PDB Short entry for 4FM9 HEADER ISOMERASE/DNA 15-JUN-12 4FM9 TITLE HUMAN TOPOISOMERASE II ALPHA BOUND TO DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA TOPOISOMERASE 2-ALPHA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 431-1193; COMPND 5 SYNONYM: DNA TOPOISOMERASE II, ALPHA ISOZYME; COMPND 6 EC: 5.99.1.3; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: DNA (5'-D(P*GP*AP*GP*GP*AP*TP*GP*AP*CP*GP*AP*TP*G)-3'); COMPND 10 CHAIN: C; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: DNA (5'- COMPND 14 D(*CP*GP*CP*GP*CP*AP*TP*CP*GP*TP*CP*AP*TP*CP*CP*TP*C)-3'); COMPND 15 CHAIN: D; COMPND 16 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: TOP2, TOP2A; SOURCE 6 EXPRESSION_SYSTEM: SACCHAROMYCES CEREVISIAE; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 4932; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BCY123; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGAL; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 14 ORGANISM_TAXID: 32630; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 18 ORGANISM_TAXID: 32630 KEYWDS TOPOISOMERASE, DNA-BINDING, PROTEIN-DNA COMPLEX, ISOMERASE-DNA KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR T.J.WENDORFF,B.H.SCHMIDT,P.HESLOP,C.A.AUSTIN,J.M.BERGER REVDAT 3 28-FEB-24 4FM9 1 REMARK LINK REVDAT 2 12-DEC-12 4FM9 1 JRNL REVDAT 1 08-AUG-12 4FM9 0 JRNL AUTH T.J.WENDORFF,B.H.SCHMIDT,P.HESLOP,C.A.AUSTIN,J.M.BERGER JRNL TITL THE STRUCTURE OF DNA-BOUND HUMAN TOPOISOMERASE II ALPHA: JRNL TITL 2 CONFORMATIONAL MECHANISMS FOR COORDINATING INTER-SUBUNIT JRNL TITL 3 INTERACTIONS WITH DNA CLEAVAGE. JRNL REF J.MOL.BIOL. V. 424 109 2012 JRNL REFN ISSN 0022-2836 JRNL PMID 22841979 JRNL DOI 10.1016/J.JMB.2012.07.014 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.7.3_928 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.61 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 3 NUMBER OF REFLECTIONS : 25373 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.229 REMARK 3 R VALUE (WORKING SET) : 0.227 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 1285 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 49.6185 - 6.0321 0.94 2819 118 0.1996 0.2306 REMARK 3 2 6.0321 - 4.7891 0.96 2747 152 0.2049 0.2336 REMARK 3 3 4.7891 - 4.1841 0.97 2734 172 0.1754 0.2258 REMARK 3 4 4.1841 - 3.8017 0.98 2747 155 0.2186 0.2407 REMARK 3 5 3.8017 - 3.5293 0.98 2725 147 0.2596 0.3276 REMARK 3 6 3.5293 - 3.3212 0.98 2737 144 0.2803 0.3439 REMARK 3 7 3.3212 - 3.1549 0.92 2567 136 0.3048 0.3764 REMARK 3 8 3.1549 - 3.0176 0.91 2569 136 0.3569 0.4642 REMARK 3 9 3.0176 - 2.9015 0.88 2443 125 0.4459 0.4735 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.73 REMARK 3 K_SOL : 0.32 REMARK 3 B_SOL : 34.26 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.480 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 34.650 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 79.