HEADER ISOMERASE 25-APR-10 2XCS TITLE THE 2.1A CRYSTAL STRUCTURE OF S. AUREUS GYRASE COMPLEX WITH GSK299423 TITLE 2 AND DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA GYRASE SUBUNIT B, DNA GYRASE SUBUNIT A; COMPND 3 CHAIN: B, D; COMPND 4 FRAGMENT: GYRB- C-TERMINAL 27KDA DOMAIN, RESIDUES 410-543 AND 580- COMPND 5 644, GYRA- N-TERMINAL 56KDA DOMAIN, RESIDUES 2-491; COMPND 6 EC: 5.99.1.3; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: C-TERMINUS GYRB (644) FUSED TO N-TERMINUS GYRA (1002). COMPND 10 GREEK KEY DOMAIN (544-579) DELETED AND REPLACED WITH TWO RESIDUES, COMPND 11 TG; COMPND 12 MOL_ID: 2; COMPND 13 MOLECULE: 5'-5UA*D(GP*CP*CP*GP*TP*AP*GP*GP*GP*CP*CP COMPND 14 *CP*TP*AP*CP*GP*GP*CP*T)-3'; COMPND 15 CHAIN: E, F; COMPND 16 ENGINEERED: YES 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); SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630 KEYWDS ISOMERASE, TYPE IIA TOPOISOMERASE 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 4 20-DEC-23 2XCS 1 REMARK LINK REVDAT 3 28-SEP-11 2XCS 1 JRNL REVDAT 2 18-AUG-10 2XCS 1 AUTHOR JRNL REMARK REVDAT 1 04-AUG-10 2XCS 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 OF JRNL TITL 2 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. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.4.0073 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 113168 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) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.500 REMARK 3 FREE R VALUE TEST SET COUNT : 2907 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15 REMARK 3 REFLECTION IN BIN (WORKING SET) : 8273 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2350 REMARK 3 BIN FREE R VALUE SET COUNT : 171 REMARK 3 BIN FREE R VALUE : 0.2770 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 10606 REMARK 3 NUCLEIC ACID ATOMS : 800 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 826 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.25 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 38.42 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.34000 REMARK 3 B22 (A**2) : -0.34000 REMARK 3 B33 (A**2) : 0.51000 REMARK 3 B12 (A**2) : -0.17000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.175 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.152 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.112 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.114 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.949 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.938 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 12177 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 16619 ; 1.268 ; 2.065 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 1425 ; 2.563 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 569 ;28.817 ;23.568 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 2092 ; 9.558 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 132 ;14.052 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1838 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 9100 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 6926 ; 0.748 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 11208 ; 1.519 ; 4.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 5251 ; 2.362 ; 5.