HEADER ISOMERASE 24-APR-10 2XCO TITLE THE 3.1A CRYSTAL STRUCTURE OF THE CATALYTIC CORE (B'A' TITLE 2 REGION) OF STAPHYLOCOCCUS AUREUS DNA GYRASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA GYRASE SUBUNIT B, DNA GYRASE SUBUNIT A; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL 27KDA DOMAIN, RESIDUES 410-644, N-TERMINAL COMPND 5 56KDA DOMAIN, RESIDUES 2-491; COMPND 6 EC: 5.99.1.3; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: C-TERMINUS GYRB (A644) FUSED TO N-TERMINUS GYRA COMPND 9 (A1002) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 158879; SOURCE 4 STRAIN: N315; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR B.D.BAX,P.F.CHAN,D.S.EGGLESTON,A.FOSBERRY,D.R.GENTRY,F.GORREC, AUTHOR 2 I.GIORDANO,M.M.HANN,A.HENNESSY,M.HIBBS,J.HUANG,E.JONES,J.JONES, AUTHOR 3 K.K.BROWN,C.J.LEWIS,E.W.MAY,O.SINGH,C.SPITZFADEN,C.SHEN,A.SHILLINGS, AUTHOR 4 A.F.THEOBALD,A.WOHLKONIG,N.D.PEARSON,M.N.GWYNN REVDAT 3 25-AUG-10 2XCO 1 JRNL REVDAT 2 18-AUG-10 2XCO 1 JRNL REVDAT 1 04-AUG-10 2XCO 0 JRNL AUTH B.D.BAX,P.F.CHAN,D.S.EGGLESTON,A.FOSBERRY,D.R.GENTRY, JRNL AUTH 2 F.GORREC,I.GIORDANO,M.M.HANN,A.HENNESSY,M.HIBBS,J.HUANG, JRNL AUTH 3 E.JONES,J.JONES,K.K.BROWN,C.J.LEWIS,E.W.MAY,M.R.SAUNDERS, JRNL AUTH 4 O.SINGH,C.SPITZFADEN,C.SHEN,A.SHILLINGS,A.F.THEOBALD, JRNL AUTH 5 A.WOHLKONIG,N.D.PEARSON,M.N.GWYNN JRNL TITL TYPE IIA TOPOISOMERASE INHIBITION BY A NEW CLASS JRNL TITL 2 OF ANTIBACTERIAL AGENTS. JRNL REF NATURE V. 466 935 2010 JRNL REFN ISSN 0028-0836 JRNL PMID 20686482 JRNL DOI 10.1038/NATURE09197 REMARK 2 REMARK 2 RESOLUTION. 3.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT 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) : 3.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 24.732 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.35 REMARK 3 COMPLETENESS FOR RANGE (%) : 91.23 REMARK 3 NUMBER OF REFLECTIONS : 17229 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.2204 REMARK 3 R VALUE (WORKING SET) : 0.2169 REMARK 3 FREE R VALUE : 0.2850 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.1 REMARK 3 FREE R VALUE TEST SET COUNT : 880 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 24.7327 - 5.6149 0.85 2758 122 0.2359 0.3137 REMARK 3 2 5.6149 - 4.4653 0.89 2699 146 0.1883 0.2345 REMARK 3 3 4.4653 - 3.9033 0.92 2702 158 0.1780 0.2511 REMARK 3 4 3.9033 - 3.5476 0.93 2736 160 0.2138 0.2804 REMARK 3 5 3.5476 - 3.2939 0.94 2724 140 0.2379 0.3428 REMARK 3 6 3.2939 - 3.1001 0.95 2730 154 0.2713 0.3328 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.342 REMARK 3 B_SOL : 47.568 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.42 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 26.57 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 61.