HEADER HYDROLASE/DNA 24-AUG-16 5T2W TITLE STRUCTURE OF THYMINE DNA GLYCOSYLASE BOUND TO SUBSTRATE ANALOG 2'-F-5- TITLE 2 FORMYL-DC COMPND MOL_ID: 1; COMPND 2 MOLECULE: G/T MISMATCH-SPECIFIC THYMINE DNA GLYCOSYLASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 82-308; COMPND 5 SYNONYM: THYMINE-DNA GLYCOSYLASE,HTDG; COMPND 6 EC: 3.2.2.29; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (28-MER); COMPND 10 CHAIN: C; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (27-MER); COMPND 14 CHAIN: D; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: TDG; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 15 ORGANISM_TAXID: 32630 KEYWDS PROTEIN-DNA COMPLEX, HYDROLASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR L.S.PIDUGU,E.POZHARSKI,A.C.DROHAT REVDAT 2 21-DEC-16 5T2W 1 JRNL REVDAT 1 09-NOV-16 5T2W 0 JRNL AUTH L.S.PIDUGU,J.W.FLOWERS,C.T.COEY,E.POZHARSKI,M.M.GREENBERG, JRNL AUTH 2 A.C.DROHAT JRNL TITL STRUCTURAL BASIS FOR EXCISION OF 5-FORMYLCYTOSINE BY THYMINE JRNL TITL 2 DNA GLYCOSYLASE. JRNL REF BIOCHEMISTRY V. 55 6205 2016 JRNL REFN ISSN 1520-4995 JRNL PMID 27805810 JRNL DOI 10.1021/ACS.BIOCHEM.6B00982 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.2 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 21.37 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 17639 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.182 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.490 REMARK 3 FREE R VALUE TEST SET COUNT : 792 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 9 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.33 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.96 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2838 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2312 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2704 REMARK 3 BIN R VALUE (WORKING SET) : 0.2302 REMARK 3 BIN FREE R VALUE : 0.2506 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.72 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 134 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1536 REMARK 3 NUCLEIC ACID ATOMS : 1118 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 153 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 39.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -8.56930 REMARK 3 B22 (A**2) : -0.80260 REMARK 3 B33 (A**2) : 9.37200 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.82700 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.272 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 0.312 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.207 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 0.283 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.202 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.893 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 3015 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 4343 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 870 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 35 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 303 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 3015 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : NULL ; NULL ; NULL REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 389 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 3137 