HEADER ISOMERASE/DNA 30-MAR-26 25EC TITLE CRYSTAL STRUCTURE OF A HUMAN TOPOISOMERASE II BETA-DNA CLEAVAGE TITLE 2 COMPLEX TRAPPED IN N-GATE DISSOCIATED STATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA TOPOISOMERASE 2-BETA; COMPND 3 CHAIN: B; COMPND 4 SYNONYM: DNA TOPOISOMERASE II,BETA ISOZYME; COMPND 5 EC: 5.6.2.2; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(P*TP*GP*CP*AP*GP*CP*TP*CP*GP*GP*CP*T)-3'); COMPND 9 CHAIN: D; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (5'-D(P*AP*GP*CP*CP*GP*AP*GP*C)-3'); COMPND 13 CHAIN: E; COMPND 14 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: TOP2B; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI 'BL21-GOLD(DE3)PLYSS AG'; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 866768; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: NONEA; SOURCE 11 ORGANISM_TAXID: 203745; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: NONEA; SOURCE 15 ORGANISM_TAXID: 203745 KEYWDS ISOMERASE, TOPOISOMERASE II, CATALYTIC CORE, CLEAVAGE COMPLEX, KEYWDS 2 ISOMERASE/DNA, ISOMERASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.S.ALI,W.ZHAO REVDAT 1 24-JUN-26 25EC 0 JRNL AUTH M.S.ALI,W.ZHAO,H.M.LI,J.Y.CONG,Y.J.TANG JRNL TITL THIADIAZOLE-4 BETA-SULFUR-DEMETHYLEPIPODOPHYLLOTOXIN TRAPS JRNL TITL 2 HUMAN TOPOISOMERASE II BETA BY DISTORTING DNA AND DISRUPTING JRNL TITL 3 THE TYROSYL-DNA LINKAGE. JRNL REF INT.J.BIOL.MACROMOL. V. 370 52972 2026 JRNL REFN ISSN 0141-8130 JRNL PMID 42264251 JRNL DOI 10.1016/J.IJBIOMAC.2026.152972 REMARK 2 REMARK 2 RESOLUTION. 2.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.17 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 26078 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.291 REMARK 3 R VALUE (WORKING SET) : 0.289 REMARK 3 FREE R VALUE : 0.329 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 1319 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 40.1700 - 6.0300 1.00 2976 133 0.2479 0.2532 REMARK 3 2 6.0300 - 4.7900 0.99 2756 184 0.2730 0.3013 REMARK 3 3 4.7900 - 4.1800 1.00 2760 147 0.2463 0.2638 REMARK 3 4 4.1800 - 3.8000 0.99 2762 129 0.2776 0.3765 REMARK 3 5 3.8000 - 3.5300 1.00 2715 149 0.3237 0.4033 REMARK 3 6 3.5300 - 3.3200 1.00 2723 145 0.3398 0.3580 REMARK 3 7 3.3200 - 3.1500 0.99 2710 147 0.3547 0.3954 REMARK 3 8 3.1500 - 3.0200 0.99 2697 122 0.3697 0.4540 REMARK 3 9 3.0200 - 2.9000 0.98 2660 163 0.4209 0.5423 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.494 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 36.256 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 