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 61.2 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.8830 REMARK 3 B22 (A**2) : 3.8830 REMARK 3 B33 (A**2) : -7.7659 REMARK 3 B12 (A**2) : -0.0000 REMARK 3 B13 (A**2) : -0.0000 REMARK 3 B23 (A**2) : -0.0000 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 : 0.004 5005 REMARK 3 ANGLE : 0.806 6754 REMARK 3 CHIRALITY : 0.055 773 REMARK 3 PLANARITY : 0.003 889 REMARK 3 DIHEDRAL : 19.185 1887 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 5 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ((CHAIN A AND (RESID 413:543 OR RESID REMARK 3 581:606))) REMARK 3 ORIGIN FOR THE GROUP (A): -3.1142 105.4454 7.4663 REMARK 3 T TENSOR REMARK 3 T11: 0.3613 T22: 0.3526 REMARK 3 T33: 0.3115 T12: -0.0727 REMARK 3 T13: 0.0213 T23: 0.0910 REMARK 3 L TENSOR REMARK 3 L11: 0.4711 L22: 0.2916 REMARK 3 L33: 0.2179 L12: -0.1890 REMARK 3 L13: 0.1808 L23: -0.2476 REMARK 3 S TENSOR REMARK 3 S11: -0.0448 S12: 0.0163 S13: 0.3550 REMARK 3 S21: 0.0801 S22: -0.0739 S23: -0.0816 REMARK 3 S31: -0.5756 S32: 0.2485 S33: -0.0004 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: ((CHAIN A AND (RESID 544:580))) REMARK 3 ORIGIN FOR THE GROUP (A): -28.1239 99.2041 6.2874 REMARK 3 T TENSOR REMARK 3 T11: 0.3861 T22: 0.7924 REMARK 3 T33: 0.4724 T12: -0.0842 REMARK 3 T13: -0.1345 T23: 0.2137 REMARK 3 L TENSOR REMARK 3 L11: 0.0282 L22: 0.0344 REMARK 3 L33: 0.0210 L12: 0.0146 REMARK 3 L13: -0.0026 L23: 0.0335 REMARK 3 S TENSOR REMARK 3 S11: -0.0829 S12: 0.2013 S13: -0.1722 REMARK 3 S21: -0.1804 S22: -0.0862 S23: 0.7045 REMARK 3 S31: -0.1374 S32: -0.2068 S33: -0.0007 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: ((CHAIN A AND (RESID 1027:1244 OR RESID 1329:1368 REMARK 3 OR RESID 1461:1490))) REMARK 3 ORIGIN FOR THE GROUP (A): -31.7582 112.3662 41.4734 REMARK 3 T TENSOR REMARK 3 T11: 0.2093 T22: 0.1741 REMARK 3 T33: 0.1895 T12: -0.0668 REMARK 3 T13: 0.0026 T23: 0.0176 REMARK 3 L TENSOR REMARK 3 L11: 0.7188 L22: 0.6211 REMARK 3 L33: 0.7564 L12: -0.2601 REMARK 3 L13: -0.2332 L23: 0.1442 REMARK 3 S TENSOR REMARK 3 S11: 0.0697 S12: 0.1049 S13: -0.0019 REMARK 3 S21: -0.0468 S22: -0.0499 S23: 0.0766 REMARK 3 S31: -0.0861 S32: -0.0260 S33: -0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: ((CHAIN A AND (RESID 1245:1328))) REMARK 3 ORIGIN FOR THE GROUP (A): -7.0573 124.8967 60.3905 REMARK 3 T TENSOR REMARK 3 T11: 0.1687 T22: -0.0823 REMARK 3 T33: 0.2163 T12: -0.4263 REMARK 3 T13: -0.0163 T23: -0.0804 REMARK 3 L TENSOR REMARK 3 L11: -0.0055 L22: 0.1618 REMARK 3 L33: 0.0363 L12: -0.0736 REMARK 3 L13: -0.0388 L23: 0.0788 REMARK 3 S TENSOR REMARK 3 S11: -0.0198 S12: 0.0263 S13: 0.2422 REMARK 3 S21: 0.1158 S22: 