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 0.99 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.33 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 23.70 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 14 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: { A|108 - A|112 } REMARK 3 ORIGIN FOR THE GROUP (A): 21.8670 -7.6561 39.3001 REMARK 3 T TENSOR REMARK 3 T11: 0.2048 T22: -0.0458 REMARK 3 T33: -0.0885 T12: -0.0897 REMARK 3 T13: -0.0287 T23: 0.0293 REMARK 3 L TENSOR REMARK 3 L11: 5.4548 L22: 3.7734 REMARK 3 L33: 0.3411 L12: -5.6009 REMARK 3 L13: -2.9629 L23: -0.1736 REMARK 3 S TENSOR REMARK 3 S11: 0.0064 S12: 0.0291 S13: -0.1865 REMARK 3 S21: -0.1326 S22: 0.1399 S23: -0.0476 REMARK 3 S31: -0.1586 S32: 0.0095 S33: -0.1463 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: { A|113 - A|126 } REMARK 3 ORIGIN FOR THE GROUP (A): 17.8762 -12.1964 28.4129 REMARK 3 T TENSOR REMARK 3 T11: 0.1047 T22: -0.0355 REMARK 3 T33: 0.1129 T12: 0.0505 REMARK 3 T13: 0.0445 T23: -0.0128 REMARK 3 L TENSOR REMARK 3 L11: 3.5013 L22: 1.0102 REMARK 3 L33: 4.0964 L12: -2.0244 REMARK 3 L13: 2.2834 L23: -1.0876 REMARK 3 S TENSOR REMARK 3 S11: 0.1492 S12: 0.0465 S13: -0.4163 REMARK 3 S21: 0.0587 S22: -0.1098 S23: -0.1542 REMARK 3 S31: 0.4908 S32: 0.5695 S33: -0.0394 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: { A|127 - A|158 } REMARK 3 ORIGIN FOR THE GROUP (A): 6.7318 -4.0277 26.4881 REMARK 3 T TENSOR REMARK 3 T11: -0.0687 T22: -0.0879 REMARK 3 T33: -0.0541 T12: -0.0277 REMARK 3 T13: 0.0431 T23: -0.0176 REMARK 3 L TENSOR REMARK 3 L11: 1.8690 L22: 1.4985 REMARK 3 L33: 2.9368 L12: -0.3910 REMARK 3 L13: 1.1485 L23: -0.3526 REMARK 3 S TENSOR REMARK 3 S11: 0.0298 S12: -0.0812 S13: 0.0245 REMARK 3 S21: 0.1456 S22: -0.0317 S23: 0.1489 REMARK 3 S31: 0.3112 S32: -0.1124 S33: 0.0019 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: { A|159 - A|176 } REMARK 3 ORIGIN FOR THE GROUP (A): 0.4454 2.3995 34.4749 REMARK 3 T TENSOR REMARK 3 T11: 0.0148 T22: -0.0195 REMARK 3 T33: -0.0575 T12: -0.0492 REMARK 3 T13: 0.0370 T23: 0.0284 REMARK 3 L TENSOR REMARK 3 L11: 4.9002 L22: 0.0081 REMARK 3 L33: 3.1450 L12: -2.6314 REMARK 3 L13: -1.1444 L23: -0.4826 REMARK 3 S TENSOR REMARK 3 S11: -0.1617 S12: -0.5225 S13: -0.1079 REMARK 3 S21: 0.0445 S22: 0.3587 S23: 0.3498 REMARK 3 S31: -0.1893 S32: -0.3396 S33: -0.1970 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: { A|177 - A|193 } REMARK 3 ORIGIN FOR THE GROUP (A): 0.4229 -4.6732 25.8226 REMARK 3 T TENSOR REMARK 3 T11: -0.0148 T22: -0.0676 REMARK 3 T33: -0.0399 T12: -0.0480 REMARK 3 T13: 0.0375 T23: -0.0244 REMARK 3 L TENSOR REMARK 3 L11: 4.2535 L22: 1.1311 REMARK 3 L33: 0.2466 L12: -0.6260 REMARK 3 L13: 1.0385 L23: 0.3967 REMARK 3 S TENSOR REMARK 3 S11: -0.1034 S12: 0.0440 S13: -0.2227 REMARK 3 S21: 0.2702 S22: 0.0428 S23: 0.2333 REMARK 3 S31: 0.1689 S32: -0.3479 S33: 0.0606 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: { A|194 - A|198 } REMARK 3 ORIGIN FOR THE GROUP (A): 19.5645 -6.3293 22.9727 REMARK 3 T TENSOR REMARK 3 T11: -0.1163 T22: 0.0206 REMARK 3 T33: -0.0507 T12: 0.0035 REMARK 3 T13: 0.0249 T23: -0.0090 REMARK 3 L TENSOR REMARK 3 L11: 1.0068 L22: 1.9912 REMARK 3 L33: -0.4051 L12: -1.9181 REMARK 3 L13: -2.0700 L23: 2.9548 REMARK 3 S TENSOR REMARK 3 S11: -0.0533 S12: 0.2178 S13: -0.1275 REMARK 3 S21: -0.1919 S22: -0.1784 