HEADER CELL CYCLE 04-DEC-13 4CHT TITLE CRYSTAL STRUCTURE OF THE HUMAN TOPOISOMERASE III ALPHA-RMI1 COMPLEX TITLE 2 WITH BOUND CALCIUM ION COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA TOPOISOMERASE 3-ALPHA; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DNA TOPOISOMERASE III ALPHA; COMPND 5 EC: 5.99.1.2; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: RECQ-MEDIATED GENOME INSTABILITY PROTEIN 1; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: RESIDUES 1-219; COMPND 11 SYNONYM: BLM-ASSOCIATED PROTEIN OF 75 KDA, BLAP75, FAAP75; COMPND 12 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 6 EXPRESSION_SYSTEM_COMMON: CABBAGE LOOPER; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: HIGH FIVE; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: TRICHOPLUSIA NI; SOURCE 15 EXPRESSION_SYSTEM_COMMON: CABBAGE LOOPER; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 7111; SOURCE 17 EXPRESSION_SYSTEM_CELL_LINE: HIGH FIVE; SOURCE 18 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS KEYWDS CELL CYCLE, DOUBLE HOLLIDAY JUNCTION DISSOLUTION, DECATENATION, KEYWDS 2 MINIMAL DISSOLVASOME EXPDTA X-RAY DIFFRACTION AUTHOR N.BOCQUET,R.D.BUNKER,N.H.THOMA REVDAT 5 20-DEC-23 4CHT 1 REMARK LINK REVDAT 4 03-APR-19 4CHT 1 SOURCE REVDAT 3 19-MAR-14 4CHT 1 JRNL REVDAT 2 19-FEB-14 4CHT 1 JRNL REVDAT 1 12-FEB-14 4CHT 0 JRNL AUTH N.BOCQUET,A.H.BIZARD,W.ABDULRAHMAN,N.B.LARSEN,M.FATY, JRNL AUTH 2 S.CAVADINI,R.D.BUNKER,S.C.KOWALCZYKOWSKI,P.CEJKA, JRNL AUTH 3 I.D.HICKSON,N.H.THOMA JRNL TITL STRUCTURAL AND MECHANISTIC INSIGHT INTO HOLLIDAY-JUNCTION JRNL TITL 2 DISSOLUTION BY TOPOISOMERASE IIIALPHA AND RMI1 JRNL REF NAT.STRUCT.MOL.BIOL. V. 21 261 2014 JRNL REFN ISSN 1545-9993 JRNL PMID 24509834 JRNL DOI 10.1038/NSMB.2775 REMARK 2 REMARK 2 RESOLUTION. 3.25 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.11.4 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) : 3.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 65.05 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 27665 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) : 0.198 REMARK 3 R VALUE (WORKING SET) : 0.197 REMARK 3 FREE R VALUE : 0.225 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.010 REMARK 3 FREE R VALUE TEST SET COUNT : 1387 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 : 14 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 3.25 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 3.37 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.69 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2852 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2525 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2704 REMARK 3 BIN R VALUE (WORKING SET) : 0.2511 REMARK 3 BIN FREE R VALUE : 0.2784 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.19 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 148 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 : 6632 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 5 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 89.41 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 80.