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 99.61530 REMARK 3 B22 (A**2) : 19.92270 REMARK 3 B33 (A**2) : 17.86050 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.006 6729 REMARK 3 ANGLE : 0.847 9197 REMARK 3 CHIRALITY : 0.047 1008 REMARK 3 PLANARITY : 0.004 1070 REMARK 3 DIHEDRAL : 15.548 2621 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ( CHAIN C AND RESID 1:9 ) OR ( CHAIN D AND RESID REMARK 3 9:17 ) REMARK 3 ORIGIN FOR THE GROUP (A): 35.5399 13.6481 6.0464 REMARK 3 T TENSOR REMARK 3 T11: 1.0240 T22: 0.3897 REMARK 3 T33: 0.5213 T12: 0.0708 REMARK 3 T13: -0.0232 T23: -0.1389 REMARK 3 L TENSOR REMARK 3 L11: 0.0143 L22: 0.0157 REMARK 3 L33: 0.0223 L12: -0.0241 REMARK 3 L13: 0.0018 L23: -0.0140 REMARK 3 S TENSOR REMARK 3 S11: -0.0084 S12: 0.0431 S13: -0.2617 REMARK 3 S21: -0.0398 S22: -0.0450 S23: -0.0611 REMARK 3 S31: 0.0903 S32: -0.0440 S33: -0.0000 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ( CHAIN C AND RESID 10:13 ) OR ( CHAIN D AND RESID REMARK 3 1:8 ) REMARK 3 ORIGIN FOR THE GROUP (A): 37.6521 26.8387 23.4072 REMARK 3 T TENSOR REMARK 3 T11: 0.2430 T22: 0.4078 REMARK 3 T33: 0.3230 T12: 0.0116 REMARK 3 T13: -0.2104 T23: -0.1311 REMARK 3 L TENSOR REMARK 3 L11: -0.0027 L22: 0.0649 REMARK 3 L33: 0.0181 L12: 0.0011 REMARK 3 L13: 0.0021 L23: 0.0436 REMARK 3 S TENSOR REMARK 3 S11: 0.0919 S12: -0.0856 S13: 0.0133 REMARK 3 S21: -0.0156 S22: 0.0521 S23: -0.0987 REMARK 3 S31: -0.0292 S32: 0.1007 S33: 0.0812 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ( CHAIN A AND RESID 433:576 ) REMARK 3 ORIGIN FOR THE GROUP (A): 18.0093 19.2887 33.2846 REMARK 3 T TENSOR REMARK 3 T11: -0.1707 T22: 0.2119 REMARK 3 T33: 0.4655 T12: 0.1067 REMARK 3 T13: -0.2289 T23: -0.0026 REMARK 3 L TENSOR REMARK 3 L11: 0.0612 L22: 0.0319 REMARK 3 L33: 0.0396 L12: -0.0039 REMARK 3 L13: -0.0395 L23: 0.0230 REMARK 3 S TENSOR REMARK 3 S11: -0.0632 S12: -0.2096 S13: -0.2147 REMARK 3 S21: 0.0844 S22: 0.0084 S23: 0.0078 REMARK 3 S31: 0.1335 S32: 0.0095 S33: -0.0799 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ( CHAIN A AND RESID 577:716 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.0006 39.5631 24.4730 REMARK 3 T TENSOR REMARK 3 T11: 0.1118 T22: 0.2762 REMARK 3 T33: 0.3998 T12: 0.2343 REMARK 3 T13: -0.3374 T23: 0.0184 REMARK 3 L TENSOR REMARK 3 L11: 0.1156 L22: 0.0198 REMARK 3 L33: 0.0633 L12: 0.0106 REMARK 3 L13: 0.0134 L23: -0.0230 REMARK 3 S TENSOR REMARK 3 S11: 0.1180 S12: 0.0271 S13: 0.0064 REMARK 3 S21: 0.0132 S22: 0.1490 S23: 0.2902 REMARK 3 S31: -0.2977 S32: -0.1296 S33: 0.2435 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ( CHAIN A AND RESID 717:847 ) REMARK 3 ORIGIN FOR THE GROUP (A): 43.4683 47.2138 16.5875 REMARK 3 T TENSOR REMARK 3 T11: 0.6649 T22: 0.0196 REMARK 3 T33: 0.2225 T12: -0.1256 REMARK 3 T13: -0.1868 T23: 0.0614 REMARK 3 L TENSOR REMARK 3 L11: 0.1537 L22: 0.0693 REMARK 3 L33: 0.0607 L12: 0.0638 REMARK 3 L13: -0.0569 L23: -0.0407 REMARK 3 S TENSOR REMARK 3 S11: -0.1079 S12: -0.0629 S13: -0.0781 REMARK 3 S21: -0.3194 S22: 0.1054 S23: 0.0294 REMARK 3 S31: -0.1614 S32: 0.0656 S33: -0.0230 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: ( CHAIN A AND ( RESID 848:1044 OR RESID 1163:1190 ) REMARK 3 ) REMARK 3 ORIGIN FOR