68.11 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.55 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.003 5728 REMARK 3 ANGLE : 0.532 7846 REMARK 3 CHIRALITY : 0.039 892 REMARK 3 PLANARITY : 0.003 946 REMARK 3 DIHEDRAL : 17.129 2034 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 26.4350 -21.5221 33.2535 REMARK 3 T TENSOR REMARK 3 T11: 0.2833 T22: 0.3664 REMARK 3 T33: 0.2943 T12: -0.0002 REMARK 3 T13: 0.0267 T23: -0.0708 REMARK 3 L TENSOR REMARK 3 L11: 0.4517 L22: 0.4399 REMARK 3 L33: 0.8683 L12: 0.0796 REMARK 3 L13: 0.0608 L23: 0.0111 REMARK 3 S TENSOR REMARK 3 S11: 0.0374 S12: -0.2227 S13: 0.0474 REMARK 3 S21: 0.0508 S22: -0.0843 S23: 0.0608 REMARK 3 S31: -0.0427 S32: -0.0604 S33: 0.0379 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 25EC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBC ON 03-APR-26. REMARK 100 THE DEPOSITION ID IS D_1300072029. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-OCT-25 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.3-5.7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL10U2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979183 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26078 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.900 REMARK 200 RESOLUTION RANGE LOW (A) : 40.170 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 17.76 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 19.7200 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 (%) : 98.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.08 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50MM 2-(N-MORPHOLINO) ETHANESULFONIC REMARK 280 ACID, PH 5.5, 24% 2-METHYL-2, 4-PENTANEDIOL (MPT), 0.1M REMARK 280 MAGNESIUM CHLORIDE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 154.84800 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 77.42400 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 77.42400 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 154.84800 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: 5540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34070 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -45.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D, E 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 B 445 REMARK 465 VAL B 446 REMARK 465 LYS B 447 REMARK 465 TYR B 448 REMARK 465 SER B 449 REMARK 465 LYS B 450 REMARK 465 ILE B 451 REMARK 465 LYS B 452 REMARK 465 GLY B 453 REMARK 465 ILE B 454 REMARK 465 SER B 597 REMARK 465 LYS B 598 REMARK 465 GLU B 613 REMARK 465 TRP B 614 REMARK 465 