S23: -0.2915 REMARK 3 S31: 0.3873 S32: 0.0552 S33: 0.2317 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: { A|199 - A|214 } REMARK 3 ORIGIN FOR THE GROUP (A): 18.2548 -2.9938 13.5762 REMARK 3 T TENSOR REMARK 3 T11: 0.0229 T22: 0.1842 REMARK 3 T33: 0.0108 T12: 0.0198 REMARK 3 T13: 0.1065 T23: -0.0300 REMARK 3 L TENSOR REMARK 3 L11: -0.8703 L22: 2.8142 REMARK 3 L33: 1.5236 L12: -0.9689 REMARK 3 L13: 1.9939 L23: -0.7888 REMARK 3 S TENSOR REMARK 3 S11: 0.0296 S12: 0.1164 S13: 0.0737 REMARK 3 S21: -0.6359 S22: -0.1888 S23: -0.3217 REMARK 3 S31: 0.1192 S32: 0.5311 S33: 0.1593 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: { A|215 - A|244 } REMARK 3 ORIGIN FOR THE GROUP (A): 5.4251 0.8337 12.1040 REMARK 3 T TENSOR REMARK 3 T11: -0.1346 T22: -0.0634 REMARK 3 T33: -0.1626 T12: -0.0300 REMARK 3 T13: 0.0388 T23: -0.0281 REMARK 3 L TENSOR REMARK 3 L11: 0.6457 L22: 2.4458 REMARK 3 L33: 2.0140 L12: -1.9589 REMARK 3 L13: 0.1161 L23: -0.5731 REMARK 3 S TENSOR REMARK 3 S11: -0.0148 S12: 0.3122 S13: -0.0898 REMARK 3 S21: -0.2436 S22: -0.0949 S23: -0.0134 REMARK 3 S31: 0.2051 S32: -0.0475 S33: 0.1097 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: { A|245 - A|290 } REMARK 3 ORIGIN FOR THE GROUP (A): 6.3825 10.2782 18.9385 REMARK 3 T TENSOR REMARK 3 T11: 0.0168 T22: 0.0475 REMARK 3 T33: 0.0198 T12: 0.0024 REMARK 3 T13: 0.0089 T23: -0.0012 REMARK 3 L TENSOR REMARK 3 L11: 1.2199 L22: 1.1459 REMARK 3 L33: 1.7715 L12: 0.4821 REMARK 3 L13: -0.2818 L23: 0.0954 REMARK 3 S TENSOR REMARK 3 S11: -0.0585 S12: 0.3184 S13: 0.0860 REMARK 3 S21: -0.1460 S22: 0.0158 S23: 0.1675 REMARK 3 S31: -0.1229 S32: -0.1418 S33: 0.0427 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: { A|291 - A|302 } REMARK 3 ORIGIN FOR THE GROUP (A): -8.5403 9.6545 20.9165 REMARK 3 T TENSOR REMARK 3 T11: -0.0246 T22: 0.0935 REMARK 3 T33: 0.0261 T12: 0.0547 REMARK 3 T13: -0.0293 T23: 0.0113 REMARK 3 L TENSOR REMARK 3 L11: -2.1562 L22: 1.2329 REMARK 3 L33: 2.3685 L12: -3.0725 REMARK 3 L13: 5.0483 L23: 3.3031 REMARK 3 S TENSOR REMARK 3 S11: 0.0702 S12: 0.4998 S13: -0.0175 REMARK 3 S21: -0.1957 S22: -0.1149 S23: 0.3239 REMARK 3 S31: -0.4329 S32: -0.3499 S33: 0.0447 REMARK 3 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: { C|1 - C|12 } REMARK 3 ORIGIN FOR THE GROUP (A): 23.4092 16.2976 11.6181 REMARK 3 T TENSOR REMARK 3 T11: -0.1869 T22: -0.1340 REMARK 3 T33: -0.1504 T12: -0.1116 REMARK 3 T13: 0.0564 T23: 0.0620 REMARK 3 L TENSOR REMARK 3 L11: 4.1926 L22: 3.7322 REMARK 3 L33: 7.8249 L12: 0.3531 REMARK 3 L13: -3.3597 L23: -0.4753 REMARK 3 S TENSOR REMARK 3 S11: 0.3282 S12: 0.5944 S13: 0.4213 REMARK 3 S21: -0.3201 S22: 0.2067 S23: -0.0403 REMARK 3 S31: 0.0234 S32: -0.1644 S33: -0.5349 REMARK 3 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: { C|13 - C|28 } REMARK 3 ORIGIN FOR THE GROUP (A): 21.4714 1.1749 57.4400 REMARK 3 T TENSOR REMARK 3 T11: 0.1809 T22: 0.0082 REMARK 3 T33: -0.1073 T12: 0.0187 REMARK 3 T13: -0.0267 T23: 0.0147 REMARK 3 L TENSOR REMARK 3 L11: 0.2764 L22: 3.8140 REMARK 3 L33: 0.9698 L12: -0.1772 REMARK 3 L13: 0.8132 L23: -2.1974 REMARK 3 S TENSOR REMARK 3 S11: 0.0678 S12: -0.1328 S13: 0.0132 REMARK 3 S21: 0.5991 S22: 0.0972 S23: 0.0463 REMARK 3 S31: -0.5443 S32: -0.2007 S33: -0.1649 REMARK 3 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: { D|2 - D|7 } REMARK 