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -11.60370 REMARK 3 B22 (A**2) : -11.60370 REMARK 3 B33 (A**2) : 23.20750 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 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.686 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 2.132 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.354 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 1.559 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.357 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 : 0.909 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.883 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 6780 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 9201 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 3174 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 185 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 968 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 6780 ; 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 : 880 ; 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 : 7358 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.06 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 2.70 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 3.06 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN A REMARK 3 ORIGIN FOR THE GROUP (A): -20.8570 7.5318 31.4422 REMARK 3 T TENSOR REMARK 3 T11: 0.0176 T22: -0.0894 REMARK 3 T33: -0.0718 T12: -0.1140 REMARK 3 T13: 0.0294 T23: 0.0032 REMARK 3 L TENSOR REMARK 3 L11: 0.3742 L22: 1.3161 REMARK 3 L33: 1.6020 L12: -0.1078 REMARK 3 L13: -0.0354 L23: 0.3820 REMARK 3 S TENSOR REMARK 3 S11: -0.0329 S12: 0.0190 S13: -0.0488 REMARK 3 S21: -0.1020 S22: 0.0141 S23: 0.1493 REMARK 3 S31: -0.1197 S32: 0.1845 S33: 0.0188 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN B REMARK 3 ORIGIN FOR THE GROUP (A): -50.0420 -13.2211 -9.5263 REMARK 3 T TENSOR REMARK 3 T11: 0.0405 T22: 0.0959 REMARK 3 T33: -0.0722 T12: -0.0398 REMARK 3 T13: -0.1129 T23: -0.0202 REMARK 3 L TENSOR REMARK 3 L11: 2.2447 L22: 2.8362 REMARK 3 L33: 2.9437 L12: 2.4964 REMARK 3 L13: 2.1915 L23: 2.6712 REMARK 3 S TENSOR REMARK 3 S11: -0.1807 S12: -0.0932 S13: 0.1736 REMARK 3 S21: -0.0888 S22: -0.0971 S23: 0.0743 REMARK 3 S31: -0.2908 S32: -0.1666 S33: 0.2778 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4CHT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-DEC-13. REMARK 100 THE DEPOSITION ID IS D_1290059149. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-SEP-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.000 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27765 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.250 REMARK 200 RESOLUTION RANGE LOW (A) : 65.050 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 5.300 REMARK 200 R MERGE (I) : 0.16000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.45 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 0.78000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 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: PDB ENTRY 4CGY REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 77.