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 5411 ; 3.576 ; 7.000 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. U VALUES REFINED INDIVIDUALLY. COMPOUND SITS ON REMARK 3 TWOFOLD AXIS OF THE DIMER. TO SEE BINDING MODE OF SINGLE REMARK 3 COMPOUND DELETE B CONFORMERS OF COMPOUND AND SIDE-CHAINS B83, REMARK 3 B121, D83, D121. REMARK 4 REMARK 4 2XCS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 25-APR-10. REMARK 100 THE DEPOSITION ID IS D_1290043719. 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 : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID23-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9791 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 113168 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 5.000 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.21 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.6 REMARK 200 DATA REDUNDANCY IN SHELL : 4.30 REMARK 200 R MERGE FOR SHELL (I) : 0.45000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 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 2XCQ REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.92 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% PEG 5000MME, 0.1 M BISTRIS PH 6.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 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 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 137.60400 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 275.20800 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 206.40600 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 344.01000 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 68.80200 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 16140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 57180 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -77.7 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D, E, F 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN B, TYR 1123 TO PHE REMARK 400 ENGINEERED RESIDUE IN CHAIN D, TYR 1123 TO PHE 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 B 409 REMARK 465 ASP B 410 REMARK 465 VAL B 411 REMARK 465 ALA B 412 REMARK 465 SER B 413 REMARK 465 LEU B 414 REMARK 465 PRO B 415 REMARK 465 GLY B 416 REMARK 465 ASN B 641 REMARK 465 LEU B 642 REMARK 465 ASP B 643 REMARK 465 PHE B 644 REMARK 465 ALA B 1002 REMARK 465 GLU B 1003 REMARK 465 LEU B 1004 REMARK 465 PRO B 1005 REMARK 465 GLN B 1006 REMARK 465 SER B 1007 REMARK 465 ARG B 1008 REMARK 465 ILE B 1009 REMARK 465 MET D 409 REMARK 465 ASP D 410 REMARK 465 VAL D 411 REMARK 465 ALA D 412 REMARK 465 SER D 413 REMARK 465 LEU D 414 REMARK 465 PRO D 415 REMARK 465 GLY D 416 REMARK 465 ALA D 640 REMARK 465 ASN D 641 REMARK 465 LEU D 642 REMARK 465 ASP D 643 REMARK 465 PHE D 644 REMARK 465 ALA D 1002 REMARK 465 GLU D 1003 REMARK 465 LEU D 1004 REMARK 465 PRO D 1005 REMARK 465 GLN D 1006 REMARK 465 SER D 1007 REMARK 465 ARG D 1008 REMARK 465 ILE D 1009 REMARK 465 GLY D 1491 REMARK 465 DT F 20 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS B 417 CG CD CE NZ REMARK 470 LYS B 581 CG CD CE NZ REMARK 470 LYS D 417 CG CD CE NZ REMARK 470 LYS D 424 CG CD CE NZ REMARK 470 LYS D 607 CG CD CE NZ REMARK 470 ASN D1010 CG OD1 ND2 REMARK 470 LYS D1227 CG CD CE NZ REMARK 470 LEU D1490 CG CD1 CD2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OP3 5UA E 1 O HOH E 2038 2.04 REMARK 500 O HOH D 2070 O HOH D 2071 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 