HEADER ISOMERASE 27-DEC-19 6TTG TITLE CRYSTAL STRUCTURE OF THE ATP BINDING DOMAIN OF S. AUREUS GYRB TITLE 2 COMPLEXED WITH LMD62 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA GYRASE SUBUNIT B; COMPND 3 CHAIN: A, B; COMPND 4 EC: 5.6.2.2; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: DELTA 105-127 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 GENE: GYRB; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: R3-PRARE2; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET24 KEYWDS DNA GYRASE, GYRB, ISOMERASE EXPDTA X-RAY DIFFRACTION AUTHOR M.WELIN,R.KIMBUNG,D.FOCHT REVDAT 3 24-JAN-24 6TTG 1 REMARK REVDAT 2 26-JAN-22 6TTG 1 JRNL REVDAT 1 30-DEC-20 6TTG 0 JRNL AUTH M.DURCIK,A.NYERGES,Z.SKOK,D.G.SKLEDAR,J.TRONTELJ,N.ZIDAR, JRNL AUTH 2 J.ILAS,A.ZEGA,C.D.CRUZ,P.TAMMELA,M.WELIN,Y.R.KIMBUNG, JRNL AUTH 3 D.FOCHT,O.BENEK,T.REVESZ,G.DRASKOVITS,P.E.SZILI,L.DARUKA, JRNL AUTH 4 C.PAL,D.KIKELJ,L.P.MASIC,T.TOMASIC JRNL TITL NEW DUAL ATP-COMPETITIVE INHIBITORS OF BACTERIAL DNA GYRASE JRNL TITL 2 AND TOPOISOMERASE IV ACTIVE AGAINST ESKAPE PATHOGENS. JRNL REF EUR.J.MED.CHEM. V. 213 13200 2021 JRNL REFN ISSN 0223-5234 JRNL PMID 33524686 JRNL DOI 10.1016/J.EJMECH.2021.113200 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0257 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 51.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 3 NUMBER OF REFLECTIONS : 40138 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) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.186 REMARK 3 FREE R VALUE : 0.211 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 2031 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2899 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.92 REMARK 3 BIN R VALUE (WORKING SET) : 0.3130 REMARK 3 BIN FREE R VALUE SET COUNT : 154 REMARK 3 BIN FREE R VALUE : 0.2910 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3049 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 118 REMARK 3 SOLVENT ATOMS : 213 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 35.72 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.09000 REMARK 3 B22 (A**2) : 0.67000 REMARK 3 B33 (A**2) : 1.42000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -2.98000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.117 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.108 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.097 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.443 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.970 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.961 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3271 ; 0.010 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 3024 ; 0.001 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4442 ; 1.736 ; 1.683 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7005 ; 1.364 ; 1.599 