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 5.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 8% (W/V) PEG 5000 MME, 200 MM CALCIUM REMARK 280 CITRATE, 100 MM TRIS/HCL PH 7.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 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 -Y+1/2,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+3/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+1/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+3/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 190.81000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 46.68000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 46.68000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 95.40500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 46.68000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 46.68000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 286.21500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 46.68000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 46.68000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 95.40500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 46.68000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 46.68000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 286.21500 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 190.81000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.2 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 GLY A -1 REMARK 465 GLY A 0 REMARK 465 ARG A 1 REMARK 465 ILE A 2 REMARK 465 PHE A 3 REMARK 465 PRO A 4 REMARK 465 VAL A 5 REMARK 465 ALA A 6 REMARK 465 ARG A 7 REMARK 465 TYR A 8 REMARK 465 ALA A 9 REMARK 465 LEU A 10 REMARK 465 ARG A 11 REMARK 465 TRP A 12 REMARK 465 LEU A 13 REMARK 465 ARG A 14 REMARK 465 ARG A 15 REMARK 465 PRO A 16 REMARK 465 GLU A 17 REMARK 465 ASP A 18 REMARK 465 ARG A 19 REMARK 465 ALA A 20 REMARK 465 GLU A 640 REMARK 465 LEU A 641 REMARK 465 ALA A 642 REMARK 465 GLN A 643 REMARK 465 GLN A 644 REMARK 465 GLU A 645 REMARK 465 ASP A 646 REMARK 465 ILE A 647 REMARK 465 TYR A 648 REMARK 465 PRO A 649 REMARK 465 ALA A 650 REMARK 465 MET A 651 REMARK 465 PRO A 652 REMARK 465 GLU A 653 REMARK 465 PRO A 654 REMARK 465 ILE A 655 REMARK 465 ARG A 656 REMARK 465 LYS A 657 REMARK 465 CYS A 658 REMARK 465 PRO A 659 REMARK 465 GLN A 660 REMARK 465 CYS A 661 REMARK 465 ASN A 662 REMARK 465 LYS A 663 REMARK 465 ASP A 664 REMARK 465 MET A 665 REMARK 465 VAL A 666 REMARK 465 LEU A 667 REMARK 465 LYS A 668 REMARK 465 THR A 669 REMARK 465 LYS A 670 REMARK 465 LYS A 671 REMARK 465 ASN A 672 REMARK 465 GLY A 673 REMARK 465 GLY A 674 REMARK 465 PHE A 675 REMARK 465 TYR A 676 REMARK 465 LEU A 677 REMARK 465 SER A 678 REMARK 465 CYS A 679 REMARK 465 MET A 680 REMARK 465 GLY A 681 REMARK 465 PHE A 682 REMARK 465 PRO A 683 REMARK 465 GLU A 684 REMARK 