3 ORIGIN FOR THE GROUP (A): 26.4045 -4.0788 70.2980 REMARK 3 T TENSOR REMARK 3 T11: 0.1907 T22: -0.0379 REMARK 3 T33: -0.3173 T12: -0.1593 REMARK 3 T13: -0.0487 T23: 0.0612 REMARK 3 L TENSOR REMARK 3 L11: 13.4554 L22: 13.7909 REMARK 3 L33: 1.7122 L12: 2.3914 REMARK 3 L13: -0.0996 L23: 6.4279 REMARK 3 S TENSOR REMARK 3 S11: 0.1760 S12: -0.7112 S13: -0.0761 REMARK 3 S21: 0.8717 S22: -0.0653 S23: -0.3669 REMARK 3 S31: -0.7429 S32: 0.9449 S33: -0.1107 REMARK 3 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: { D|8 - D|28 } REMARK 3 ORIGIN FOR THE GROUP (A): 23.0713 9.5070 31.4277 REMARK 3 T TENSOR REMARK 3 T11: -0.0742 T22: -0.0824 REMARK 3 T33: -0.0818 T12: -0.0371 REMARK 3 T13: 0.0177 T23: 0.0002 REMARK 3 L TENSOR REMARK 3 L11: 1.0964 L22: 2.3558 REMARK 3 L33: 2.3816 L12: 0.3346 REMARK 3 L13: -0.9012 L23: -1.5008 REMARK 3 S TENSOR REMARK 3 S11: 0.0278 S12: 0.0178 S13: 0.0772 REMARK 3 S21: 0.0803 S22: 0.0599 S23: -0.0247 REMARK 3 S31: -0.1713 S32: 0.5812 S33: -0.0877 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5T2W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-AUG-16. REMARK 100 THE DEPOSITION ID IS D_1000223540. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-MAR-16 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97946 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17671 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 39.830 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 10.10 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 4.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.27 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.20 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 0.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 5HF7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG3350, AMMONIUM CHLORIDE, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 300K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 41.76500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.95000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 41.76500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 25.95000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5510 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17320 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -31.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 SER A 82 REMARK 465 LYS A 83 REMARK 465 LYS A 84 REMARK 465 SER A 85 REMARK 465 GLY A 86 REMARK 465 LYS A 87 REMARK 465 SER A 88 REMARK 465 ALA A 89 REMARK 465 LYS A 90 REMARK 465 SER A 91 REMARK 465 LYS A 92 REMARK 465 GLU A 93 REMARK 465 LYS A 94 REMARK 465 GLN A 95 REMARK 465 GLU A 96 REMARK 465 LYS A 97 REMARK 465 ILE A 98 REMARK 465 THR A 99 REMARK 465 ASP A 100 REMARK 465 THR A 101 REMARK 465 PHE A 102 REMARK 465 LYS A 103 REMARK 465 VAL A 104 REMARK 465 LYS A 105 REMARK 465 ARG A 106 REMARK 465 LYS A 107 REMARK 465 GLU A 303 REMARK 465 ARG A 304 REMARK 465 ASN A 305 REMARK 465 MET A 306 REMARK 465 ASP A 307 REMARK 465 VAL A 308 REMARK 465 DA D 1 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 184 CG CD CE NZ REMARK 470 GLU A 194 CG CD OE1 OE2 REMARK 470 LYS A 240 CD CE NZ REMARK 470 LYS A 248 CD CE NZ REMARK 470 LYS A 300 CE NZ REMARK 470 ILE A 302 CG1 CG2 CD1 REMARK 470 DT C 28 N1 C2 O2 N3 C4 O4 C5 REMARK 470 DT C 28 C7 C6 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DA