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 390 ; 5.967 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 194 ;36.775 ;22.990 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 568 ;13.413 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;17.716 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 424 ; 0.078 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3647 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 669 ; 0.003 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 17 A 230 REMARK 3 ORIGIN FOR THE GROUP (A): 11.6760 11.6870 -5.1570 REMARK 3 T TENSOR REMARK 3 T11: 0.0657 T22: 0.0443 REMARK 3 T33: 0.0839 T12: -0.0404 REMARK 3 T13: 0.0369 T23: 0.0032 REMARK 3 L TENSOR REMARK 3 L11: 0.7891 L22: 0.1809 REMARK 3 L33: 0.4661 L12: -0.2318 REMARK 3 L13: 0.4116 L23: 0.0406 REMARK 3 S TENSOR REMARK 3 S11: -0.1042 S12: 0.1475 S13: 0.0309 REMARK 3 S21: 0.0774 S22: -0.0488 S23: 0.0860 REMARK 3 S31: -0.0033 S32: 0.0868 S33: 0.1531 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 20 B 231 REMARK 3 ORIGIN FOR THE GROUP (A): -20.9280 -12.6330 -27.5670 REMARK 3 T TENSOR REMARK 3 T11: 0.0919 T22: 0.0350 REMARK 3 T33: 0.0870 T12: 0.0049 REMARK 3 T13: 0.0185 T23: -0.0151 REMARK 3 L TENSOR REMARK 3 L11: 0.8246 L22: 0.6456 REMARK 3 L33: 0.2873 L12: -0.0356 REMARK 3 L13: 0.2654 L23: -0.0147 REMARK 3 S TENSOR REMARK 3 S11: -0.0845 S12: -0.0482 S13: 0.1102 REMARK 3 S21: 0.0536 S22: -0.0242 S23: -0.1661 REMARK 3 S31: 0.0401 S32: -0.0801 S33: 0.1087 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 : WITH TLS ADDED REMARK 4 REMARK 4 6TTG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1292105303. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-MAR-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 XE 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 42170 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 51.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.0 REMARK 200 DATA REDUNDANCY : 5.100 REMARK 200 R MERGE (I) : 0.04300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 1.43300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: 5CPH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M HEPES/MOPS PH 7.5 0.03 M REMARK 280 MAGNESIUM CHLORIDE 0.03 M CALCIUM CHLORIDE 25 % V/V MPD 25% V/V REMARK 280 PEG 1000 25% W/V PEG 3350, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -X+1/2,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 71.35000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.68000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 71.35000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.68000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: MONOMERIC 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 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 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 A 