DG E 10 O3' DG E 10 C3' -0.045 REMARK 500 5UA F 1 O3' DG F 2 P -0.087 REMARK 500 DC F 3 O3' DC F 3 C3' -0.037 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 DG E 2 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DT E 6 O4' - C1' - N1 ANGL. DEV. = 4.0 DEGREES REMARK 500 DG E 9 O4' - C4' - C3' ANGL. DEV. = -3.7 DEGREES REMARK 500 DG E 9 O4' - C1' - N9 ANGL. DEV. = 3.2 DEGREES REMARK 500 DC E 12 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC E 13 C4' - C3' - C2' ANGL. DEV. = -6.5 DEGREES REMARK 500 DC E 13 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 DC E 16 O4' - C1' - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 DG E 17 O4' - C1' - N9 ANGL. DEV. = -4.5 DEGREES REMARK 500 DC E 19 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 DG F 2 O3' - P - O5' ANGL. DEV. = -42.8 DEGREES REMARK 500 DG F 2 O3' - P - OP2 ANGL. DEV. = -30.8 DEGREES REMARK 500 DG F 2 O3' - P - OP1 ANGL. DEV. = 55.1 DEGREES REMARK 500 DC F 3 C3' - O3' - P ANGL. DEV. = -7.9 DEGREES REMARK 500 DT F 6 O4' - C1' - N1 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG F 9 O4' - C1' - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 DC F 13 O4' - C1' - N1 ANGL. DEV. = 3.7 DEGREES REMARK 500 DT F 14 C4' - C3' - C2' ANGL. DEV. = -5.4 DEGREES REMARK 500 DT F 14 O4' - C1' - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 DC F 16 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DG F 17 O4' - C1' - N9 ANGL. DEV. = -6.8 DEGREES REMARK 500 DC F 19 O4' - C1' - N1 ANGL. DEV. = 4.2 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 LEU B 457 -155.20 -98.53 REMARK 500 ARG B 458 56.22 -141.25 REMARK 500 MET B 528 40.87 -140.99 REMARK 500 ARG B1033 -65.89 -164.67 REMARK 500 TYR B1078 -30.11 -132.23 REMARK 500 ALA B1162 74.59 48.91 REMARK 500 PRO B1165 81.48 -69.79 REMARK 500 ALA B1176 -134.49 -101.89 REMARK 500 ALA B1221 -122.62 63.58 REMARK 500 ASP B1311 -9.27 77.21 REMARK 500 ASN B1334 79.52 -151.30 REMARK 500 PRO D 426 -15.40 -45.77 REMARK 500 LEU D 457 -153.48 -97.55 REMARK 500 GLU D 609 -60.91 -94.28 REMARK 500 ALA D1032 42.21 -140.95 REMARK 500 ARG D1033 -70.73 -165.88 REMARK 500 ALA D1162 73.40 49.57 REMARK 500 ALA D1176 -135.98 -102.44 REMARK 500 ALA D1221 -121.94 60.25 REMARK 500 PRO D1326 5.98 -66.77 REMARK 500 ASN D1334 82.62 -153.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B2220 DISTANCE = 6.12 ANGSTROMS REMARK 525 HOH D2209 DISTANCE = 6.06 ANGSTROMS REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 MANGANESE ION (MN): MN2+ ION 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 MN B2493 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 435 OE2 REMARK 620 2 ASP B 508 OD2 90.1 REMARK 620 3 HOH B2386 O 165.3 92.9 REMARK 620 4 HOH B2387 O 81.1 117.4 84.8 REMARK 620 5 DG E 8 O3' 81.0 147.2 103.6 92.5 REMARK 620 6 DG E 9 OP1 100.7 93.2 93.5 149.4 58.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN B2492 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 TYR B1322 O REMARK 620 2 THR B1325 O 85.0 REMARK 620 3 GLN B1328 O 113.3 83.2 REMARK 620 4 HOH B2384 O 96.9 171.5 88.4 REMARK 620 5 HOH B2385 O 143.2 84.7 100.4 98.