465 CYS A 685 REMARK 465 ARG A 686 REMARK 465 SER A 687 REMARK 465 ALA A 688 REMARK 465 VAL A 689 REMARK 465 TRP A 690 REMARK 465 LEU A 691 REMARK 465 PRO A 692 REMARK 465 ASP A 693 REMARK 465 SER A 694 REMARK 465 VAL A 695 REMARK 465 LEU A 696 REMARK 465 GLU A 697 REMARK 465 ALA A 698 REMARK 465 SER A 699 REMARK 465 ARG A 700 REMARK 465 ASP A 701 REMARK 465 SER A 702 REMARK 465 SER A 703 REMARK 465 VAL A 704 REMARK 465 CYS A 705 REMARK 465 PRO A 706 REMARK 465 VAL A 707 REMARK 465 CYS A 708 REMARK 465 GLN A 709 REMARK 465 PRO A 710 REMARK 465 HIS A 711 REMARK 465 PRO A 712 REMARK 465 VAL A 713 REMARK 465 TYR A 714 REMARK 465 ARG A 715 REMARK 465 LEU A 716 REMARK 465 LYS A 717 REMARK 465 LEU A 718 REMARK 465 LYS A 719 REMARK 465 PHE A 720 REMARK 465 LYS A 721 REMARK 465 ARG A 722 REMARK 465 GLY A 723 REMARK 465 SER A 724 REMARK 465 LEU A 725 REMARK 465 PRO A 726 REMARK 465 PRO A 727 REMARK 465 THR A 728 REMARK 465 MET A 729 REMARK 465 PRO A 730 REMARK 465 LEU A 731 REMARK 465 GLU A 732 REMARK 465 PHE A 733 REMARK 465 VAL A 734 REMARK 465 CYS A 735 REMARK 465 CYS A 736 REMARK 465 ILE A 737 REMARK 465 GLY A 738 REMARK 465 GLY A 739 REMARK 465 CYS A 740 REMARK 465 ASP A 741 REMARK 465 ASP A 742 REMARK 465 THR A 743 REMARK 465 LEU A 744 REMARK 465 ARG A 745 REMARK 465 GLU A 746 REMARK 465 ILE A 747 REMARK 465 LEU A 748 REMARK 465 ASP A 749 REMARK 465 LEU A 750 REMARK 465 ARG A 751 REMARK 465 PHE A 752 REMARK 465 SER A 753 REMARK 465 MET B 1 REMARK 465 VAL B 217 REMARK 465 VAL B 218 REMARK 465 SER B 219 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 PHE A 21 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG A 59 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 66 CG CD CE NZ REMARK 470 GLU A 124 CG CD OE1 OE2 REMARK 470 ARG A 228 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 277 CG CD CE NZ REMARK 470 GLU A 366 CG CD OE1 OE2 REMARK 470 LYS A 557 CG CD CE NZ REMARK 470 TYR A 577 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 GLN A 611 CG CD OE1 NE2 REMARK 470 ASN B 40 CG OD1 ND2 REMARK 470 GLU B 75 CG CD OE1 OE2 REMARK 470 LYS B 105 CG CD CE NZ REMARK 470 GLN B 121 CG CD OE1 NE2 REMARK 470 LYS B 130 CG CD CE NZ 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 LYS A 557 C - N - CA ANGL. DEV. = 15.7 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 TYR A 78 57.87 36.80 REMARK 500 THR A 87 -168.75 -127.63 REMARK 500 PHE A 230 78.95 -115.70 REMARK 500 GLU A 236 9.58 54.54 REMARK 500 HIS A 288 -66.22 67.67 REMARK 500 PHE A 291 41.31 -95.31 REMARK 500 ASP A 306 65.81 74.23 REMARK 500 ARG A 399 35.37 -93.32 REMARK 500 ALA A 413 -50.51 -122.16 REMARK 500 ASN A 476 -124.63 48.80 REMARK 500 ASP A 535 37.90 73.96 REMARK 500 ASN B 38 44.13 -103.07 REMARK 500 LEU B 68 -53.83 -120.19 REMARK 500 PRO B 126 -7.77 -59.03 REMARK 500 LYS B 130 -103.07 -79.01 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 CA A1640 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 41 OE2 REMARK 620 2 HOH A2001 O 78.2 REMARK 620 3 HOH A2002 O 85.7 