LYS B 615 REMARK 465 LYS B 616 REMARK 465 HIS B 617 REMARK 465 ILE B 618 REMARK 465 GLU B 619 REMARK 465 ASN B 620 REMARK 465 GLN B 621 REMARK 465 LYS B 622 REMARK 465 ASP B 964 REMARK 465 LYS B 965 REMARK 465 THR B 966 REMARK 465 LYS B 1074 REMARK 465 ILE B 1075 REMARK 465 GLN B 1076 REMARK 465 GLY B 1077 REMARK 465 LYS B 1078 REMARK 465 ILE B 1079 REMARK 465 THR B 1080 REMARK 465 ILE B 1081 REMARK 465 ASP B 1088 REMARK 465 LEU B 1089 REMARK 465 ILE B 1090 REMARK 465 GLN B 1091 REMARK 465 GLY B 1097 REMARK 465 TYR B 1098 REMARK 465 GLU B 1099 REMARK 465 SER B 1100 REMARK 465 ASP B 1101 REMARK 465 PRO B 1102 REMARK 465 VAL B 1103 REMARK 465 LYS B 1112 REMARK 465 ALA B 1113 REMARK 465 ALA B 1114 REMARK 465 GLU B 1115 REMARK 465 GLU B 1116 REMARK 465 ASP B 1117 REMARK 465 GLU B 1118 REMARK 465 THR B 1119 REMARK 465 GLN B 1120 REMARK 465 ASN B 1121 REMARK 465 GLN B 1122 REMARK 465 HIS B 1123 REMARK 465 ASP B 1124 REMARK 465 ASP B 1125 REMARK 465 SER B 1126 REMARK 465 SER B 1127 REMARK 465 SER B 1128 REMARK 465 ASP B 1129 REMARK 465 SER B 1130 REMARK 465 GLY B 1131 REMARK 465 THR B 1132 REMARK 465 PRO B 1133 REMARK 465 SER B 1134 REMARK 465 GLY B 1135 REMARK 465 PRO B 1136 REMARK 465 ASP B 1137 REMARK 465 LYS B 1153 REMARK 465 VAL B 1154 REMARK 465 GLU B 1155 REMARK 465 GLU B 1156 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 PRO B 455 CG CD REMARK 470 LYS B 456 CG CD CE NZ REMARK 470 LYS B 466 CG CD CE NZ REMARK 470 LEU B 484 CG CD1 CD2 REMARK 470 ILE B 492 CG1 CG2 CD1 REMARK 470 ARG B 494 CG CD NE CZ NH1 NH2 REMARK 470 SER B 513 OG REMARK 470 LYS B 515 CG CD CE NZ REMARK 470 MET B 518 CG SD CE REMARK 470 LYS B 528 CG CD CE NZ REMARK 470 LYS B 535 CG CD CE NZ REMARK 470 GLU B 542 CG CD OE1 OE2 REMARK 470 LYS B 545 CG CD CE NZ REMARK 470 ASN B 599 CG OD1 ND2 REMARK 470 LYS B 600 CG CD CE NZ REMARK 470 LEU B 603 CG CD1 CD2 REMARK 470 PHE B 605 CG CD1 CD2 CE1 CE2 CZ REMARK 470 TYR B 606 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ILE B 608 CG1 CG2 CD1 REMARK 470 PRO B 609 CG CD REMARK 470 LYS B 625 CG CD CE NZ REMARK 470 LYS B 627 CG CD CE NZ REMARK 470 ARG B 651 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 655 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 671 CG CD CE NZ REMARK 470 LYS B 672 CG CD CE NZ REMARK 470 LYS B 673 CG CD CE NZ REMARK 470 ASP B 687 CG OD1 OD2 REMARK 470 ARG B 688 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 689 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 692 CG CD NE CZ NH1 NH2 REMARK 470 HIS B 694 CG ND1 CD2 CE1 NE2 REMARK 470 LEU B 696 