0.0429 S23: 0.0252 REMARK 3 S31: -0.2688 S32: 0.3832 S33: 0.0990 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: ((CHAIN A AND (RESID 1369:1460))) REMARK 3 ORIGIN FOR THE GROUP (A): -61.9890 83.1984 32.4391 REMARK 3 T TENSOR REMARK 3 T11: 0.0760 T22: 0.5531 REMARK 3 T33: 0.2551 T12: -0.1267 REMARK 3 T13: -0.0230 T23: -0.0504 REMARK 3 L TENSOR REMARK 3 L11: 0.1661 L22: 0.0273 REMARK 3 L33: 0.1048 L12: -0.1447 REMARK 3 L13: -0.1439 L23: 0.0098 REMARK 3 S TENSOR REMARK 3 S11: 0.0357 S12: -0.0787 S13: 0.0707 REMARK 3 S21: 0.0571 S22: -0.1807 S23: 0.1450 REMARK 3 S31: 0.0076 S32: -0.3717 S33: -0.0222 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 2XCO COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-APR-10. REMARK 100 THE PDBE ID CODE IS EBI-43712. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9393 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17229 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.10 REMARK 200 RESOLUTION RANGE LOW (A) : 25.00 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 200 DATA REDUNDANCY : 3.4 REMARK 200 R MERGE (I) : 0.14 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.30 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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: OTHER REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 6% PEG 1,000, 0.15M CALCIUM REMARK 280 ACETATE, 100MM IMIDAZOLE, PH 8.0 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 136.86100 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 273.72200 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 205.29150 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 342.15250 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 68.43050 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 136.86100 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 273.72200 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 342.15250 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 205.29150 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 68.43050 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: 3910 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40600 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.2 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 0.500000 0.866025 0.000000 -89.91700 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 155.74081 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 68.43050 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 CA CA A1500 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 MET A 409 REMARK 465 ASP A 410 REMARK 465 VAL A 411 REMARK 465 ALA A 412 REMARK 465 VAL A 464 REMARK 465 GLU A 465 REMARK 465 LYS A 466 REMARK 465 ALA A 467 