91.5 REMARK 620 4 HOH A2003 O 98.8 177.0 88.1 REMARK 620 5 HOH A2004 O 93.4 87.5 178.8 92.9 REMARK 620 6 HOH A2005 O 166.6 90.7 87.0 92.2 93.7 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1640 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4CGY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE HUMAN TOPOISOMERASE III ALPHA- RMI1 COMPLEX DBREF 4CHT A 2 753 UNP Q13472 TOP3A_HUMAN 2 753 DBREF 4CHT B 1 219 UNP Q9H9A7 RMI1_HUMAN 1 219 SEQADV 4CHT GLY A -1 UNP Q13472 EXPRESSION TAG SEQADV 4CHT GLY A 0 UNP Q13472 EXPRESSION TAG SEQADV 4CHT ARG A 1 UNP Q13472 EXPRESSION TAG SEQRES 1 A 755 GLY GLY ARG ILE PHE PRO VAL ALA ARG TYR ALA LEU ARG SEQRES 2 A 755 TRP LEU ARG ARG PRO GLU ASP ARG ALA PHE SER ARG ALA SEQRES 3 A 755 ALA MET GLU MET ALA LEU ARG GLY VAL ARG LYS VAL LEU SEQRES 4 A 755 CYS VAL ALA GLU LYS ASN ASP ALA ALA LYS GLY ILE ALA SEQRES 5 A 755 ASP LEU LEU SER ASN GLY ARG MET ARG ARG ARG GLU GLY SEQRES 6 A 755 LEU SER LYS PHE ASN LYS ILE TYR GLU PHE ASP TYR HIS SEQRES 7 A 755 LEU TYR GLY GLN ASN VAL THR MET VAL MET THR SER VAL SEQRES 8 A 755 SER GLY HIS LEU LEU ALA HIS ASP PHE GLN MET GLN PHE SEQRES 9 A 755 ARG LYS TRP GLN SER CYS ASN PRO LEU VAL LEU PHE GLU SEQRES 10 A 755 ALA GLU ILE GLU LYS TYR CYS PRO GLU ASN PHE VAL ASP SEQRES 11 A 755 ILE LYS LYS THR LEU GLU ARG GLU THR ARG GLN CYS GLN SEQRES 12 A 755 ALA LEU VAL ILE TRP THR ASP CYS ASP ARG GLU GLY GLU SEQRES 13 A 755 ASN ILE GLY PHE GLU ILE ILE HIS VAL CYS LYS ALA VAL SEQRES 14 A 755 LYS PRO ASN LEU GLN VAL LEU ARG ALA ARG PHE SER GLU SEQRES 15 A 755 ILE THR PRO HIS ALA VAL ARG THR ALA CYS GLU ASN LEU SEQRES 16 A 755 THR GLU PRO ASP GLN ARG VAL SER ASP ALA VAL ASP VAL SEQRES 17 A 755 ARG GLN GLU LEU ASP LEU ARG ILE GLY ALA ALA PHE THR SEQRES 18 A 755 ARG PHE GLN THR LEU ARG LEU GLN ARG ILE PHE PRO GLU SEQRES 19 A 755 VAL LEU ALA GLU GLN LEU ILE SER TYR GLY SER CYS GLN SEQRES 20 A 755 PHE PRO THR LEU GLY PHE VAL VAL GLU ARG PHE LYS ALA SEQRES 21 A 755 ILE GLN ALA PHE VAL PRO GLU ILE PHE HIS ARG ILE LYS SEQRES 22 A 755 VAL THR HIS ASP HIS LYS ASP GLY ILE VAL GLU PHE ASN SEQRES 23 A 755 TRP LYS ARG HIS ARG LEU PHE ASN HIS THR ALA CYS LEU SEQRES 24 A 755 VAL LEU TYR GLN LEU CYS VAL GLU ASP PRO MET ALA THR SEQRES 25 A 755 VAL VAL GLU VAL ARG SER LYS PRO LYS SER LYS TRP ARG SEQRES 26 A 755 PRO GLN ALA LEU ASP THR VAL GLU LEU GLU LYS LEU ALA SEQRES 27 A 755 SER ARG LYS LEU ARG ILE ASN ALA LYS GLU THR MET ARG SEQRES 28 A 755 ILE ALA GLU LYS LEU TYR THR GLN GLY TYR ILE SER TYR SEQRES 29 A 755 PRO ARG THR GLU THR ASN ILE PHE PRO ARG ASP LEU ASN SEQRES 30 A 755 LEU THR VAL LEU VAL GLU GLN GLN THR PRO ASP PRO ARG SEQRES 31 A 755 TRP GLY ALA PHE ALA GLN SER ILE LEU GLU ARG GLY GLY SEQRES 32 A 755 PRO THR PRO ARG ASN GLY ASN LYS SER ASP GLN ALA HIS SEQRES 33 A 755 PRO PRO ILE HIS PRO THR LYS TYR THR ASN ASN LEU GLN SEQRES 34 A 755 GLY ASP GLU GLN ARG LEU TYR GLU PHE ILE VAL ARG HIS SEQRES 35 A 755 PHE LEU ALA CYS CYS SER GLN ASP ALA GLN GLY GLN GLU SEQRES 36 A 755 THR THR VAL GLU ILE ASP ILE ALA