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN D2491 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU D 435 OE2 REMARK 620 2 ASP D 508 OD2 95.3 REMARK 620 3 HOH D2366 O 81.1 118.1 REMARK 620 4 HOH D2367 O 162.2 95.6 81.3 REMARK 620 5 DG F 8 O3' 80.1 146.4 94.2 98.1 REMARK 620 6 DG F 9 OP1 99.4 90.6 151.2 94.5 58.0 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN E1022 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS D1390 NE2 REMARK 620 2 5UA E 1 OP1 117.2 REMARK 620 3 5UA E 1 OP3 100.7 59.7 REMARK 620 4 HOH E2038 O 99.6 103.9 49.0 REMARK 620 5 HOH E2039 O 120.9 68.8 124.5 138.0 REMARK 620 6 HOH E2040 O 109.8 131.1 124.4 80.2 76.3 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 RXV F 1021 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN D 2491 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN E 1022 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 2492 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MN B 2493 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2XCT RELATED DB: PDB REMARK 900 THE TWINNED 3.35A STRUCTURE OF S. AUREUS GYRASE COMPLEX WITH REMARK 900 CIPROFLOXACIN AND DNA REMARK 900 RELATED ID: 2XCR RELATED DB: PDB REMARK 900 THE 3.5A CRYSTAL STRUCTURE OF THE CATALYTIC CORE (B'A' REGION) OF REMARK 900 STAPHYLOCOCCUS AUREUS DNA GYRASE COMPLEXED WITH GSK299423 AND DNA REMARK 900 RELATED ID: 2XCO RELATED DB: PDB REMARK 900 THE 3.1A CRYSTAL STRUCTURE OF THE CATALYTIC CORE (B'A' REGION) OF REMARK 900 STAPHYLOCOCCUS AUREUS DNA GYRASE REMARK 900 RELATED ID: 2XCQ RELATED DB: PDB REMARK 900 THE 2.98A CRYSTAL STRUCTURE OF THE CATALYTIC CORE (B'A' REGION) OF REMARK 900 STAPHYLOCOCCUS AUREUS DNA GYRASE REMARK 999 REMARK 999 SEQUENCE REMARK 999 GREEK KEY DOMAIN (544-579) DELETED AND REPLACED WITH TWO REMARK 999 RESIDUES, TG REMARK 999 CATALYTIC TYROSINE (1123) MUTATED TO PHENYLALANINE DBREF 2XCS B 410 545 UNP P66937 GYRB_STAAN 410 545 DBREF 2XCS B 580 644 UNP P66937 GYRB_STAAN 580 644 DBREF 2XCS B 1002 1491 UNP Q99XG5 GYRA_STAAN 2 491 DBREF 2XCS D 410 545 UNP P66937 GYRB_STAAN 410 545 DBREF 2XCS D 580 644 UNP P66937 GYRB_STAAN 580 644 DBREF 2XCS D 1002 1491 UNP Q99XG5 GYRA_STAAN 2 491 DBREF 2XCS E 1 20 PDB 2XCS 2XCS 1 20 DBREF 2XCS F 1 20 PDB 2XCS 2XCS 1 20 SEQADV 2XCS MET B 409 UNP P66937 EXPRESSION TAG SEQADV 2XCS THR B 544 UNP P66937 INSERTION SEQADV 2XCS GLY B 545 UNP P66937 INSERTION SEQADV 2XCS PHE B 1123 UNP Q99XG5 TYR 123 ENGINEERED MUTATION SEQADV 2XCS MET D 409 UNP P66937 EXPRESSION TAG SEQADV 2XCS THR D 544 UNP P66937 INSERTION SEQADV 2XCS GLY D 545 UNP P66937 INSERTION SEQADV 2XCS PHE D 1123 UNP Q99XG5 TYR 123 ENGINEERED MUTATION SEQRES 1 B 692 MET ASP VAL ALA SER LEU PRO GLY LYS LEU ALA ASP CYS SEQRES 2 B 692 SER SER LYS SER PRO GLU GLU CYS GLU ILE PHE LEU VAL SEQRES 3 B 692 GLU GLY ASP SER ALA GLY GLY SER THR LYS SER GLY ARG SEQRES 4 B 692 ASP SER ARG THR GLN ALA ILE LEU PRO LEU ARG GLY LYS SEQRES 5 B 692 ILE LEU ASN VAL GLU LYS ALA ARG LEU ASP ARG ILE LEU SEQRES 6 B 692 ASN ASN ASN GLU ILE ARG GLN MET ILE THR ALA PHE GLY SEQRES 7 B 692 THR GLY ILE GLY GLY ASP PHE ASP LEU ALA LYS ALA ARG SEQRES 8 B 692 TYR HIS LYS ILE VAL ILE MET THR ASP ALA ASP VAL ASP SEQRES 9 B 692 GLY ALA HIS ILE ARG THR LEU LEU LEU THR PHE PHE TYR SEQRES 10 B 692 ARG PHE MET ARG PRO LEU ILE GLU ALA GLY TYR VAL TYR SEQRES 11 B 692 ILE ALA GLN PRO PRO THR GLY TYR LYS GLY LEU GLY GLU SEQRES 12 B 692 MET ASN ALA ASP GLN LEU TRP GLU THR THR MET ASN PRO SEQRES 13 B 692 GLU HIS ARG ALA LEU LEU GLN VAL LYS LEU GLU ASP ALA SEQRES 14 B 692 ILE GLU ALA ASP GLN THR PHE GLU MET LEU MET GLY ASP