REMARK 465 ARG A 468 REMARK 465 ILE A 489 REMARK 465 GLY A 490 REMARK 465 GLY A 491 REMARK 465 ASP A 492 REMARK 465 PHE A 493 REMARK 465 ASP A 494 REMARK 465 GLY A 550 REMARK 465 LEU A 569 REMARK 465 ASN A 570 REMARK 465 PRO A 571 REMARK 465 THR A 572 REMARK 465 PRO A 573 REMARK 465 LYS A 574 REMARK 465 TRP A 575 REMARK 465 LEU A 608 REMARK 465 GLU A 609 REMARK 465 ASP A 610 REMARK 465 ALA A 611 REMARK 465 ILE A 612 REMARK 465 GLU A 613 REMARK 465 ALA A 614 REMARK 465 ASP A 615 REMARK 465 GLN A 616 REMARK 465 THR A 617 REMARK 465 PHE A 618 REMARK 465 GLU A 619 REMARK 465 MET A 620 REMARK 465 LEU A 621 REMARK 465 MET A 622 REMARK 465 GLY A 623 REMARK 465 ASP A 624 REMARK 465 VAL A 625 REMARK 465 VAL A 626 REMARK 465 GLU A 627 REMARK 465 ASN A 628 REMARK 465 ARG A 629 REMARK 465 ARG A 630 REMARK 465 GLN A 631 REMARK 465 PHE A 632 REMARK 465 ILE A 633 REMARK 465 GLU A 634 REMARK 465 ASP A 635 REMARK 465 ASN A 636 REMARK 465 ALA A 637 REMARK 465 VAL A 638 REMARK 465 TYR A 639 REMARK 465 ALA A 640 REMARK 465 ASN A 641 REMARK 465 LEU A 642 REMARK 465 ASP A 643 REMARK 465 PHE A 644 REMARK 465 ALA A 1002 REMARK 465 GLU A 1003 REMARK 465 LEU A 1004 REMARK 465 PRO A 1005 REMARK 465 GLN A 1006 REMARK 465 SER A 1007 REMARK 465 ARG A 1008 REMARK 465 ILE A 1009 REMARK 465 ASN A 1010 REMARK 465 GLU A 1011 REMARK 465 ARG A 1012 REMARK 465 ASN A 1013 REMARK 465 ILE A 1014 REMARK 465 THR A 1015 REMARK 465 SER A 1016 REMARK 465 GLU A 1017 REMARK 465 MET A 1018 REMARK 465 ARG A 1019 REMARK 465 GLU A 1020 REMARK 465 SER A 1021 REMARK 465 PHE A 1022 REMARK 465 LEU A 1023 REMARK 465 ASP A 1024 REMARK 465 TYR A 1025 REMARK 465 ALA A 1026 REMARK 465 ILE A 1175 REMARK 465 ALA A 1176 REMARK 465 VAL A 1177 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 MET A1027 CG SD CE REMARK 470 LYS A1310 CG CD CE NZ REMARK 470 ASP A1311 CG OD1 OD2 REMARK 470 GLN A1324 CG CD OE1 NE2 REMARK 470 LYS A 417 CG CD CE NZ REMARK 470 GLU A1447 CG CD OE1 OE2 REMARK 470 LYS A 460 CG CD CE NZ REMARK 470 ASN A 463 CG OD1 ND2 REMARK 470 LEU A 469 CG CD1 CD2 REMARK 470 ARG A 471 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 472 CG1 CG2 CD1 REMARK 470 LEU A 473 CG CD1 CD2 REMARK 470 GLY A1491 CA C O REMARK 470 LEU A 495 CG CD1 CD2 REMARK 470 LYS A 497 CG CD CE NZ REMARK 470 TYR A 525 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A 526 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 529 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 546 CG CD CE NZ REMARK 470 LEU A 547 CG CD1 CD2 REMARK 470 LYS A 551 CG CD CE NZ REMARK 470 GLN A 552 CG CD OE1 NE2 REMARK 470 LYS A 553 CG CD CE NZ REMARK 470 TYR A 554 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG A 560 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 