306 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 GLY A 0 REMARK 465 SER A 1 REMARK 465 VAL A 2 REMARK 465 THR A 3 REMARK 465 ALA A 4 REMARK 465 LEU A 5 REMARK 465 SER A 6 REMARK 465 ASP A 7 REMARK 465 VAL A 8 REMARK 465 ASN A 9 REMARK 465 ASN A 10 REMARK 465 THR A 11 REMARK 465 ASP A 12 REMARK 465 ASN A 13 REMARK 465 TYR A 14 REMARK 465 GLY A 15 REMARK 465 ALA A 16 REMARK 465 GLY A 231 REMARK 465 GLY A 232 REMARK 465 ILE A 233 REMARK 465 LYS A 234 REMARK 465 GLY B 0 REMARK 465 SER B 1 REMARK 465 VAL B 2 REMARK 465 THR B 3 REMARK 465 ALA B 4 REMARK 465 LEU B 5 REMARK 465 SER B 6 REMARK 465 ASP B 7 REMARK 465 VAL B 8 REMARK 465 ASN B 9 REMARK 465 ASN B 10 REMARK 465 THR B 11 REMARK 465 ASP B 12 REMARK 465 ASN B 13 REMARK 465 TYR B 14 REMARK 465 GLY B 15 REMARK 465 ALA B 16 REMARK 465 GLY B 17 REMARK 465 GLN B 18 REMARK 465 ILE B 19 REMARK 465 GLU B 92 REMARK 465 LYS B 93 REMARK 465 GLY B 232 REMARK 465 ILE B 233 REMARK 465 LYS B 234 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 ARG A 144 NE - CZ - NH2 ANGL. DEV. = -3.3 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 ASN A 82 43.24 -106.54 REMARK 500 ASN A 206 72.37 -111.08 REMARK 500 SER B 40 -167.21 -78.75 REMARK 500 LYS B 73 135.31 -35.18 REMARK 500 LEU B 162 133.05 -38.99 REMARK 500 ASN B 206 68.61 -117.10 REMARK 500 HIS B 228 89.36 -155.02 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 A 306 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 57 OD2 REMARK 620 2 ASP A 57 OD2 0.0 REMARK 620 3 HOH A 474 O 80.2 80.2 REMARK 620 4 HOH A 474 O 88.0 88.0 111.7 REMARK 620 5 HOH A 501 O 81.0 81.0 75.3 165.9 REMARK 620 6 HOH A 501 O 112.9 112.9 165.9 75.3 100.8 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 NWK A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD A 305 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CA A 306 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 307 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NWK B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MPD B 303 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue IMD B 304 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL B 305 DBREF 6TTG A 2 234 UNP P0A0K8 GYRB_STAAU 2 234 DBREF 6TTG B 2 234 UNP P0A0K8 GYRB_STAAU 2 234 SEQADV 6TTG GLY A 0 UNP P0A0K8 EXPRESSION TAG SEQADV 6TTG SER A 1 UNP P0A0K8 EXPRESSION TAG SEQADV 6TTG A UNP P0A0K8 VAL 105 DELETION SEQADV 6TTG A UNP P0A0K8 LEU 106 DELETION SEQADV 6TTG A UNP P0A0K8 HIS 107 DELETION SEQADV 6TTG A UNP P0A0K8 ALA 108 DELETION SEQADV 6TTG A UNP P0A0K8 GLY 109 DELETION SEQADV 6TTG A UNP P0A0K8 GLY 110 DELETION SEQADV 6TTG A UNP P0A0K8 LYS 111 DELETION SEQADV 6TTG A UNP P0A0K8 PHE 112 DELETION SEQADV 6TTG A UNP P0A0K8 GLY 113 DELETION SEQADV 6TTG A UNP P0A0K8 GLY 114 DELETION SEQADV 6TTG A UNP P0A0K8 GLY 115 DELETION SEQADV 6TTG A UNP P0A0K8 GLY 116 DELETION SEQADV 