CG CD1 CD2 REMARK 470 GLU B 698 CG CD OE1 OE2 REMARK 470 GLN B 699 CG CD OE1 NE2 REMARK 470 LYS B 707 CG CD CE NZ REMARK 470 LYS B 717 CG CD CE NZ REMARK 470 ASP B 754 CG OD1 OD2 REMARK 470 LYS B 755 CG CD CE NZ REMARK 470 ARG B 756 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 759 CG CD CE NZ REMARK 470 GLN B 762 CG CD OE1 NE2 REMARK 470 ARG B 820 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 849 CG OD1 ND2 REMARK 470 ARG B 851 CG CD NE CZ NH1 NH2 REMARK 470 GLN B 920 CG CD OE1 NE2 REMARK 470 ASP B 979 CG OD1 OD2 REMARK 470 LYS B1003 CG CD CE NZ REMARK 470 SER B1015 OG REMARK 470 LYS B1050 CG CD CE NZ REMARK 470 LEU B1057 CG CD1 CD2 REMARK 470 GLU B1060 CG CD OE1 OE2 REMARK 470 SER B1061 OG REMARK 470 LYS B1063 CG CD CE NZ REMARK 470 ASN B1065 CG OD1 ND2 REMARK 470 GLN B1067 CG CD OE1 NE2 REMARK 470 GLU B1082 CG CD OE1 OE2 REMARK 470 ASN B1083 CG OD1 ND2 REMARK 470 ARG B1084 CG CD NE CZ NH1 NH2 REMARK 470 SER B1085 OG REMARK 470 LYS B1087 CG CD CE NZ REMARK 470 LEU B1093 CG CD1 CD2 REMARK 470 VAL B1094 CG1 CG2 REMARK 470 GLN B1095 CG CD OE1 NE2 REMARK 470 ARG B1096 CG CD NE CZ NH1 NH2 REMARK 470 LYS B1104 CG CD CE NZ REMARK 470 TRP B1106 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B1106 CZ3 CH2 REMARK 470 LYS B1107 CG CD CE NZ REMARK 470 GLU B1108 CG CD OE1 OE2 REMARK 470 PHE B1138 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ILE B1141 CG1 CG2 CD1 REMARK 470 LEU B1142 CG CD1 CD2 REMARK 470 MET B1144 CG SD CE REMARK 470 LEU B1146 CG CD1 CD2 REMARK 470 LEU B1149 CG CD1 CD2 REMARK 470 LYS B1151 CG CD CE NZ REMARK 470 GLU B1152 CG CD OE1 OE2 REMARK 470 LEU B1157 CG CD1 CD2 REMARK 470 LYS B1159 CG CD CE NZ REMARK 470 ARG B1161 CG CD NE CZ NH1 NH2 REMARK 470 ASP B1162 CG OD1 OD2 REMARK 470 LYS B1164 CG CD CE NZ REMARK 470 ARG B1166 CG CD NE CZ NH1 NH2 REMARK 470 GLU B1167 CG CD OE1 OE2 REMARK 470 VAL B1168 CG1 CG2 REMARK 470 ASP B1170 CG OD1 OD2 REMARK 470 LEU B1171 CG CD1 CD2 REMARK 470 LYS B1172 CG CD CE NZ REMARK 470 ARG B1173 CG CD NE CZ NH1 NH2 REMARK 470 GLU B1189 CG CD OE1 OE2 REMARK 470 LYS B1193 CG CD CE NZ REMARK 470 GLU B1200 CG CD OE1 OE2 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 HIS B 467 40.57 -103.49 REMARK 500 LYS B 535 -16.89 66.57 REMARK 500 ASP B 539 -46.63 -142.26 REMARK 500 TRP B 624 -153.95 58.90 REMARK 500 LYS B 625 83.48 12.15 REMARK 500 ASP B 646 56.89 -103.04 REMARK 500 MET B 647 34.04 -70.25 REMARK 500 LYS B 673 46.33 -142.69 REMARK 500 ASP B 754 95.32 -62.01 REMARK 500 SER B 794 -106.44 -101.00 REMARK 500 VAL B 852 -154.86 -126.82 REMARK 500 