SEQRES 15 B 692 VAL VAL GLU ASN ARG ARG GLN PHE ILE GLU ASP ASN ALA SEQRES 16 B 692 VAL TYR ALA ASN LEU ASP PHE ALA GLU LEU PRO GLN SER SEQRES 17 B 692 ARG ILE ASN GLU ARG ASN ILE THR SER GLU MET ARG GLU SEQRES 18 B 692 SER PHE LEU ASP TYR ALA MET SER VAL ILE VAL ALA ARG SEQRES 19 B 692 ALA LEU PRO ASP VAL ARG ASP GLY LEU LYS PRO VAL HIS SEQRES 20 B 692 ARG ARG ILE LEU TYR GLY LEU ASN GLU GLN GLY MET THR SEQRES 21 B 692 PRO ASP LYS SER TYR LYS LYS SER ALA ARG ILE VAL GLY SEQRES 22 B 692 ASP VAL MET GLY LYS TYR HIS PRO HIS GLY ASP SER SER SEQRES 23 B 692 ILE TYR GLU ALA MET VAL ARG MET ALA GLN ASP PHE SER SEQRES 24 B 692 TYR ARG TYR PRO LEU VAL ASP GLY GLN GLY ASN PHE GLY SEQRES 25 B 692 SER MET ASP GLY ASP GLY ALA ALA ALA MET ARG PHE THR SEQRES 26 B 692 GLU ALA ARG MET THR LYS ILE THR LEU GLU LEU LEU ARG SEQRES 27 B 692 ASP ILE ASN LYS ASP THR ILE ASP PHE ILE ASP ASN TYR SEQRES 28 B 692 ASP GLY ASN GLU ARG GLU PRO SER VAL LEU PRO ALA ARG SEQRES 29 B 692 PHE PRO ASN LEU LEU ALA ASN GLY ALA SER GLY ILE ALA SEQRES 30 B 692 VAL GLY MET ALA THR ASN ILE PRO PRO HIS ASN LEU THR SEQRES 31 B 692 GLU LEU ILE ASN GLY VAL LEU SER LEU SER LYS ASN PRO SEQRES 32 B 692 ASP ILE SER ILE ALA GLU LEU MET GLU ASP ILE GLU GLY SEQRES 33 B 692 PRO ASP PHE PRO THR ALA GLY LEU ILE LEU GLY LYS SER SEQRES 34 B 692 GLY ILE ARG ARG ALA TYR GLU THR GLY ARG GLY SER ILE SEQRES 35 B 692 GLN MET ARG SER ARG ALA VAL ILE GLU GLU ARG GLY GLY SEQRES 36 B 692 GLY ARG GLN ARG ILE VAL VAL THR GLU ILE PRO PHE GLN SEQRES 37 B 692 VAL ASN LYS ALA ARG MET ILE GLU LYS ILE ALA GLU LEU SEQRES 38 B 692 VAL ARG ASP LYS LYS ILE ASP GLY ILE THR ASP LEU ARG SEQRES 39 B 692 ASP GLU THR SER LEU ARG THR GLY VAL ARG VAL VAL ILE SEQRES 40 B 692 ASP VAL ARG LYS ASP ALA ASN ALA SER VAL ILE LEU ASN SEQRES 41 B 692 ASN LEU TYR LYS GLN THR PRO LEU GLN THR SER PHE GLY SEQRES 42 B 692 VAL ASN MET ILE ALA LEU VAL ASN GLY ARG PRO LYS LEU SEQRES 43 B 692 ILE ASN LEU LYS GLU ALA LEU VAL HIS TYR LEU GLU HIS SEQRES 44 B 692 GLN LYS THR VAL VAL ARG ARG ARG THR GLN TYR ASN LEU SEQRES 45 B 692 ARG LYS ALA LYS ASP ARG ALA HIS ILE LEU GLU GLY LEU SEQRES 46 B 692 ARG ILE ALA LEU ASP HIS ILE ASP GLU ILE ILE SER THR SEQRES 47 B 692 ILE ARG GLU SER ASP THR ASP LYS VAL ALA MET GLU SER SEQRES 48 B 692 LEU GLN GLN ARG PHE LYS LEU SER GLU LYS GLN ALA GLN SEQRES 49 B 692 ALA ILE LEU ASP MET ARG LEU ARG ARG LEU THR GLY LEU SEQRES 50 B 692 GLU ARG ASP LYS ILE GLU ALA GLU TYR ASN GLU LEU LEU SEQRES 51 B 692 ASN TYR ILE SER GLU LEU GLU THR ILE LEU ALA ASP GLU SEQRES 52 B 692 GLU VAL LEU LEU GLN LEU VAL ARG ASP GLU LEU THR GLU SEQRES 53 B 692 ILE ARG ASP ARG PHE GLY ASP ASP ARG ARG THR GLU ILE SEQRES 54 B 692 GLN LEU GLY SEQRES 1 D 692 MET ASP VAL ALA SER LEU PRO GLY LYS LEU ALA ASP CYS SEQRES 2 D 692 SER SER LYS SER PRO GLU GLU CYS GLU ILE PHE LEU VAL SEQRES 3 D 692 GLU GLY ASP SER ALA GLY GLY SER THR LYS SER GLY ARG SEQRES 4 D 692 ASP SER ARG THR GLN ALA ILE LEU PRO LEU ARG GLY LYS SEQRES 5 D 692 ILE LEU ASN VAL GLU LYS ALA ARG LEU ASP ARG ILE LEU SEQRES 6 D 692 ASN ASN ASN GLU ILE ARG GLN MET ILE THR ALA PHE GLY SEQRES 7 D 692 THR GLY ILE GLY GLY ASP PHE ASP LEU ALA LYS ALA ARG SEQRES 8 D 692 TYR HIS LYS ILE VAL ILE MET THR ASP ALA ASP VAL ASP SEQRES 9 D 692 GLY ALA HIS ILE ARG THR LEU LEU LEU THR PHE PHE TYR SEQRES 10 D 692 ARG PHE MET ARG PRO LEU ILE GLU ALA GLY TYR VAL TYR