6TTG A UNP P0A0K8 TYR 117 DELETION SEQADV 6TTG A UNP P0A0K8 LYS 118 DELETION SEQADV 6TTG A UNP P0A0K8 VAL 119 DELETION SEQADV 6TTG A UNP P0A0K8 SER 120 DELETION SEQADV 6TTG A UNP P0A0K8 GLY 121 DELETION SEQADV 6TTG A UNP P0A0K8 GLY 122 DELETION SEQADV 6TTG A UNP P0A0K8 LEU 123 DELETION SEQADV 6TTG A UNP P0A0K8 HIS 124 DELETION SEQADV 6TTG A UNP P0A0K8 GLY 125 DELETION SEQADV 6TTG A UNP P0A0K8 VAL 126 DELETION SEQADV 6TTG A UNP P0A0K8 GLY 127 DELETION SEQADV 6TTG GLY B 0 UNP P0A0K8 EXPRESSION TAG SEQADV 6TTG SER B 1 UNP P0A0K8 EXPRESSION TAG SEQADV 6TTG B UNP P0A0K8 VAL 105 DELETION SEQADV 6TTG B UNP P0A0K8 LEU 106 DELETION SEQADV 6TTG B UNP P0A0K8 HIS 107 DELETION SEQADV 6TTG B UNP P0A0K8 ALA 108 DELETION SEQADV 6TTG B UNP P0A0K8 GLY 109 DELETION SEQADV 6TTG B UNP P0A0K8 GLY 110 DELETION SEQADV 6TTG B UNP P0A0K8 LYS 111 DELETION SEQADV 6TTG B UNP P0A0K8 PHE 112 DELETION SEQADV 6TTG B UNP P0A0K8 GLY 113 DELETION SEQADV 6TTG B UNP P0A0K8 GLY 114 DELETION SEQADV 6TTG B UNP P0A0K8 GLY 115 DELETION SEQADV 6TTG B UNP P0A0K8 GLY 116 DELETION SEQADV 6TTG B UNP P0A0K8 TYR 117 DELETION SEQADV 6TTG B UNP P0A0K8 LYS 118 DELETION SEQADV 6TTG B UNP P0A0K8 VAL 119 DELETION SEQADV 6TTG B UNP P0A0K8 SER 120 DELETION SEQADV 6TTG B UNP P0A0K8 GLY 121 DELETION SEQADV 6TTG B UNP P0A0K8 GLY 122 DELETION SEQADV 6TTG B UNP P0A0K8 LEU 123 DELETION SEQADV 6TTG B UNP P0A0K8 HIS 124 DELETION SEQADV 6TTG B UNP P0A0K8 GLY 125 DELETION SEQADV 6TTG B UNP P0A0K8 VAL 126 DELETION SEQADV 6TTG B UNP P0A0K8 GLY 127 DELETION SEQRES 1 A 212 GLY SER VAL THR ALA LEU SER ASP VAL ASN ASN THR ASP SEQRES 2 A 212 ASN TYR GLY ALA GLY GLN ILE GLN VAL LEU GLU GLY LEU SEQRES 3 A 212 GLU ALA VAL ARG LYS ARG PRO GLY MET TYR ILE GLY SER SEQRES 4 A 212 THR SER GLU ARG GLY LEU HIS HIS LEU VAL TRP GLU ILE SEQRES 5 A 212 VAL ASP ASN SER ILE ASP GLU ALA LEU ALA GLY TYR ALA SEQRES 6 A 212 ASN GLN ILE GLU VAL VAL ILE GLU LYS ASP ASN TRP ILE SEQRES 7 A 212 LYS VAL THR ASP ASN GLY ARG GLY ILE PRO VAL ASP ILE SEQRES 8 A 212 GLN GLU LYS MET GLY ARG PRO ALA VAL GLU VAL ILE LEU SEQRES 9 A 212 THR SER SER VAL VAL ASN ALA LEU SER GLN ASP LEU GLU SEQRES 10 A 212 VAL TYR VAL HIS ARG ASN GLU THR ILE TYR HIS GLN ALA SEQRES 11 A 212 TYR LYS LYS GLY VAL PRO GLN PHE ASP LEU LYS GLU VAL SEQRES 12 A 212 GLY THR THR ASP LYS THR GLY THR VAL ILE ARG PHE LYS SEQRES 13 A 212 ALA ASP GLY GLU ILE PHE THR GLU THR THR VAL TYR ASN SEQRES 14 A 212 TYR GLU THR LEU GLN GLN ARG ILE ARG GLU LEU ALA PHE SEQRES 15 A 212 LEU ASN LYS GLY ILE GLN ILE THR LEU ARG ASP GLU ARG SEQRES 16 A 212 ASP GLU GLU ASN VAL ARG GLU ASP SER TYR HIS TYR GLU SEQRES 17 A 212 GLY GLY ILE LYS SEQRES 1 B 212 GLY SER VAL THR ALA LEU SER ASP VAL ASN ASN THR ASP SEQRES 2 B 212 ASN TYR GLY ALA GLY GLN ILE GLN VAL LEU GLU GLY LEU SEQRES 3 B 212 GLU ALA VAL ARG LYS ARG PRO GLY MET TYR ILE GLY SER SEQRES 4 B 212 THR SER