PRO B 862 92.86 -68.65 REMARK 500 TYR B 976 54.92 -140.86 REMARK 500 THR B 978 -168.10 -107.27 REMARK 500 ARG B1069 24.51 -78.26 REMARK 500 ASN B1083 88.30 -56.34 REMARK 500 SER B1085 -50.33 -147.89 REMARK 500 LYS B1086 88.46 56.58 REMARK 500 ALA B1109 42.23 -89.22 REMARK 500 ASN B1139 33.76 -96.32 REMARK 500 THR B1150 -134.09 -88.66 REMARK 500 REMARK 500 REMARK: NULL DBREF 25EC B 445 1201 UNP Q02880 TOP2B_HUMAN 450 1206 DBREF 25EC D 9 20 PDB 25EC 25EC 9 20 DBREF 25EC E 1 8 PDB 25EC 25EC 1 8 SEQRES 1 B 757 SER VAL LYS TYR SER LYS ILE LYS GLY ILE PRO LYS LEU SEQRES 2 B 757 ASP ASP ALA ASN ASP ALA GLY GLY LYS HIS SER LEU GLU SEQRES 3 B 757 CYS THR LEU ILE LEU THR GLU GLY ASP SER ALA LYS SER SEQRES 4 B 757 LEU ALA VAL SER GLY LEU GLY VAL ILE GLY ARG ASP ARG SEQRES 5 B 757 TYR GLY VAL PHE PRO LEU ARG GLY LYS ILE LEU ASN VAL SEQRES 6 B 757 ARG GLU ALA SER HIS LYS GLN ILE MET GLU ASN ALA GLU SEQRES 7 B 757 ILE ASN ASN ILE ILE LYS ILE VAL GLY LEU GLN TYR LYS SEQRES 8 B 757 LYS SER TYR ASP ASP ALA GLU SER LEU LYS THR LEU ARG SEQRES 9 B 757 TYR GLY LYS ILE MET ILE MET THR ASP GLN ASP GLN ASP SEQRES 10 B 757 GLY SER HIS ILE LYS GLY LEU LEU ILE ASN PHE ILE HIS SEQRES 11 B 757 HIS ASN TRP PRO SER LEU LEU LYS HIS GLY PHE LEU GLU SEQRES 12 B 757 GLU PHE ILE THR PRO ILE VAL LYS ALA SER LYS ASN LYS SEQRES 13 B 757 GLN GLU LEU SER PHE TYR SER ILE PRO GLU PHE ASP GLU SEQRES 14 B 757 TRP LYS LYS HIS ILE GLU ASN GLN LYS ALA TRP LYS ILE SEQRES 15 B 757 LYS TYR TYR LYS GLY LEU GLY THR SER THR ALA LYS GLU SEQRES 16 B 757 ALA LYS GLU TYR PHE ALA ASP MET GLU ARG HIS ARG ILE SEQRES 17 B 757 LEU PHE ARG TYR ALA GLY PRO GLU ASP ASP ALA ALA ILE SEQRES 18 B 757 THR LEU ALA PHE SER LYS LYS LYS ILE ASP ASP ARG LYS SEQRES 19 B 757 GLU TRP LEU THR ASN PHE MET GLU ASP ARG ARG GLN ARG SEQRES 20 B 757 ARG LEU HIS GLY LEU PRO GLU GLN PHE LEU TYR GLY THR SEQRES 21 B 757 ALA THR LYS HIS LEU THR TYR ASN ASP PHE ILE ASN LYS SEQRES 22 B 757 GLU LEU ILE LEU PHE SER ASN SER ASP ASN GLU ARG SER SEQRES 23 B 757 ILE PRO SER LEU VAL ASP GLY PHE LYS PRO GLY GLN ARG SEQRES 24 B 757 LYS VAL LEU PHE THR CYS PHE LYS ARG ASN ASP LYS ARG SEQRES 25 B 757 GLU VAL LYS VAL ALA GLN LEU ALA GLY SER VAL ALA GLU SEQRES 26 B 757 MET SER ALA TYR HIS HIS GLY GLU GLN ALA LEU MET MET SEQRES 27 B 757 THR ILE VAL ASN LEU ALA GLN ASN PHE VAL GLY SER ASN SEQRES 28 B 757 ASN ILE ASN LEU LEU GLN PRO ILE GLY GLN PHE GLY THR SEQRES 29 B 757 ARG LEU HIS GLY GLY LYS ASP ALA ALA SER PRO ARG TYR SEQRES 30 B 757 ILE PHE THR MET LEU SER THR LEU ALA ARG LEU LEU PHE SEQRES 31 B 757 PRO ALA