THE GROUP (A): 48.5436 34.1866 0.6475 REMARK 3 T TENSOR REMARK 3 T11: 0.8195 T22: 0.2829 REMARK 3 T33: 0.1716 T12: -0.1315 REMARK 3 T13: 0.1176 T23: -0.0429 REMARK 3 L TENSOR REMARK 3 L11: 0.1766 L22: 0.1183 REMARK 3 L33: 0.1520 L12: 0.0748 REMARK 3 L13: 0.1170 L23: -0.0445 REMARK 3 S TENSOR REMARK 3 S11: -0.1948 S12: 0.1266 S13: 0.0416 REMARK 3 S21: -0.6629 S22: 0.1693 S23: -0.0040 REMARK 3 S31: -0.4652 S32: 0.0088 S33: -0.0578 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: ( CHAIN A AND RESID 1045:1162 ) REMARK 3 ORIGIN FOR THE GROUP (A): 36.7358 88.6355 10.7557 REMARK 3 T TENSOR REMARK 3 T11: 1.2475 T22: 0.1908 REMARK 3 T33: 0.4862 T12: 0.0432 REMARK 3 T13: -0.5873 T23: 0.1081 REMARK 3 L TENSOR REMARK 3 L11: 0.0384 L22: 0.0437 REMARK 3 L33: 0.0367 L12: -0.0259 REMARK 3 L13: 0.0300 L23: -0.0554 REMARK 3 S TENSOR REMARK 3 S11: -0.0762 S12: -0.1090 S13: 0.1654 REMARK 3 S21: -0.1636 S22: 0.0443 S23: -0.0362 REMARK 3 S31: -0.0267 S32: -0.0492 S33: 0.0224 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4FM9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-JUL-12. REMARK 100 THE DEPOSITION ID IS D_1000073075. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-APR-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1159 REMARK 200 MONOCHROMATOR : DOUBLE FLAT CRYSTAL, SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25479 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 80.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.3 REMARK 200 DATA REDUNDANCY : 7.200 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 11.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 91.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.50 REMARK 200 R MERGE FOR SHELL (I) : 0.71200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.1.4 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.71 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10% PEG 3000, 100MM NA-CACODYLATE, REMARK 280 200MM MGCL2, PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 64.32500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.32500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 42.95900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 107.54050 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 42.95900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 107.54050 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 64.32500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 42.95900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 107.54050 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 64.32500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 42.95900 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 107.54050 REMARK 290 SMTRY3 8 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: HEXAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 73030 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -91.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 85.91800 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 64.32500 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A1323 LIES ON A SPECIAL POSITION. 