563 CG OD1 OD2 REMARK 470 LYS A 564 CG CD CE NZ REMARK 470 LEU A 565 CG CD1 CD2 REMARK 470 LYS A 566 CG CD CE NZ REMARK 470 LYS A 607 CA C O CB CG CD CE NZ 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 ALA A 439 37.37 -158.67 REMARK 500 ILE A 472 -175.68 -171.60 REMARK 500 MET A 528 44.04 -153.84 REMARK 500 VAL A1031 -88.04 -59.06 REMARK 500 PRO A1044 -56.96 -26.11 REMARK 500 MET A1058 58.38 -93.36 REMARK 500 PRO A1102 135.53 -39.79 REMARK 500 ALA A1162 72.55 50.61 REMARK 500 PRO A1165 79.15 -66.47 REMARK 500 ALA A1221 -128.13 64.30 REMARK 500 SER A1228 -73.69 -56.97 REMARK 500 ARG A1252 -146.48 -128.13 REMARK 500 GLN A1267 1.55 58.95 REMARK 500 LYS A1284 25.10 45.78 REMARK 500 ASP A1291 148.31 -170.30 REMARK 500 ASN A1334 80.22 -171.68 REMARK 500 HIS A1390 37.41 -91.41 REMARK 500 THR A1434 171.03 -56.28 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 A1500 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2001 O REMARK 620 2 HOH A2001 O 112.9 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A1500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XCS RELATED DB: PDB REMARK 900 THE 2.1A CRYSTAL STRUCTURE OF S. AUREUS REMARK 900 GYRASE COMPLEX WITH GSK299423 AND DNA REMARK 900 RELATED ID: 2XCT RELATED DB: PDB REMARK 900 THE TWINNED 3.35A STRUCTURE OF S. AUREUS REMARK 900 GYRASE COMPLEX WITH CIPROFLOXACIN AND DNA REMARK 900 RELATED ID: 2XCR RELATED DB: PDB REMARK 900 THE 3.5A CRYSTAL STRUCTURE OF THE REMARK 900 CATALYTIC CORE (B'A' REGION) OF REMARK 900 STAPHYLOCOCCUS AUREUS DNA GYRASE COMPLEXED REMARK 900 WITH GSK299423 AND DNA REMARK 900 RELATED ID: 2XCQ RELATED DB: PDB REMARK 900 THE 2.98A CRYSTAL STRUCTURE OF THE REMARK 900 CATALYTIC CORE (B'A' REGION) OF DBREF 2XCO A 410 644 UNP P66937 GYRB_STAAN 410 644 DBREF 2XCO A 1002 1491 UNP Q99XG5 GYRA_STAAN 2 491 SEQADV 2XCO MET A 409 UNP P66937 EXPRESSION TAG SEQRES 1 A 726 MET ASP VAL ALA SER LEU PRO GLY LYS LEU ALA ASP CYS SEQRES 2 A 726 SER SER LYS SER PRO GLU GLU CYS GLU ILE PHE LEU VAL SEQRES 3 A 726 GLU GLY ASP SER ALA GLY GLY SER THR LYS SER GLY ARG SEQRES 4 A 726 ASP SER ARG THR GLN ALA ILE LEU PRO LEU ARG GLY LYS SEQRES 5 A 726 ILE LEU ASN VAL GLU LYS ALA ARG LEU ASP ARG ILE LEU SEQRES 6 A 726 ASN ASN ASN GLU ILE ARG GLN MET ILE THR ALA PHE GLY SEQRES 7 A 726 THR GLY ILE GLY GLY ASP PHE ASP LEU ALA LYS ALA ARG SEQRES 8 A 726 TYR HIS LYS ILE VAL ILE MET THR ASP ALA ASP VAL ASP SEQRES 9 A 726 GLY ALA HIS ILE ARG THR LEU LEU LEU THR PHE PHE TYR SEQRES 10 A 726 ARG PHE MET ARG PRO LEU ILE GLU ALA GLY TYR VAL TYR SEQRES 11 A 726 ILE ALA GLN PRO PRO LEU TYR LYS LEU THR GLN GLY LYS SEQRES 12 A 726 GLN LYS TYR TYR VAL TYR ASN ASP ARG GLU LEU ASP LYS SEQRES 13 A 726 LEU