SEQRES 11 D 692 ILE ALA GLN PRO PRO THR GLY TYR LYS GLY LEU GLY GLU SEQRES 12 D 692 MET ASN ALA ASP GLN LEU TRP GLU THR THR MET ASN PRO SEQRES 13 D 692 GLU HIS ARG ALA LEU LEU GLN VAL LYS LEU GLU ASP ALA SEQRES 14 D 692 ILE GLU ALA ASP GLN THR PHE GLU MET LEU MET GLY ASP SEQRES 15 D 692 VAL VAL GLU ASN ARG ARG GLN PHE ILE GLU ASP ASN ALA SEQRES 16 D 692 VAL TYR ALA ASN LEU ASP PHE ALA GLU LEU PRO GLN SER SEQRES 17 D 692 ARG ILE ASN GLU ARG ASN ILE THR SER GLU MET ARG GLU SEQRES 18 D 692 SER PHE LEU ASP TYR ALA MET SER VAL ILE VAL ALA ARG SEQRES 19 D 692 ALA LEU PRO ASP VAL ARG ASP GLY LEU LYS PRO VAL HIS SEQRES 20 D 692 ARG ARG ILE LEU TYR GLY LEU ASN GLU GLN GLY MET THR SEQRES 21 D 692 PRO ASP LYS SER TYR LYS LYS SER ALA ARG ILE VAL GLY SEQRES 22 D 692 ASP VAL MET GLY LYS TYR HIS PRO HIS GLY ASP SER SER SEQRES 23 D 692 ILE TYR GLU ALA MET VAL ARG MET ALA GLN ASP PHE SER SEQRES 24 D 692 TYR ARG TYR PRO LEU VAL ASP GLY GLN GLY ASN PHE GLY SEQRES 25 D 692 SER MET ASP GLY ASP GLY ALA ALA ALA MET ARG PHE THR SEQRES 26 D 692 GLU ALA ARG MET THR LYS ILE THR LEU GLU LEU LEU ARG SEQRES 27 D 692 ASP ILE ASN LYS ASP THR ILE ASP PHE ILE ASP ASN TYR SEQRES 28 D 692 ASP GLY ASN GLU ARG GLU PRO SER VAL LEU PRO ALA ARG SEQRES 29 D 692 PHE PRO ASN LEU LEU ALA ASN GLY ALA SER GLY ILE ALA SEQRES 30 D 692 VAL GLY MET ALA THR ASN ILE PRO PRO HIS ASN LEU THR SEQRES 31 D 692 GLU LEU ILE ASN GLY VAL LEU SER LEU SER LYS ASN PRO SEQRES 32 D 692 ASP ILE SER ILE ALA GLU LEU MET GLU ASP ILE GLU GLY SEQRES 33 D 692 PRO ASP PHE PRO THR ALA GLY LEU ILE LEU GLY LYS SER SEQRES 34 D 692 GLY ILE ARG ARG ALA TYR GLU THR GLY ARG GLY SER ILE SEQRES 35 D 692 GLN MET ARG SER ARG ALA VAL ILE GLU GLU ARG GLY GLY SEQRES 36 D 692 GLY ARG GLN ARG ILE VAL VAL THR GLU ILE PRO PHE GLN SEQRES 37 D 692 VAL ASN LYS ALA ARG MET ILE GLU LYS ILE ALA GLU LEU SEQRES 38 D 692 VAL ARG ASP LYS LYS ILE ASP GLY ILE THR ASP LEU ARG SEQRES 39 D 692 ASP GLU THR SER LEU ARG THR GLY VAL ARG VAL VAL ILE SEQRES 40 D 692 ASP VAL ARG LYS ASP ALA ASN ALA SER VAL ILE LEU ASN SEQRES 41 D 692 ASN LEU TYR LYS GLN THR PRO LEU GLN THR SER PHE GLY SEQRES 42 D 692 VAL ASN MET ILE ALA LEU VAL ASN GLY ARG PRO LYS LEU SEQRES 43 D 692 ILE ASN LEU LYS GLU ALA LEU VAL HIS TYR LEU GLU HIS SEQRES 44 D 692 GLN LYS THR VAL VAL ARG ARG ARG THR GLN TYR ASN LEU SEQRES 45 D 692 ARG LYS ALA LYS ASP ARG ALA HIS ILE LEU GLU GLY LEU SEQRES 46 D 692 ARG ILE ALA LEU ASP HIS ILE ASP GLU ILE ILE SER THR SEQRES 47 D 692 ILE ARG GLU SER ASP THR ASP LYS VAL ALA MET GLU SER SEQRES 48 D 692 LEU GLN GLN ARG PHE LYS LEU SER GLU LYS GLN ALA GLN SEQRES 49 D 692 ALA ILE LEU ASP MET ARG LEU ARG ARG LEU THR GLY LEU SEQRES 50 D 692 GLU ARG ASP LYS ILE GLU ALA GLU TYR ASN GLU LEU LEU SEQRES 51 D 692 ASN TYR ILE SER GLU LEU GLU THR ILE LEU ALA ASP GLU SEQRES 52 D 692 GLU VAL LEU LEU GLN LEU VAL ARG ASP GLU LEU THR GLU SEQRES 53 D 692 ILE ARG ASP ARG PHE GLY ASP ASP ARG ARG THR GLU ILE SEQRES 54 D 692 GLN LEU GLY SEQRES 1 E 20 5UA DG DC DC DG DT DA DG DG DG DC DC DC SEQRES 2 E 20 DT DA DC DG DG DC DT SEQRES 1 F 20 5UA DG DC DC DG DT DA DG DG DG DC DC DC SEQRES 2 F 20 DT DA DC DG DG DC DT HET 5UA E 1 21 HET 5UA F 1 21 HET MN B2492 1 HET MN B2493 1 HET MN D2491 1 HET MN E1022 1 HET RXV F1021 66 HETNAM 5UA 5'-O-CARBOXY-2'-DEOXYADENOSINE HETNAM MN MANGANESE (II) ION HETNAM RXV 6-METHOXY-4-(2-{4-[([1,3]OXATHIOLO[5,4-C]PYRIDIN-6- HETNAM 