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 LYS A 431 REMARK 465 HIS A 432 REMARK 465 ALA A 1093 REMARK 465 GLN A 1094 REMARK 465 GLN A 1095 REMARK 465 LYS A 1096 REMARK 465 VAL A 1097 REMARK 465 PRO A 1098 REMARK 465 ASP A 1099 REMARK 465 GLU A 1100 REMARK 465 GLU A 1101 REMARK 465 GLU A 1102 REMARK 465 ASN A 1103 REMARK 465 GLU A 1104 REMARK 465 GLU A 1105 REMARK 465 SER A 1106 REMARK 465 ASP A 1107 REMARK 465 ASN A 1108 REMARK 465 GLU A 1109 REMARK 465 LYS A 1110 REMARK 465 GLU A 1111 REMARK 465 THR A 1112 REMARK 465 GLU A 1113 REMARK 465 LYS A 1114 REMARK 465 SER A 1115 REMARK 465 ASP A 1116 REMARK 465 SER A 1117 REMARK 465 VAL A 1118 REMARK 465 THR A 1119 REMARK 465 ASP A 1120 REMARK 465 SER A 1121 REMARK 465 GLY A 1122 REMARK 465 PRO A 1123 REMARK 465 VAL A 1191 REMARK 465 GLY A 1192 REMARK 465 LEU A 1193 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 9 O4' - C4' - C3' ANGL. DEV. = -4.0 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 TRP A 561 79.53 -159.73 REMARK 500 HIS A 567 3.31 -66.64 REMARK 500 PRO A 603 -168.75 -77.58 REMARK 500 LYS A 606 4.35 81.72 REMARK 500 ASN A 774 43.10 -152.51 REMARK 500 SER A 778 -84.10 -106.20 REMARK 500 ASP A 823 1.96 -69.23 REMARK 500 ASN A 833 -7.20 78.76 REMARK 500 VAL A 836 -151.86 -125.42 REMARK 500 PRO A 838 -168.99 -78.95 REMARK 500 PRO A 890 131.98 -37.28 REMARK 500 LYS A 967 97.20 -161.11 REMARK 500 ILE A1064 72.64 -117.22 REMARK 500 ASN A1067 -3.23 62.94 REMARK 500 LEU A1136 41.25 -83.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A1201 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 543 OD2 REMARK 620 2 HOH A1301 O 61.8 REMARK 620 3 HOH A1327 O 65.2 75.9 REMARK 620 4 HOH C 202 O 155.5 102.6 132.4 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 1201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 1202 DBREF 4FM9 A 431 1193 UNP P11388 TOP2A_HUMAN 431 1193 DBREF 4FM9 C 1 13 PDB 4FM9 4FM9 1 13 DBREF 4FM9 D 1 17 PDB 4FM9 4FM9 1 17 SEQRES 1 A 763 LYS HIS ASN ARG ILE LYS GLY ILE PRO LYS LEU ASP ASP SEQRES 2 A 763 ALA ASN ASP ALA GLY GLY ARG ASN SER THR GLU CYS THR SEQRES 3 A 763 LEU ILE LEU THR GLU GLY ASP SER ALA LYS THR LEU ALA SEQRES 4 A 763 VAL SER GLY LEU GLY VAL VAL GLY ARG ASP LYS TYR GLY SEQRES 5 A 763 VAL PHE PRO LEU ARG GLY LYS ILE LEU ASN VAL ARG GLU SEQRES 6 A 763 ALA SER HIS LYS GLN ILE MET GLU ASN ALA GLU ILE ASN SEQRES 7 A 763 ASN ILE ILE LYS ILE VAL GLY LEU GLN TYR LYS LYS ASN SEQRES 8 A 763 TYR GLU ASP GLU ASP SER LEU LYS THR LEU ARG TYR GLY SEQRES 9 A 763 LYS ILE MET ILE MET THR ASP GLN ASP GLN ASP GLY SER SEQRES 10 A 763 HIS ILE LYS GLY LEU LEU ILE ASN PHE ILE HIS HIS ASN SEQRES 11 A 763 TRP PRO SER LEU LEU ARG HIS ARG PHE LEU GLU GLU PHE SEQRES 12 A 763 ILE THR PRO ILE VAL LYS VAL SER LYS ASN LYS GLN GLU SEQRES 13 A 763 MET ALA PHE TYR SER LEU PRO GLU PHE GLU GLU TRP LYS SEQRES 14 A 763 SER SER THR PRO ASN HIS LYS LYS TRP LYS VAL LYS TYR SEQRES 15 A 763 TYR LYS GLY LEU GLY THR SER THR SER LYS GLU ALA LYS SEQRES 16 A 763 GLU TYR PHE ALA ASP