LYS SER GLU LEU ASN PRO THR PRO LYS TRP SER ILE SEQRES 14 A 726 ALA ARG TYR LYS GLY LEU GLY GLU MET ASN ALA ASP GLN SEQRES 15 A 726 LEU TRP GLU THR THR MET ASN PRO GLU HIS ARG ALA LEU SEQRES 16 A 726 LEU GLN VAL LYS LEU GLU ASP ALA ILE GLU ALA ASP GLN SEQRES 17 A 726 THR PHE GLU MET LEU MET GLY ASP VAL VAL GLU ASN ARG SEQRES 18 A 726 ARG GLN PHE ILE GLU ASP ASN ALA VAL TYR ALA ASN LEU SEQRES 19 A 726 ASP PHE ALA GLU LEU PRO GLN SER ARG ILE ASN GLU ARG SEQRES 20 A 726 ASN ILE THR SER GLU MET ARG GLU SER PHE LEU ASP TYR SEQRES 21 A 726 ALA MET SER VAL ILE VAL ALA ARG ALA LEU PRO ASP VAL SEQRES 22 A 726 ARG ASP GLY LEU LYS PRO VAL HIS ARG ARG ILE LEU TYR SEQRES 23 A 726 GLY LEU ASN GLU GLN GLY MET THR PRO ASP LYS SER TYR SEQRES 24 A 726 LYS LYS SER ALA ARG ILE VAL GLY ASP VAL MET GLY LYS SEQRES 25 A 726 TYR HIS PRO HIS GLY ASP SER SER ILE TYR GLU ALA MET SEQRES 26 A 726 VAL ARG MET ALA GLN ASP PHE SER TYR ARG TYR PRO LEU SEQRES 27 A 726 VAL ASP GLY GLN GLY ASN PHE GLY SER MET ASP GLY ASP SEQRES 28 A 726 GLY ALA ALA ALA MET ARG TYR THR GLU ALA ARG MET THR SEQRES 29 A 726 LYS ILE THR LEU GLU LEU LEU ARG ASP ILE ASN LYS ASP SEQRES 30 A 726 THR ILE ASP PHE ILE ASP ASN TYR ASP GLY ASN GLU ARG SEQRES 31 A 726 GLU PRO SER VAL LEU PRO ALA ARG PHE PRO ASN LEU LEU SEQRES 32 A 726 ALA ASN GLY ALA SER GLY ILE ALA VAL GLY MET ALA THR SEQRES 33 A 726 ASN ILE PRO PRO HIS ASN LEU THR GLU LEU ILE ASN GLY SEQRES 34 A 726 VAL LEU SER LEU SER LYS ASN PRO ASP ILE SER ILE ALA SEQRES 35 A 726 GLU LEU MET GLU ASP ILE GLU GLY PRO ASP PHE PRO THR SEQRES 36 A 726 ALA GLY LEU ILE LEU GLY LYS SER GLY ILE ARG ARG ALA SEQRES 37 A 726 TYR GLU THR GLY ARG GLY SER ILE GLN MET ARG SER ARG SEQRES 38 A 726 ALA VAL ILE GLU GLU ARG GLY GLY GLY ARG GLN ARG ILE SEQRES 39 A 726 VAL VAL THR GLU ILE PRO PHE GLN VAL ASN LYS ALA ARG SEQRES 40 A 726 MET ILE GLU LYS ILE ALA GLU LEU VAL ARG ASP LYS LYS SEQRES 41 A 726 ILE ASP GLY ILE THR ASP LEU ARG ASP GLU THR SER LEU SEQRES 42 A 726 ARG THR GLY VAL ARG VAL VAL ILE ASP VAL ARG LYS ASP SEQRES 43 A 726 ALA ASN ALA SER VAL ILE LEU ASN ASN LEU TYR LYS GLN SEQRES 44 A 726 THR PRO LEU GLN THR SER PHE GLY VAL ASN MET ILE ALA SEQRES 45 A 726 LEU VAL ASN GLY ARG PRO LYS LEU ILE ASN LEU LYS GLU SEQRES 46 A 726 ALA LEU VAL HIS TYR LEU GLU HIS GLN LYS THR VAL VAL SEQRES 47 A 726 ARG ARG ARG THR GLN TYR ASN LEU ARG LYS ALA LYS ASP SEQRES 48 A 726 ARG ALA HIS ILE LEU GLU GLY LEU ARG ILE ALA LEU ASP SEQRES 49 A 726 HIS ILE ASP GLU ILE ILE SER THR ILE ARG GLU SER ASP SEQRES 50 A 726 THR ASP LYS VAL ALA MET GLU SER LEU GLN GLN ARG PHE SEQRES 51 A 726 LYS LEU SER GLU LYS GLN ALA GLN ALA ILE LEU ASP MET SEQRES 52 A 726 ARG LEU ARG ARG LEU THR GLY LEU GLU ARG ASP LYS ILE SEQRES 53 A 