VAL ASP ASP ASN LEU LEU LYS PHE LEU TYR ASP SEQRES 32 B 757 ASP ASN GLN ARG VAL GLU PRO GLU TRP TYR ILE PRO ILE SEQRES 33 B 757 ILE PRO MET VAL LEU ILE ASN GLY ALA GLU GLY ILE GLY SEQRES 34 B 757 THR GLY TRP ALA CYS LYS LEU PRO ASN TYR ASP ALA ARG SEQRES 35 B 757 GLU ILE VAL ASN ASN VAL ARG ARG MET LEU ASP GLY LEU SEQRES 36 B 757 ASP PRO HIS PRO MET LEU PRO ASN TYR LYS ASN PHE LYS SEQRES 37 B 757 GLY THR ILE GLN GLU LEU GLY GLN ASN GLN TYR ALA VAL SEQRES 38 B 757 SER GLY GLU ILE PHE VAL VAL ASP ARG ASN THR VAL GLU SEQRES 39 B 757 ILE THR GLU LEU PRO VAL ARG THR TRP THR GLN VAL TYR SEQRES 40 B 757 LYS GLU GLN VAL LEU GLU PRO MET LEU ASN GLY THR ASP SEQRES 41 B 757 LYS THR PRO ALA LEU ILE SER ASP TYR LYS GLU TYR HIS SEQRES 42 B 757 THR ASP THR THR VAL LYS PHE VAL VAL LYS MET THR GLU SEQRES 43 B 757 GLU LYS LEU ALA GLN ALA GLU ALA ALA GLY LEU HIS LYS SEQRES 44 B 757 VAL PHE LYS LEU GLN THR THR LEU THR CYS ASN SER MET SEQRES 45 B 757 VAL LEU PHE ASP HIS MET GLY CYS LEU LYS LYS TYR GLU SEQRES 46 B 757 THR VAL GLN ASP ILE LEU LYS GLU PHE PHE ASP LEU ARG SEQRES 47 B 757 LEU SER TYR TYR GLY LEU ARG LYS GLU TRP LEU VAL GLY SEQRES 48 B 757 MET LEU GLY ALA GLU SER THR LYS LEU ASN ASN GLN ALA SEQRES 49 B 757 ARG PHE ILE LEU GLU LYS ILE GLN GLY LYS ILE THR ILE SEQRES 50 B 757 GLU ASN ARG SER LYS LYS ASP LEU ILE GLN MET LEU VAL SEQRES 51 B 757 GLN ARG GLY TYR GLU SER ASP PRO VAL LYS ALA TRP LYS SEQRES 52 B 757 GLU ALA GLN GLU LYS ALA ALA GLU GLU ASP GLU THR GLN SEQRES 53 B 757 ASN GLN HIS ASP ASP SER SER SER ASP SER GLY THR PRO SEQRES 54 B 757 SER GLY PRO ASP PHE ASN TYR ILE LEU ASN MET SER LEU SEQRES 55 B 757 TRP SER LEU THR LYS GLU LYS VAL GLU GLU LEU ILE LYS SEQRES 56 B 757 GLN ARG ASP ALA LYS GLY ARG GLU VAL ASN ASP LEU LYS SEQRES 57 B 757 ARG LYS SER PRO SER ASP LEU TRP LYS GLU ASP LEU ALA SEQRES 58 B 757 ALA PHE VAL GLU GLU LEU ASP LYS VAL GLU SER GLN GLU SEQRES 59 B 757 ARG GLU ASP SEQRES 1 D 12 DT DG DC DA DG DC DT DC DG DG DC DT SEQRES 1 E 8 DA DG DC DC DG DA DG DC HET MG B1301 1 HET MG B1302 1 HET EDO B1303 4 HET EDO B1304 4 HET EDO B1305 4 HET EDO B1306 4 HET MG D 101 1 HETNAM MG MAGNESIUM ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 4 MG 3(MG 2+) FORMUL 6 EDO 4(C2 H6 O2) FORMUL 11 HOH *8(H2 O) HELIX 1 AA1 GLY B 478 ARG B 494 1 17 HELIX 2 AA2 SER B 513 ASN B 520 1 8 HELIX 3 AA3 ASN B 520 GLY B 531 1 12 HELIX 4 AA4 ALA B 541 LYS B 545 5 5 HELIX 5 AA5 ASP B 559 TRP B 577 1 19 HELIX 6 AA6 TRP B 577 LYS B 582 1 6 HELIX 7 AA7 TYR B 606 PHE B 611 1 6 HELIX 8 AA8 GLY B 631 SER B 635 5 5 HELIX 9 AA9 THR B 636 