MET LYS ARG HIS ARG ILE GLN PHE SEQRES 17 A 763 LYS TYR SER GLY PRO GLU ASP ASP ALA ALA ILE SER LEU SEQRES 18 A 763 ALA PHE SER LYS LYS GLN ILE ASP ASP ARG LYS GLU TRP SEQRES 19 A 763 LEU THR ASN PHE MET GLU ASP ARG ARG GLN ARG LYS LEU SEQRES 20 A 763 LEU GLY LEU PRO GLU ASP TYR LEU TYR GLY GLN THR THR SEQRES 21 A 763 THR TYR LEU THR TYR ASN ASP PHE ILE ASN LYS GLU LEU SEQRES 22 A 763 ILE LEU PHE SER ASN SER ASP ASN GLU ARG SER ILE PRO SEQRES 23 A 763 SER MET VAL ASP GLY LEU LYS PRO GLY GLN ARG LYS VAL SEQRES 24 A 763 LEU PHE THR CYS PHE LYS ARG ASN ASP LYS ARG GLU VAL SEQRES 25 A 763 LYS VAL ALA GLN LEU ALA GLY SER VAL ALA GLU MET SER SEQRES 26 A 763 SER TYR HIS HIS GLY GLU MET SER LEU MET MET THR ILE SEQRES 27 A 763 ILE ASN LEU ALA GLN ASN PHE VAL GLY SER ASN ASN LEU SEQRES 28 A 763 ASN LEU LEU GLN PRO ILE GLY GLN PHE GLY THR ARG LEU SEQRES 29 A 763 HIS GLY GLY LYS ASP SER ALA SER PRO ARG TYR ILE PHE SEQRES 30 A 763 THR MET LEU SER SER LEU ALA ARG LEU LEU PHE PRO PRO SEQRES 31 A 763 LYS ASP ASP HIS THR LEU LYS PHE LEU TYR ASP ASP ASN SEQRES 32 A 763 GLN ARG VAL GLU PRO GLU TRP TYR ILE PRO ILE ILE PRO SEQRES 33 A 763 MET VAL LEU ILE ASN GLY ALA GLU GLY ILE GLY THR GLY SEQRES 34 A 763 TRP SER CYS LYS ILE PRO ASN PHE ASP VAL ARG GLU ILE SEQRES 35 A 763 VAL ASN ASN ILE ARG ARG LEU MET ASP GLY GLU GLU PRO SEQRES 36 A 763 LEU PRO MET LEU PRO SER TYR LYS ASN PHE LYS GLY THR SEQRES 37 A 763 ILE GLU GLU LEU ALA PRO ASN GLN TYR VAL ILE SER GLY SEQRES 38 A 763 GLU VAL ALA ILE LEU ASN SER THR THR ILE GLU ILE SER SEQRES 39 A 763 GLU LEU PRO VAL ARG THR TRP THR GLN THR TYR LYS GLU SEQRES 40 A 763 GLN VAL LEU GLU PRO MET LEU ASN GLY THR GLU LYS THR SEQRES 41 A 763 PRO PRO LEU ILE THR ASP TYR ARG GLU TYR HIS THR ASP SEQRES 42 A 763 THR THR VAL LYS PHE VAL VAL LYS MET THR GLU GLU LYS SEQRES 43 A 763 LEU ALA GLU ALA GLU ARG VAL GLY LEU HIS LYS VAL PHE SEQRES 44 A 763 LYS LEU GLN THR SER LEU THR CYS ASN SER MET VAL LEU SEQRES 45 A 763 PHE ASP HIS VAL GLY CYS LEU LYS LYS TYR ASP THR VAL SEQRES 46 A 763 LEU ASP ILE LEU ARG ASP PHE PHE GLU LEU ARG LEU LYS SEQRES 47 A 763 TYR TYR GLY LEU ARG LYS GLU TRP LEU LEU GLY MET LEU SEQRES 48 A 763 GLY ALA GLU SER ALA LYS LEU ASN ASN GLN ALA ARG PHE SEQRES 49 A 763 ILE LEU GLU LYS ILE ASP GLY LYS ILE ILE ILE GLU ASN SEQRES 50 A 763 LYS PRO LYS LYS GLU LEU ILE LYS VAL LEU ILE GLN ARG SEQRES 51 A 763 GLY TYR ASP SER ASP PRO VAL LYS ALA TRP LYS GLU ALA SEQRES 52 A 763 GLN GLN LYS VAL PRO ASP GLU GLU GLU ASN GLU GLU SER SEQRES 53 A 763 ASP ASN GLU LYS GLU THR GLU LYS SER ASP SER VAL THR SEQRES 54 A 763 ASP SER GLY PRO THR PHE ASN TYR LEU LEU ASP MET PRO SEQRES 55 A 763 LEU TRP TYR LEU THR LYS GLU LYS LYS ASP GLU LEU CYS SEQRES 56 A 763 ARG LEU ARG ASN GLU LYS GLU GLN GLU LEU ASP THR LEU SEQRES 57 A 763 LYS ARG LYS SER PRO SER ASP LEU TRP LYS GLU ASP LEU SEQRES 58 A 763 ALA THR PHE ILE GLU GLU LEU GLU ALA VAL GLU ALA LYS SEQRES 59 A 763 GLU LYS GLN ASP GLU GLN VAL GLY LEU SEQRES 1 C 13 DG DA DG DG DA DT DG DA DC DG DA DT DG SEQRES 1 D 17 DC DG DC DG DC DA DT DC DG DT DC DA DT SEQRES 