2 RXV YLMETHYL)AMINO]PIPERIDIN-1-YL}ETHYL)QUINOLINE-3- HETNAM 3 RXV CARBONITRILE FORMUL 3 5UA 2(C11 H13 N5 O5) FORMUL 5 MN 4(MN 2+) FORMUL 9 RXV C25 H27 N5 O2 S FORMUL 10 HOH *826(H2 O) HELIX 1 1 GLY B 436 ARG B 447 1 12 HELIX 2 2 ARG B 468 ASN B 474 1 7 HELIX 3 3 ASN B 475 GLY B 486 1 12 HELIX 4 4 ILE B 489 PHE B 493 5 5 HELIX 5 5 ASP B 494 ALA B 498 5 5 HELIX 6 6 ASP B 510 MET B 528 1 19 HELIX 7 7 MET B 528 ALA B 534 1 7 HELIX 8 8 GLY B 582 MET B 586 5 5 HELIX 9 9 ASN B 587 MET B 596 1 10 HELIX 10 10 ASP B 610 GLY B 623 1 14 HELIX 11 11 VAL B 625 ALA B 637 1 13 HELIX 12 12 ILE B 1014 ARG B 1033 1 20 HELIX 13 13 LYS B 1043 GLN B 1056 1 14 HELIX 14 14 SER B 1067 TYR B 1078 1 12 HELIX 15 15 GLY B 1082 GLN B 1095 1 14 HELIX 16 16 THR B 1129 ARG B 1137 1 9 HELIX 17 17 PRO B 1165 GLY B 1171 1 7 HELIX 18 18 ASN B 1187 LYS B 1200 1 14 HELIX 19 19 SER B 1205 MET B 1210 1 6 HELIX 20 20 LYS B 1227 GLY B 1237 1 11 HELIX 21 21 ASN B 1269 ASP B 1283 1 15 HELIX 22 22 ASN B 1313 THR B 1325 1 13 HELIX 23 23 ASN B 1347 HIS B 1390 1 44 HELIX 24 24 HIS B 1390 GLU B 1400 1 11 HELIX 25 25 THR B 1403 LYS B 1416 1 14 HELIX 26 26 SER B 1418 ASP B 1427 1 10 HELIX 27 27 LEU B 1430 THR B 1434 5 5 HELIX 28 28 LEU B 1436 ASP B 1461 1 26 HELIX 29 29 ASP B 1461 GLY B 1481 1 21 HELIX 30 30 GLY D 436 ARG D 447 1 12 HELIX 31 31 ARG D 468 ASN D 475 1 8 HELIX 32 32 ASN D 475 GLY D 486 1 12 HELIX 33 33 ILE D 489 PHE D 493 5 5 HELIX 34 34 ASP D 494 ALA D 498 5 5 HELIX 35 35 ASP D 510 MET D 528 1 19 HELIX 36 36 MET D 528 ALA D 534 1 7 HELIX 37 37 GLY D 582 MET D 586 5 5 HELIX 38 38 ASN D 587 MET D 596 1 10 HELIX 39 39 ASP D 610 GLY D 623 1 14 HELIX 40 40 VAL D 625 ALA D 637 1 13 HELIX 41 41 ILE D 1014 ALA D 1032 1 19 HELIX 42 42 LYS D 1043 GLN D 1056 1 14 HELIX 43 43 SER D 1067 TYR D 1078 1 12 HELIX 44 44 GLY D 1082 ALA D 1094 1 13 HELIX 45 45 THR D 1129 ARG D 1137 1 9 HELIX 46 46 PRO D 1165 GLY D 1171 1 7 HELIX 47 47 ASN D 1187 ASN D 1201 1 15 HELIX 48 48 SER D 1205 MET D 1210 1 6 HELIX 49 49 LYS D 1227 GLY D 1237 1 11 HELIX 50 50 ASN D 1269 ASP D 1283 1 15 HELIX 51 51 ASN D 1313 THR D 1325 1 13 HELIX 52 52 ASN D 1347 HIS D 1390 1 44 HELIX 53 53 HIS D 1390 GLU D 1400 1 11 HELIX 54 54 THR D 1403 LYS D 1416 1 14 HELIX 55 55 SER D 1418 MET D 1428 1 11 HELIX 56 56 LEU D 1430 LEU D 1433 5 4 HELIX 57 57 THR D 1434 ASP D 1461 1 28 HELIX 58 58 ASP D 1461 GLY D 1481 1 21 SHEET 1 BA 6 GLN B 452 PRO B 456 0 SHEET 2 BA 6 GLU B 430 VAL B 434 1 O GLU B 430 N ALA B 453 SHEET 3 BA 6 LYS B 502 ILE B 505 1 O LYS B 502 N ILE B 431 SHEET 4 BA 6 VAL B 537 ILE B 539 1 O TYR B 538 N ILE B 505 SHEET 5 BA 6 LEU B 604 LYS B 607 -1 O LEU B 604 N ILE B 539 SHEET 6 BA 6 GLU B1011 ASN B1013 1 O ARG B1012 N LYS B 607 SHEET 1 BB 3 LYS B1065 LYS B1066 0 SHEET 2 BB 3 GLU B1125 MET B1128 -1 O ALA B1126 N LYS B1065 SHEET 3 BB 3 VAL B1104 GLN B1107 -1 O ASP B1105 N ARG B1127 SHEET 1 BC 2 PHE B1146 ASP B1148 0 SHEET 2 BC 2 ARG B1155 PRO B1157 -1 O GLU B1156 N ILE B1147 SHEET 1 BD 2 ALA B1172 ILE B1175 0 SHEET 2 BD 2 ALA B1180 ILE B1183 -1 O THR B1181 N GLY B1174 SHEET 1 BE 4 GLN B1328 ASN B1334 0 SHEET 2 BE 4 ARG B1238 ARG B1244 -1 O GLY B1239 N VAL B1333 SHEET 3 BE 4 LEU B1223 LEU B1225 -1 O LEU B1223 N ARG B1244 SHEET 4 BE 4 GLU B1487 GLN B1489 1 O GLU B1487 N ILE B1224 SHEET 1 BF 4 ARG B1246 GLY B1253 0 SHEET 2 BF 4 ARG B1256 GLU