D 16 O3' XFC D 17 P -0.080 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 DC C 24 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DC D 13 O4' - C1' - N1 ANGL. DEV. = 1.8 DEGREES REMARK 500 XFC D 17 O3' - P - O5' ANGL. DEV. = 13.8 DEGREES REMARK 500 DG D 23 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DA D 24 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LYS A 248 -70.14 -39.29 REMARK 500 ASN A 249 32.71 -99.01 REMARK 500 REMARK 500 REMARK: NULL DBREF 5T2W A 82 308 UNP Q13569 TDG_HUMAN 82 308 DBREF 5T2W C 1 28 PDB 5T2W 5T2W 1 28 DBREF 5T2W D 1 28 PDB 5T2W 5T2W 1 28 SEQRES 1 A 227 SER LYS LYS SER GLY LYS SER ALA LYS SER LYS GLU LYS SEQRES 2 A 227 GLN GLU LYS ILE THR ASP THR PHE LYS VAL LYS ARG LYS SEQRES 3 A 227 VAL ASP ARG PHE ASN GLY VAL SER GLU ALA GLU LEU LEU SEQRES 4 A 227 THR LYS THR LEU PRO ASP ILE LEU THR PHE ASN LEU ASP SEQRES 5 A 227 ILE VAL ILE ILE GLY ILE ASN PRO GLY LEU MET ALA ALA SEQRES 6 A 227 TYR LYS GLY HIS HIS TYR PRO GLY PRO GLY ASN HIS PHE SEQRES 7 A 227 TRP LYS CYS LEU PHE MET SER GLY LEU SER GLU VAL GLN SEQRES 8 A 227 LEU ASN HIS MET ASP ASP HIS THR LEU PRO GLY LYS TYR SEQRES 9 A 227 GLY ILE GLY PHE THR ASN MET VAL GLU ARG THR THR PRO SEQRES 10 A 227 GLY SER LYS ASP LEU SER SER LYS GLU PHE ARG GLU GLY SEQRES 11 A 227 GLY ARG ILE LEU VAL GLN LYS LEU GLN LYS TYR GLN PRO SEQRES 12 A 227 ARG ILE ALA VAL PHE ASN GLY LYS CYS ILE TYR GLU ILE SEQRES 13 A 227 PHE SER LYS GLU VAL PHE GLY VAL LYS VAL LYS ASN LEU SEQRES 14 A 227 GLU PHE GLY LEU GLN PRO HIS LYS ILE PRO ASP THR GLU SEQRES 15 A 227 THR LEU CYS TYR VAL MET PRO SER SER SER ALA ARG CYS SEQRES 16 A 227 ALA GLN PHE PRO ARG ALA GLN ASP LYS VAL HIS TYR TYR SEQRES 17 A 227 ILE LYS LEU LYS ASP LEU ARG ASP GLN LEU LYS GLY ILE SEQRES 18 A 227 GLU ARG ASN MET ASP VAL SEQRES 1 C 28 DC DA DG DC DT DC DT DG DT DA DC DG DT SEQRES 2 C 28 DG DA DG DC DG DA DT DG DG DA DC DA DG SEQRES 3 C 28 DC DT SEQRES 1 D 28 DA DG DC DT DG DT DC DC DA DT DC DG DC SEQRES 2 D 28 DT DC DA XFC DG DT DA DC DA DG DA DG DC SEQRES 3 D 28 DT DG HET XFC D 17 22 HETNAM XFC 4-AMINO-1-(2-DEOXY-2-FLUORO-5-O-PHOSPHONO-BETA-D- HETNAM 2 XFC ARABINOFURANOSYL)-2-OXO-1,2-DIHYDROPYRIMIDINE-5- HETNAM 3 XFC CARBALDEHYDE FORMUL 3 XFC C10 H13 F N3 O8 P FORMUL 4 HOH *153(H2 O) HELIX 1 AA1 SER A 115 LEU A 120 1 6 HELIX 2 AA2 GLY A 142 GLY A 149 1 8 HELIX 3 AA3 HIS A 158 SER A 166 1 9 HELIX 4 AA4 ASN A 174 HIS A 179 5 6 HELIX 5 AA5 THR A 180 GLY A 186 1 7 HELIX 6 AA6 GLY A 199 LEU A 203 5 5 HELIX 7 AA7 SER A 204 GLN A 223 1 20 HELIX 8 AA8 GLY A 231 GLY A 244 1 14 HELIX 9 AA9 ARG A 281 ASP A 284 5 4 HELIX 10 AB1 LYS A 285 ILE A 302 1 18 SHEET 1 AA1 5 ILE A 187 ASN A 191 0 SHEET 2 AA1 5 ILE A 134 GLY A 138 1 N ILE A 136 O GLY A 188 SHEET 3 AA1 5 ILE A 226 ASN A 230 1 O VAL A 228 N ILE A 137 SHEET 4 AA1 5 LEU A 265 MET A 269 1 O LEU A 265 N ALA A 227 SHEET 5 AA1 5 GLY A 253 LEU A 254 -1 N GLY A 253 O VAL A 268 LINK O3' DA D 16 P XFC D 17 1555 1555 1.53 LINK O3' XFC D 17 P DG D 18 1555 1555 1.59 CISPEP 1 GLY A 154 PRO A 155 0 -4.46 CRYST1 83.530 51.900 82.030 90.00 101.52 90.00 C 1 2 1 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.011972 0.000000 0.002440 0.00000 SCALE2 0.000000 0.019268 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012441 0.00000 MASTER 555 0 1 10 5 0 0 6 0 0 0 24 END