2 D 17 DC DC DT DC HET MG A1201 1 HET GOL A1202 6 HET MG C 101 1 HETNAM MG MAGNESIUM ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 4 MG 2(MG 2+) FORMUL 5 GOL C3 H8 O3 FORMUL 7 HOH *44(H2 O) HELIX 1 1 ASN A 451 GLU A 454 5 4 HELIX 2 2 GLY A 462 GLY A 477 1 16 HELIX 3 3 SER A 497 ASN A 504 1 8 HELIX 4 4 ASN A 504 GLY A 515 1 12 HELIX 5 5 ASP A 524 LEU A 531 1 8 HELIX 6 6 ASP A 543 TRP A 561 1 19 HELIX 7 7 TRP A 561 HIS A 567 1 7 HELIX 8 8 SER A 591 THR A 602 1 12 HELIX 9 9 GLY A 615 SER A 619 5 5 HELIX 10 10 THR A 620 ASP A 630 1 11 HELIX 11 11 ASP A 630 HIS A 634 1 5 HELIX 12 12 PRO A 643 SER A 654 1 12 HELIX 13 13 GLN A 657 GLY A 679 1 23 HELIX 14 14 TYR A 695 GLU A 702 1 8 HELIX 15 15 GLU A 702 ILE A 715 1 14 HELIX 16 16 LYS A 723 ARG A 736 1 14 HELIX 17 17 VAL A 744 SER A 755 1 12 HELIX 18 18 GLU A 761 GLN A 773 1 13 HELIX 19 19 SER A 811 PHE A 818 1 8 HELIX 20 20 LYS A 821 THR A 825 5 5 HELIX 21 21 TYR A 830 GLN A 834 5 5 HELIX 22 22 ASP A 868 GLY A 882 1 15 HELIX 23 23 TRP A 931 VAL A 939 1 9 HELIX 24 24 VAL A 939 ASN A 945 1 7 HELIX 25 25 THR A 973 GLY A 984 1 12 HELIX 26 26 GLY A 984 PHE A 989 1 6 HELIX 27 27 THR A 1014 ASP A 1060 1 47 HELIX 28 28 PRO A 1069 GLY A 1081 1 13 HELIX 29 29 ASP A 1085 GLU A 1092 1 8 HELIX 30 30 PHE A 1125 ASP A 1130 1 6 HELIX 31 31 THR A 1137 LYS A 1161 1 25 HELIX 32 32 SER A 1162 GLN A 1190 1 29 SHEET 1 A 6 TYR A 481 LEU A 486 0 SHEET 2 A 6 THR A 456 GLU A 461 1 N THR A 460 O LEU A 486 SHEET 3 A 6 LYS A 535 MET A 539 1 O MET A 539 N LEU A 459 SHEET 4 A 6 LEU A 570 PHE A 573 1 O GLU A 571 N ILE A 538 SHEET 5 A 6 ARG A 635 LYS A 639 -1 O ILE A 636 N GLU A 572 SHEET 6 A 6 TYR A 692 THR A 694 1 O LEU A 693 N LYS A 639 SHEET 1 B 3 GLU A 586 PHE A 589 0 SHEET 2 B 3 VAL A 578 SER A 581 -1 N VAL A 578 O PHE A 589 SHEET 3 B 3 LYS A 609 TYR A 612 -1 O LYS A 609 N SER A 581 SHEET 1 C 2 VAL A 742 LYS A 743 0 SHEET 2 C 2 PHE A 807 THR A 808 -1 O THR A 808 N VAL A 742 SHEET 1 D 2 ALA A 853 ILE A 856 0 SHEET 2 D 2 SER A 861 ILE A 864 -1 O CYS A 862 N GLY A 855 SHEET 1 E 3 THR A 898 ALA A 903 0 SHEET 2 E 3 GLN A 906 SER A 910 -1 O SER A 910 N THR A 898 SHEET 3 E 3 GLN A 992 THR A 996 -1 O THR A 993 N ILE A 909 SHEET 1 F 4 VAL A 913 ALA A 914 0 SHEET 2 F 4 ILE A 921 ILE A 923 -1 O GLU A 922 N ALA A 914 SHEET 3 F 4 PHE A 968 LYS A 971 -1 O VAL A 970 N ILE A 921 SHEET 4 F 4 ASP A 956 GLU A 959 -1 N ASP A 956 O LYS A 971 SHEET 1 G 2 VAL A1001 PHE A1003 0 SHEET 2 G 2 LEU A1009 LYS A1011 -1 O LYS A1010 N LEU A1002 LINK OD2 ASP A 543 MG MG A1201 1555 1555 2.00 LINK MG MG A1201 O HOH A1301 1555 1555 2.32 LINK MG MG A1201 O HOH A1327 1555 1555 2.23 LINK MG MG A1201 O HOH C 202 1555 1555 2.09 SITE 1 AC1 7 ASP A 541 ASP A 543 LYS A 614 TYR A 805 SITE 2 AC1 7 HOH A1301 HOH A1327 HOH C 202 SITE 1 AC2 4 SER A 547 SER A 591 LEU A 592 GLU A 702 CRYST1 85.918 215.081 128.650 90.00 90.00 90.00 C 2 2 21 8 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 0.011639 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004649 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007773 0.00000