ASP B 646 1 11 HELIX 10 AB1 GLY B 658 SER B 670 1 13 HELIX 11 AB2 LYS B 673 HIS B 694 1 22 HELIX 12 AB3 TYR B 711 GLU B 718 1 8 HELIX 13 AB4 GLU B 718 ARG B 729 1 12 HELIX 14 AB5 LYS B 739 ASN B 753 1 15 HELIX 15 AB6 VAL B 760 SER B 771 1 12 HELIX 16 AB7 GLY B 776 GLN B 789 1 14 HELIX 17 AB8 LEU B 829 PHE B 834 1 6 HELIX 18 AB9 PRO B 835 LEU B 842 5 8 HELIX 19 AC1 PRO B 862 ASN B 867 1 6 HELIX 20 AC2 ASP B 884 ASP B 897 1 14 HELIX 21 AC3 TRP B 947 VAL B 955 1 9 HELIX 22 AC4 VAL B 955 GLY B 962 1 8 HELIX 23 AC5 THR B 989 GLY B 1000 1 12 HELIX 24 AC6 GLY B 1000 PHE B 1005 1 6 HELIX 25 AC7 THR B 1030 GLN B 1067 1 38 HELIX 26 AC8 ALA B 1068 PHE B 1070 5 3 HELIX 27 AC9 LEU B 1146 THR B 1150 5 5 HELIX 28 AD1 ILE B 1158 LEU B 1171 1 14 HELIX 29 AD2 SER B 1175 ASP B 1201 1 27 SHEET 1 AA1 6 TYR B 497 LEU B 502 0 SHEET 2 AA1 6 THR B 472 GLU B 477 1 N ILE B 474 O GLY B 498 SHEET 3 AA1 6 LYS B 551 MET B 555 1 O MET B 553 N LEU B 473 SHEET 4 AA1 6 LEU B 586 PHE B 589 1 O GLU B 587 N ILE B 554 SHEET 5 AA1 6 ARG B 651 ARG B 655 -1 O ILE B 652 N GLU B 588 SHEET 6 AA1 6 HIS B 708 THR B 710 1 O LEU B 709 N ARG B 655 SHEET 1 AA2 2 VAL B 758 LYS B 759 0 SHEET 2 AA2 2 PHE B 823 THR B 824 -1 O THR B 824 N VAL B 758 SHEET 1 AA3 2 PHE B 844 ASP B 847 0 SHEET 2 AA3 2 GLN B 850 PRO B 854 -1 O GLU B 853 N LEU B 845 SHEET 1 AA4 2 GLU B 870 ILE B 872 0 SHEET 2 AA4 2 ALA B 877 LYS B 879 -1 O CYS B 878 N GLY B 871 SHEET 1 AA5 3 THR B 914 GLY B 919 0 SHEET 2 AA5 3 GLN B 922 SER B 926 -1 O ALA B 924 N GLN B 916 SHEET 3 AA5 3 GLN B1008 THR B1012 -1 O LEU B1011 N TYR B 923 SHEET 1 AA6 4 GLU B 928 ASP B 933 0 SHEET 2 AA6 4 THR B 936 GLU B 941 -1 O THR B 936 N VAL B 932 SHEET 3 AA6 4 PHE B 984 LYS B 987 -1 O PHE B 984 N ILE B 939 SHEET 4 AA6 4 ASP B 972 GLU B 975 -1 N ASP B 972 O LYS B 987 SHEET 1 AA7 2 MET B1016 PHE B1019 0 SHEET 2 AA7 2 LEU B1025 TYR B1028 -1 O TYR B1028 N MET B1016 LINK OD2 ASP B 559 MG MG B1301 1555 1555 2.29 CRYST1 92.312 92.312 232.272 90.00 90.00 120.00 P 32 2 1 6 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 0.010833 0.006254 0.000000 0.00000 SCALE2 0.000000 0.012509 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004305 0.00000 CONECT 763 5574 CONECT 5574 763 CONECT 5576 5577 5578 CONECT 5577 5576 CONECT 5578 5576 5579 CONECT 5579 5578 CONECT 5580 5581 5582 CONECT 5581 5580 CONECT 5582 5580 5583 CONECT 5583 5582 CONECT 5584 5585 5586 CONECT 5585 5584 CONECT 5586 5584 5587 CONECT 5587 5586 CONECT 5588 5589 5590 CONECT 5589 5588 CONECT 5590 5588 5591 CONECT 5591 5590 MASTER 443 0 7 29 21 0 0 6 5597 3 18 61 END