B1263 -1 O ARG B1256 N ARG B1252 SHEET 3 BF 4 VAL B1304 VAL B1308 -1 O VAL B1304 N VAL B1261 SHEET 4 BF 4 ILE B1289 ASP B1294 -1 N THR B1290 O ASP B1307 SHEET 1 BG 2 ILE B1336 VAL B1339 0 SHEET 2 BG 2 ARG B1342 LEU B1345 -1 O ARG B1342 N VAL B1339 SHEET 1 DA 6 GLN D 452 PRO D 456 0 SHEET 2 DA 6 GLU D 430 VAL D 434 1 O GLU D 430 N ALA D 453 SHEET 3 DA 6 LYS D 502 ILE D 505 1 O LYS D 502 N ILE D 431 SHEET 4 DA 6 VAL D 537 ILE D 539 1 O TYR D 538 N ILE D 505 SHEET 5 DA 6 LEU D 604 LYS D 607 -1 O LEU D 604 N ILE D 539 SHEET 6 DA 6 GLU D1011 ASN D1013 1 O ARG D1012 N LYS D 607 SHEET 1 DB 3 LYS D1065 LYS D1066 0 SHEET 2 DB 3 GLU D1125 MET D1128 -1 O ALA D1126 N LYS D1065 SHEET 3 DB 3 VAL D1104 GLN D1107 -1 O ASP D1105 N ARG D1127 SHEET 1 DC 2 PHE D1146 ASP D1148 0 SHEET 2 DC 2 ARG D1155 PRO D1157 -1 O GLU D1156 N ILE D1147 SHEET 1 DD 2 ALA D1172 ILE D1175 0 SHEET 2 DD 2 ALA D1180 ILE D1183 -1 O THR D1181 N GLY D1174 SHEET 1 DE 4 GLN D1328 ASN D1334 0 SHEET 2 DE 4 ARG D1238 ARG D1244 -1 O GLY D1239 N VAL D1333 SHEET 3 DE 4 LEU D1223 LEU D1225 -1 O LEU D1223 N ARG D1244 SHEET 4 DE 4 GLU D1487 GLN D1489 1 O GLU D1487 N ILE D1224 SHEET 1 DF 4 ARG D1246 GLY D1253 0 SHEET 2 DF 4 ARG D1256 GLU D1263 -1 O ARG D1256 N ARG D1252 SHEET 3 DF 4 VAL D1304 VAL D1308 -1 O VAL D1304 N VAL D1261 SHEET 4 DF 4 ILE D1289 ASP D1294 -1 N THR D1290 O ASP D1307 SHEET 1 DG 2 ILE D1336 VAL D1339 0 SHEET 2 DG 2 ARG D1342 LEU D1345 -1 O ARG D1342 N VAL D1339 LINK O3' 5UA E 1 P DG E 2 1555 1555 1.68 LINK O3' 5UA F 1 P DG F 2 1555 1555 1.52 LINK O3' 5UA F 1 O5' DG F 2 1555 1555 1.60 LINK OE2 GLU B 435 MN MN B2493 1555 1555 2.12 LINK OD2 ASP B 508 MN MN B2493 1555 1555 1.98 LINK O TYR B1322 MN MN B2492 1555 1555 2.25 LINK O THR B1325 MN MN B2492 1555 1555 2.40 LINK O GLN B1328 MN MN B2492 1555 1555 2.45 LINK O HOH B2384 MN MN B2492 1555 1555 2.28 LINK O HOH B2385 MN MN B2492 1555 1555 2.10 LINK O HOH B2386 MN MN B2493 1555 1555 2.05 LINK O HOH B2387 MN MN B2493 1555 1555 2.27 LINK MN MN B2493 O3' DG E 8 1555 1555 2.73 LINK MN MN B2493 OP1 DG E 9 1555 1555 2.15 LINK OE2 GLU D 435 MN MN D2491 1555 1555 2.09 LINK OD2 ASP D 508 MN MN D2491 1555 1555 1.99 LINK NE2 HIS D1390 MN MN E1022 1665 1555 2.17 LINK O HOH D2366 MN MN D2491 1555 1555 2.36 LINK O HOH D2367 MN MN D2491 1555 1555 1.98 LINK MN MN D2491 O3' DG F 8 1555 1555 2.72 LINK MN MN D2491 OP1 DG F 9 1555 1555 2.27 LINK OP1 5UA E 1 MN MN E1022 1555 1555 1.94 LINK OP3 5UA E 1 MN MN E1022 1555 1555 2.35 LINK MN MN E1022 O HOH E2038 1555 1555 2.55 LINK MN MN E1022 O HOH E2039 1555 1555 2.72 LINK MN MN E1022 O HOH E2040 1555 1555 2.52 SITE 1 AC1 16 ALA B1068 MET B1075 ASP B1083 MET B1121 SITE 2 AC1 16 HOH B2110 ALA D1068 GLY D1072 MET D1075 SITE 3 AC1 16 ASP D1083 MET D1121 HOH D2089 DG E 10 SITE 4 AC1 16 DC E 11 DG F 10 DC F 11 HOH F2035 SITE 1 AC2 6 GLU D 435 ASP D 508 HOH D2366 HOH D2367 SITE 2 AC2 6 DG F 8 DG F 9 SITE 1 AC3 5 HIS D1390 5UA E 1 HOH E2038 HOH E2039 SITE 2 AC3 5 HOH E2040 SITE 1 AC4 6 TYR B1322 LYS B1323 THR B1325 GLN B1328 SITE 2 AC4 6 HOH B2384 HOH B2385 SITE 1 AC5 6 GLU B 435 ASP B 508 HOH B2386 HOH B2387 SITE 2 AC5 6 DG E 8 DG E 9 CRYST1 93.318 93.318 412.812 90.00 90.00 120.00 P 61 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 0.010716 0.006187 0.000000 0.00000 SCALE2 0.000000 0.012374 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002422 0.00000