.121 28 30 441d ad0004 8 nuc diff circular 0.153 28 30 1c8c pd0143 8 prot-nuc diff single-kink 0.465 31 31 1d13 adj022 10 nuc diff circular 0.120 27 31 1dh3 pd0102 20 prot-nuc diff double-kink 0.226 17 14 31 31 1ign pdt035 18 prot-nuc diff double-kink 0.259 22 9 31 31 1lei pd0310 16 prot-nuc diff double-kink 0.144 17 14 31 31 1n5y pd0365 20 prot-nuc diff double-kink 0.228 20 11 31 31 1tro pdr009 37 prot-nuc diff double-kink 0.717 15 16 31 31 320d adj081 10 nuc diff single-kink 0.391 31 31 1a6y pd0008 20 prot-nuc diff double-kink 0.368 19 13 32 32 1dnt ah0008 10 nuc diff single-kink 0.190 32 32 1egw pd0121 16 prot-nuc diff double-kink 0.139 16 16 32 32 1k9l ------ 14 nuc NMR double-kink 0.122 16 16 32 32 1mdy pdt016 14 prot-nuc diff double-kink 0.266 16 16 32 32 1nk5 pd0378 13 prot-nuc diff double-kink 0.270 18 14 32 32 1qp9 pd0148 20 prot-nuc diff double-kink 0.400 22 10 32 32 1snh ------ 10 nuc NMR circular 0.797 26 32 221d adj067 10 nuc diff single-kink 0.319 32 32 240d adj069 10 nuc diff circular 0.285 26 32 1dmu pd0108 17 prot-nuc diff double-kink 0.304 18 15 33 33 1exi pd0145 21 prot-nuc diff single-kink*0.533 33 33 1hw2 pd0199 18 prot-nuc diff double-kink 0.246 20 13 33 33 1kbu pd0271 16 prot-nuc diff single-kink 0.352 33 33 1o3r pd0399 11 prot-nuc diff single-kink 0.347 33 33 1par pdr012 21 prot-nuc diff double-kink 0.489 22 11 33 33 1qar ------ 18 prot-nuc model double-kink 0.144 18 15 33 33 1qet ------ 8 nuc NMR circular 0.517 25 33 1saq ar0049 8 nuc diff circular 0.942 25 33 326d adjb87 10 nuc diff circular 0.466 25 33 383d adjb110 10 nuc diff single-kink 0.218 33 33 100d ahj060 10 nuc diff circular 0.416 24 34 1byx ------ 8 nuc NMR circular 0.426 24 34 1ca6 pd0120 8 prot-nuc diff single-kink 0.510 34 34 1d92 adh019 8 nuc diff circular 0.291 24 34 1drg pd0113 15 prot-nuc diff double-kink 0.272 18 16 34 34 1sa9 ar0048 8 nuc diff circular 0.552 24 34 485d ar0019 8 nuc diff circular 0.526 24 34 1azp pdr047 8 prot-nuc diff single-kink 0.632 35 35 1bn9 ------ 15 nuc NMR double-kink 0.221 18 17 35 35 1bnz pd0012 8 prot-nuc diff single-kink 1.004 35 35 1ecr pdte01 14 prot-nuc diff double-kink 0.243 22 13 35 35 1guc ------ 8 nuc NMR circular 0.426 23 35 1mj2 pd0173 18 prot-nuc diff double-kink 0.124 20 15 35 35 1tgh pdt024 12 prot-nuc diff circular 0.476 23 35 1vol pdt032 16 prot-nuc diff circular 0.703 23 35 207d ------ 10 nuc NMR single-kink 0.388 35 35 255d arl037 12 nuc diff single-kink 1.398 35 35 2hap pd0090 19 prot-nuc diff double-kink 0.406 25 10 35 35 9ant pd0007 14 prot-nuc diff double-kink 0.220 22 13 35 35 1d8x bd0024 10 nuc diff single-kink 0.116 36 36 1dn6 adi009 9 nuc diff circular 0.619 22 36 1lmb pdr010 19 prot-nuc diff double-kink 0.388 18 18 36 36 1mjo pd0246 18 prot-nuc diff double-kink 0.112 19 17 36 36 1muv ------ 8 nuc NMR circular 0.265 22 36 1qkg ------ 10 nuc NMR circular 0.715 22 36 3cro pdr001 19 prot-nuc diff double-kink 0.145 18 18 36 36 439d ar0012 8 nuc diff circular 0.374 22 36 1ahd ------ 14 prot-nuc NMR double-kink 0.412 25 12 37 37 1bf4 pd0088 8 prot-nuc diff single-kink 0.785 37 37 1cfl ------ 10 nuc NMR single-kink 0.455 37 37 1cqt pd0092 14 prot-nuc diff double-kink 0.533 12 25 37 37 1g4q ah0012 10 nuc diff single-kink 0.446 37 37 1h88 pd0288 25 prot-nuc diff double-kink 0.341 24 13 37 37 1kc6 pd0272 12 prot-nuc diff single-kink 0.619 37 37 1lli pdr016 19 prot-nuc diff double-kink 0.413 18 19 37 37 1mxk ------ 10 nuc NMR single-kink 0.437 37 37 1qp7 pd0059 16 prot-nuc diff single-kink*0.613 37 37 3crx pd0104 17 prot-nuc diff double-kink 0.317 17 20 37 37 1b69 ------ 13 prot-nuc NMR double-kink 0.509 11 27 38 38 1cjg ------ 22 prot-nuc NMR single-kink*1.309 38 38 1ddn pd0004 32 prot-nuc diff double-kink 1.259 19 19 38 38 1dnx ah0009 10 nuc diff circular 0.376 21 38 1jb8 ah0019 10 nuc diff single-kink 0.346 38 38 