GLN GLU ARG PHE VAL SEQRES 37 A 755 ALA HIS GLY LEU MET ILE LEU ALA ARG ASN TYR LEU ASP SEQRES 38 A 755 VAL TYR PRO TYR ASP HIS TRP SER ASP LYS ILE LEU PRO SEQRES 39 A 755 VAL TYR GLU GLN GLY SER HIS PHE GLN PRO SER THR VAL SEQRES 40 A 755 GLU MET VAL ASP GLY GLU THR SER PRO PRO LYS LEU LEU SEQRES 41 A 755 THR GLU ALA ASP LEU ILE ALA LEU MET GLU LYS HIS GLY SEQRES 42 A 755 ILE GLY THR ASP ALA THR HIS ALA GLU HIS ILE GLU THR SEQRES 43 A 755 ILE LYS ALA ARG MET TYR VAL GLY LEU THR PRO ASP LYS SEQRES 44 A 755 ARG PHE LEU PRO GLY HIS LEU GLY MET GLY LEU VAL GLU SEQRES 45 A 755 GLY TYR ASP SER MET GLY TYR GLU MET SER LYS PRO ASP SEQRES 46 A 755 LEU ARG ALA GLU LEU GLU ALA ASP LEU LYS LEU ILE CYS SEQRES 47 A 755 ASP GLY LYS LYS ASP LYS PHE VAL VAL LEU ARG GLN GLN SEQRES 48 A 755 VAL GLN LYS TYR LYS GLN VAL PHE ILE GLU ALA VAL ALA SEQRES 49 A 755 LYS ALA LYS LYS LEU ASP GLU ALA LEU ALA GLN TYR PHE SEQRES 50 A 755 GLY ASN GLY THR GLU LEU ALA GLN GLN GLU ASP ILE TYR SEQRES 51 A 755 PRO ALA MET PRO GLU PRO ILE ARG LYS CYS PRO GLN CYS SEQRES 52 A 755 ASN LYS ASP MET VAL LEU LYS THR LYS LYS ASN GLY GLY SEQRES 53 A 755 PHE TYR LEU SER CYS MET GLY PHE PRO GLU CYS ARG SER SEQRES 54 A 755 ALA VAL TRP LEU PRO ASP SER VAL LEU GLU ALA SER ARG SEQRES 55 A 755 ASP SER SER VAL CYS PRO VAL CYS GLN PRO HIS PRO VAL SEQRES 56 A 755 TYR ARG LEU LYS LEU LYS PHE LYS ARG GLY SER LEU PRO SEQRES 57 A 755 PRO THR MET PRO LEU GLU PHE VAL CYS CYS ILE GLY GLY SEQRES 58 A 755 CYS ASP ASP THR LEU ARG GLU ILE LEU ASP LEU ARG PHE SEQRES 59 A 755 SER SEQRES 1 B 219 MET ASN VAL THR SER ILE ALA LEU ARG ALA GLU THR TRP SEQRES 2 B 219 LEU LEU ALA ALA TRP HIS VAL LYS VAL PRO PRO MET TRP SEQRES 3 B 219 LEU GLU ALA CYS ILE ASN TRP ILE GLN GLU GLU ASN ASN SEQRES 4 B 219 ASN VAL ASN LEU SER GLN ALA GLN MET ASN LYS GLN VAL SEQRES 5 B 219 PHE GLU GLN TRP LEU LEU THR ASP LEU ARG ASP LEU GLU SEQRES 6 B 219 HIS PRO LEU LEU PRO ASP GLY ILE LEU GLU ILE PRO LYS SEQRES 7 B 219 GLY GLU LEU ASN GLY PHE TYR ALA LEU GLN ILE ASN SER SEQRES 8 B 219 LEU VAL ASP VAL SER GLN PRO ALA TYR SER GLN ILE GLN SEQRES 9 B 219 LYS LEU ARG GLY LYS ASN THR THR ASN ASP LEU VAL THR SEQRES 10 B 219 ALA GLU ALA GLN VAL THR PRO LYS PRO TRP GLU ALA LYS SEQRES 11 B 219 PRO SER ARG MET LEU MET LEU GLN LEU THR ASP GLY ILE SEQRES 12 B 219 VAL GLN ILE GLN GLY MET GLU TYR GLN PRO ILE PRO ILE SEQRES 13 B 219 LEU HIS SER ASP LEU PRO PRO GLY THR LYS ILE LEU ILE SEQRES 14 B 219 TYR GLY ASN ILE SER PHE ARG LEU GLY VAL LEU LEU LEU SEQRES 15 B 219 LYS PRO GLU ASN VAL LYS VAL LEU GLY GLY GLU VAL ASP SEQRES 16 B 219 ALA LEU LEU GLU GLU TYR ALA GLN GLU LYS VAL LEU ALA SEQRES 17 B 219 ARG LEU ILE GLY GLU PRO ASP LEU VAL VAL SER HET CA A1640 1 HETNAM CA CALCIUM ION FORMUL 3 CA CA 2+ FORMUL 4 HOH *5(H2 O) HELIX 1 1 SER A 22 ARG A 31 1 10 HELIX 2 2 LYS A 42 ASN A 55 1 14 HELIX 3 3 GLN A 99 LYS A 104 1 6 HELIX 4 4 TRP A 105 CYS A 108 5 4 HELIX 5 5 ASN A 109 GLU A 115 5 7 HELIX 6 6 PRO A 123 ASN A 125 5 3 HELIX 7 7 PHE A 126 CYS A 140 1 15 HELIX 8 8 ASP A 150 