726 GLU ALA GLU TYR ASN GLU LEU LEU ASN TYR ILE SER GLU SEQRES 54 A 726 LEU GLU THR ILE LEU ALA ASP GLU GLU VAL LEU LEU GLN SEQRES 55 A 726 LEU VAL ARG ASP GLU LEU THR GLU ILE ARG ASP ARG PHE SEQRES 56 A 726 GLY ASP ASP ARG ARG THR GLU ILE GLN LEU GLY HET CA A1500 1 HETNAM CA CALCIUM ION FORMUL 2 CA CA 2+ FORMUL 3 HOH *1(H2 O) HELIX 1 1 GLY A 436 ARG A 447 1 12 HELIX 2 2 ARG A 458 ASN A 463 1 6 HELIX 3 3 ASN A 475 GLY A 486 1 12 HELIX 4 4 ASP A 510 MET A 528 1 19 HELIX 5 5 MET A 528 GLY A 535 1 8 HELIX 6 6 ASN A 558 GLU A 568 1 11 HELIX 7 7 GLY A 582 MET A 586 5 5 HELIX 8 8 ASN A 587 MET A 596 1 10 HELIX 9 9 MET A 1027 ARG A 1033 1 7 HELIX 10 10 LYS A 1043 GLN A 1056 1 14 HELIX 11 11 SER A 1067 TYR A 1078 1 12 HELIX 12 12 GLY A 1082 ALA A 1094 1 13 HELIX 13 13 THR A 1129 GLU A 1134 1 6 HELIX 14 14 PRO A 1165 GLY A 1171 1 7 HELIX 15 15 ASN A 1187 ASN A 1201 1 15 HELIX 16 16 SER A 1205 ILE A 1213 1 9 HELIX 17 17 GLY A 1226 GLY A 1237 1 12 HELIX 18 18 ASN A 1269 ASP A 1283 1 15 HELIX 19 19 ASN A 1313 THR A 1325 1 13 HELIX 20 20 ASN A 1347 HIS A 1390 1 44 HELIX 21 21 HIS A 1390 GLU A 1400 1 11 HELIX 22 22 THR A 1403 LYS A 1416 1 14 HELIX 23 23 SER A 1418 ASP A 1427 1 10 HELIX 24 24 ARG A 1429 THR A 1434 5 6 HELIX 25 25 LEU A 1436 ASP A 1461 1 26 HELIX 26 26 ASP A 1461 GLY A 1481 1 21 SHEET 1 AA 5 GLN A 452 LEU A 457 0 SHEET 2 AA 5 GLU A 430 GLU A 435 1 O GLU A 430 N ALA A 453 SHEET 3 AA 5 LYS A 502 MET A 506 1 O LYS A 502 N ILE A 431 SHEET 4 AA 5 VAL A 537 ILE A 539 1 O TYR A 538 N ILE A 505 SHEET 5 AA 5 LEU A 604 GLN A 605 -1 O LEU A 604 N ILE A 539 SHEET 1 AB 3 LYS A1065 LYS A1066 0 SHEET 2 AB 3 GLU A1125 MET A1128 -1 O ALA A1126 N LYS A1065 SHEET 3 AB 3 VAL A1104 GLN A1107 -1 O ASP A1105 N ARG A1127 SHEET 1 AC 2 PHE A1146 ASP A1148 0 SHEET 2 AC 2 ARG A1155 PRO A1157 -1 O GLU A1156 N ILE A1147 SHEET 1 AD 4 GLN A1328 ASN A1334 0 SHEET 2 AD 4 ARG A1238 ARG A1244 -1 O GLY A1239 N VAL A1333 SHEET 3 AD 4 LEU A1223 ILE A1224 -1 O LEU A1223 N ARG A1244 SHEET 4 AD 4 GLU A1487 ILE A1488 1 O GLU A1487 N ILE A1224 SHEET 1 AE 4 ARG A1246 GLU A1251 0 SHEET 2 AE 4 GLN A1257 GLU A1263 -1 O ARG A1258 N GLU A1250 SHEET 3 AE 4 VAL A1304 VAL A1308 -1 O VAL A1304 N VAL A1261 SHEET 4 AE 4 ILE A1289 ASP A1294 -1 N THR A1290 O ASP A1307 SHEET 1 AF 2 ILE A1336 VAL A1339 0 SHEET 2 AF 2 ARG A1342 LEU A1345 -1 O ARG A1342 N VAL A1339 LINK CA CA A1500 O HOH A2001 1555 1555 2.76 LINK CA CA A1500 O HOH A2001 1555 12575 2.76 SITE 1 AC1 2 ASP A1083 HOH A2001 CRYST1 89.917 89.917 410.583 90.00 90.00 120.00 P 61 2 2 12 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 0.011121 0.006421 0.000000 0.00000 SCALE2 0.000000 0.012842 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002436 0.00000