1ma7 pd0337 16 prot-nuc diff double-kink 0.289 20 18 38 38 1qp4 pd0058 16 prot-nuc diff single-kink*0.660 38 38 1rv5 pd0013 10 prot-nuc diff single-kink 0.308 38 38 1ytb pdt012 12 prot-nuc diff circular 0.412 21 38 2crx pd0103 17 prot-nuc diff double-kink 0.334 26 12 38 38 2drp pdt011 18 prot-nuc diff double-kink 0.191 24 14 38 38 2stw ------ 17 prot-nuc NMR double-kink 0.266 28 10 38 38 321d adj082 10 nuc diff circular 0.399 21 38 405d ar0002 16 nuc diff double-kink 0.134 20 18 38 38 1bdh pdr028 16 prot-nuc diff single-kink*0.532 39 39 1d87 ahj043 10 nuc diff circular 0.411 20 39 1h0m ------ 18 prot-nuc diff double-kink 0.279 26 13 39 39 1pue pdt033 15 prot-nuc diff double-kink 0.185 27 12 39 39 1qp0 pd0057 16 prot-nuc diff single-kink*0.644 39 39 1qqa pd0060 16 prot-nuc diff single-kink*0.551 39 39 1qqb pd0061 16 prot-nuc diff single-kink*0.551 39 39 1trr pdr013 32 prot-nuc diff double-kink 1.070 19 20 39 39 1vpw pdt063 16 prot-nuc diff single-kink*0.489 39 39 213d adjb61 10 nuc diff circular 0.539 20 39 2or1 pdr004 19 prot-nuc diff double-kink 0.176 21 18 39 39 324d adjb85 10 nuc diff circular 0.344 20 39 1b01 pd0091 10 prot-nuc diff single-kink 1.128 40 40 1b72 pd0075 19 prot-nuc diff double-kink 0.295 18 22 40 40 1dgc pdt007 18 prot-nuc diff double-kink 0.138 20 20 40 40 1lfu ------ 14 prot-nuc NMR double-kink 0.662 24 16 40 40 1mjq pd0248 18 prot-nuc diff double-kink 0.134 19 21 40 40 1wet pdr030 16 prot-nuc diff single-kink*0.712 40 40 2dnj pde006 14 prot-nuc diff double-kink 0.351 20 20 40 40 2ram pdr051 20 prot-nuc diff double-kink 0.303 20 20 40 40 1a34 prv020 9 prot-nuc diff circular 0.148 19 41 1bdi pdr029 16 prot-nuc diff single-kink*0.598 41 41 1cma pdr008 18 prot-nuc diff double-kink 0.154 20 21 41 41 1gfx ------ 43 prot-nuc model double-kink 1.718 20 21 41 41 1j5g ------ 43 prot-nuc model double-kink 1.713 20 21 41 41 1per pdr015 19 prot-nuc diff double-kink 0.188 22 19 41 41 1qpz pd0056 16 prot-nuc diff single-kink*0.554 41 41 2hmi pd0005 18 prot-nuc diff double-kink 0.432 24 17 41 41 2pue pdr043 16 prot-nuc diff single-kink*0.474 41 41 1jfs pd0223 16 prot-nuc diff single-kink*0.484 42 42 1pnr pdr020 16 prot-nuc diff single-kink*0.801 42 42 1rpe pdr011 19 prot-nuc diff double-kink 0.250 22 20 42 42 2pua pdr040 16 prot-nuc diff single-kink 0.561 42 42 2pug pdr045 16 prot-nuc diff single-kink*0.542 42 42 1au7 pdr034 24 prot-nuc diff double-kink 0.377 22 21 43 43 1az0 pde139 10 prot-nuc diff single-kink 0.195 43 43 1bss pde0139 10 prot-nuc diff single-kink 0.145 43 43 1bua pde0146 10 prot-nuc diff single-kink 0.207 43 43 1cit pd0046 16 prot-nuc diff double-kink 0.287 24 19 43 43 1hwt pd0089 20 prot-nuc diff double-kink 0.286 26 17 43 43 1jft pd0224 16 prot-nuc diff single-kink*0.557 43 43 1lwa ------ 15 nuc NMR double-kink 0.468 23 20 43 43 1nkb pd0383 13 prot-nuc diff double-kink 0.228 28 15 43 43 1zay pd0109 16 prot-nuc diff single-kink*0.429 43 43 2puf pdr044 16 prot-nuc diff single-kink 0.483 43 43 402d ar0001 8 nuc diff circular 1.463 18 43 1bdz ------ 14 nuc NMR double-kink 0.157 22 22 44 44 1eop pd0133 10 prot-nuc diff single-kink 0.218 44 44 1lbg pdr026 16 prot-nuc diff single-kink 0.666 44 44 1rva pde014 10 prot-nuc diff single-kink 0.280 44 44 1c4l ------ 9 nuc NMR single-kink 0.873 45 45 1oct pdt019 14 prot-nuc diff double-kink 0.340 18 27 45 45 1rvc pde016 10 prot-nuc diff single-kink 0.288 45 45 The following structure has a goodness-of-fit value larger than 2 and is, therefore, mentioned separately. Number of structures: 2 PDB NDB bp molecule method helical s(2) r a/a2 a2 a1+a2 M type axis shape 2irf pd0076 36 prot-nuc diff double-kink 3.961 20 14 34 20 1luh ------ 8 nuc NMR circular 2.835 18 43 -------------------------------------------------------------------------- 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)