ALA A 166 1 17 HELIX 9 9 THR A 182 ASN A 192 1 11 HELIX 10 10 ASP A 197 PHE A 230 1 34 HELIX 11 11 PHE A 230 ALA A 235 1 6 HELIX 12 12 CYS A 244 PHE A 262 1 19 HELIX 13 13 ASN A 292 GLU A 305 1 14 HELIX 14 14 ASP A 328 LYS A 339 1 12 HELIX 15 15 ASN A 343 GLN A 357 1 15 HELIX 16 16 ASN A 375 GLN A 382 1 8 HELIX 17 17 TRP A 389 ARG A 399 1 11 HELIX 18 18 GLN A 427 CYS A 445 1 19 HELIX 19 19 ARG A 475 VAL A 480 5 6 HELIX 20 20 THR A 519 HIS A 530 1 12 HELIX 21 21 THR A 537 ARG A 548 1 12 HELIX 22 22 GLY A 562 SER A 574 1 13 HELIX 23 23 PRO A 582 ASP A 597 1 16 HELIX 24 24 ASP A 601 LYS A 623 1 23 HELIX 25 25 ALA A 624 GLY A 636 1 13 HELIX 26 26 VAL B 3 HIS B 19 1 17 HELIX 27 27 PRO B 23 ASN B 38 1 16 HELIX 28 28 SER B 44 THR B 59 1 16 HELIX 29 29 ASP B 60 LEU B 64 5 5 HELIX 30 30 PRO B 98 ARG B 107 1 10 HELIX 31 31 THR B 112 VAL B 116 5 5 HELIX 32 32 LYS B 125 LYS B 130 1 6 HELIX 33 33 LYS B 183 GLU B 185 5 3 HELIX 34 34 VAL B 194 TYR B 201 1 8 HELIX 35 35 ALA B 202 LEU B 210 1 9 SHEET 1 AA 6 ARG A 59 ARG A 61 0 SHEET 2 AA 6 ILE A 70 LEU A 77 -1 O ILE A 70 N ARG A 61 SHEET 3 AA 6 GLN A 80 SER A 88 -1 O GLN A 80 N LEU A 77 SHEET 4 AA 6 LYS A 35 ALA A 40 1 O VAL A 36 N VAL A 85 SHEET 5 AA 6 ALA A 142 TRP A 146 1 O ALA A 142 N LEU A 37 SHEET 6 AA 6 GLN A 172 ARG A 175 1 O GLN A 172 N LEU A 143 SHEET 1 AB 2 ALA A 95 PHE A 98 0 SHEET 2 AB 2 ILE A 118 TYR A 121 -1 O GLU A 119 N ASP A 97 SHEET 1 AC 7 HIS A 499 PHE A 500 0 SHEET 2 AC 7 ALA A 309 LYS A 321 -1 O ALA A 309 N PHE A 500 SHEET 3 AC 7 ALA A 449 ILE A 460 -1 O ALA A 449 N LYS A 321 SHEET 4 AC 7 GLU A 463 ALA A 474 -1 O GLU A 463 N ILE A 460 SHEET 5 AC 7 GLY A 279 TRP A 285 -1 O ASN A 284 N VAL A 466 SHEET 6 AC 7 ILE A 266 HIS A 276 -1 O ILE A 270 N TRP A 285 SHEET 7 AC 7 THR A 504 GLU A 511 -1 O THR A 504 N THR A 273 SHEET 1 AD 2 VAL A 551 LEU A 553 0 SHEET 2 AD 2 PHE A 559 PRO A 561 -1 O LEU A 560 N GLY A 552 SHEET 1 BA 8 LYS B 78 LEU B 81 0 SHEET 2 BA 8 ILE B 173 ARG B 176 -1 O ILE B 173 N LEU B 81 SHEET 3 BA 8 VAL B 179 LEU B 182 -1 O VAL B 179 N ARG B 176 SHEET 4 BA 8 GLN B 145 GLU B 150 1 O GLN B 147 N LEU B 180 SHEET 5 BA 8 LEU B 135 THR B 140 -1 O LEU B 135 N GLU B 150 SHEET 6 BA 8 TYR B 85 ASP B 94 -1 O GLN B 88 N THR B 140 SHEET 7 BA 8 LYS B 166 ILE B 169 -1 O ILE B 167 N LEU B 87 SHEET 8 BA 8 VAL B 187 GLY B 191 -1 O LYS B 188 N LEU B 168 LINK OE2 GLU A 41 CA CA A1640 1555 1555 2.27 LINK CA CA A1640 O HOH A2001 1555 1555 2.14 LINK CA CA A1640 O HOH A2002 1555 1555 2.14 LINK CA CA A1640 O HOH A2003 1555 1555 2.15 LINK CA CA A1640 O HOH A2004 1555 1555 2.15 LINK CA CA A1640 O HOH A2005 1555 1555 2.17 CISPEP 1 ASP A 556 LYS A 557 0 -0.67 CISPEP 2 LYS B 130 PRO B 131 0 -16.63 SITE 1 AC1 6 GLU A 41 HOH A2001 HOH A2002 HOH A2003 SITE 2 AC1 6 HOH A2004 HOH A2005 CRYST1 93.360 93.360 381.620 90.00 90.00 90.00 P 41 21 2 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 0.010711 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010711 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002620 0.00000