GLU ARG GLY LEU HIS HIS LEU VAL TRP GLU ILE SEQRES 5 B 212 VAL ASP ASN SER ILE ASP GLU ALA LEU ALA GLY TYR ALA SEQRES 6 B 212 ASN GLN ILE GLU VAL VAL ILE GLU LYS ASP ASN TRP ILE SEQRES 7 B 212 LYS VAL THR ASP ASN GLY ARG GLY ILE PRO VAL ASP ILE SEQRES 8 B 212 GLN GLU LYS MET GLY ARG PRO ALA VAL GLU VAL ILE LEU SEQRES 9 B 212 THR SER SER VAL VAL ASN ALA LEU SER GLN ASP LEU GLU SEQRES 10 B 212 VAL TYR VAL HIS ARG ASN GLU THR ILE TYR HIS GLN ALA SEQRES 11 B 212 TYR LYS LYS GLY VAL PRO GLN PHE ASP LEU LYS GLU VAL SEQRES 12 B 212 GLY THR THR ASP LYS THR GLY THR VAL ILE ARG PHE LYS SEQRES 13 B 212 ALA ASP GLY GLU ILE PHE THR GLU THR THR VAL TYR ASN SEQRES 14 B 212 TYR GLU THR LEU GLN GLN ARG ILE ARG GLU LEU ALA PHE SEQRES 15 B 212 LEU ASN LYS GLY ILE GLN ILE THR LEU ARG ASP GLU ARG SEQRES 16 B 212 ASP GLU GLU ASN VAL ARG GLU ASP SER TYR HIS TYR GLU SEQRES 17 B 212 GLY GLY ILE LYS HET NWK A 301 32 HET GOL A 302 6 HET MPD A 303 8 HET MPD A 304 8 HET MPD A 305 8 HET CA A 306 1 HET CL A 307 1 HET NWK B 301 32 HET MPD B 302 8 HET MPD B 303 8 HET IMD B 304 5 HET CL B 305 1 HETNAM NWK 2-[[3,4-BIS(CHLORANYL)-5-METHYL-1~{H}-PYRROL-2- HETNAM 2 NWK YL]CARBONYLAMINO]-4-(2-MORPHOLIN-4-YLETHOXY)-1,3- HETNAM 3 NWK BENZOTHIAZOLE-6-CARBOXYLIC ACID HETNAM GOL GLYCEROL HETNAM MPD (4S)-2-METHYL-2,4-PENTANEDIOL HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETNAM IMD IMIDAZOLE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 NWK 2(C20 H20 CL2 N4 O5 S) FORMUL 4 GOL C3 H8 O3 FORMUL 5 MPD 5(C6 H14 O2) FORMUL 8 CA CA 2+ FORMUL 9 CL 2(CL 1-) FORMUL 13 IMD C3 H5 N2 1+ FORMUL 15 HOH *213(H2 O) HELIX 1 AA1 GLY A 17 ARG A 31 1 15 HELIX 2 AA2 ARG A 31 GLY A 37 1 7 HELIX 3 AA3 SER A 40 ALA A 61 1 22 HELIX 4 AA4 LYS A 73 ASN A 75 5 3 HELIX 5 AA5 PRO A 97 SER A 128 1 9 HELIX 6 AA6 SER A 129 LEU A 134 1 6 HELIX 7 AA7 ASN A 191 ASN A 206 1 16 HELIX 8 AA8 VAL B 21 ARG B 31 1 11 HELIX 9 AA9 PRO B 32 GLY B 37 1 6 HELIX 10 AB1 SER B 40 ALA B 61 1 22 HELIX 11 AB2 PRO B 97 SER B 128 1 9 HELIX 12 AB3 SER B 129 LEU B 134 1 6 HELIX 13 AB4 ASN B 191 ASN B 206 1 16 SHEET 1 AA1 3 VAL A 157 PRO A 158 0 SHEET 2 AA1 3 THR A 147 LYS A 154 -1 N LYS A 154 O VAL A 157 SHEET 3 AA1 3 LYS A 163 THR A 167 -1 O VAL A 165 N ILE A 148 SHEET 1 AA2 8 VAL A 157 PRO A 158 0 SHEET 2 AA2 8 THR A 147 LYS A 154 -1 N LYS A 154 O VAL A 157 SHEET 3 AA2 8 SER A 135 ARG A 144 -1 N VAL A 142 O TYR A 149 SHEET 4 AA2 8 GLY A 172 ALA A 179 -1 O GLY A 172 N HIS A 143 SHEET 5 AA2 8 ILE A 77 ASP A 81 -1 N VAL A 79 O ILE A 175 SHEET 6 AA2 8 GLN A 66 ILE A 71 -1 N VAL A 70 O LYS A 78 SHEET 7 AA2 8 GLN A 210 ASP A 215 1 O THR A 212 N VAL A 69 SHEET 8 AA2 8 ARG A 223 TYR A 227 -1 O TYR A 227 N ILE A 211 SHEET 1 AA3 3 VAL B 157 PRO B 158 0 SHEET 2 AA3 3 THR B 147 LYS B 154 -1 N LYS B 154 O VAL B 157 SHEET 3 AA3 3 LYS B 163 THR B 167 -1 O VAL B 165 N ILE B 148 SHEET 1 AA4 8 VAL B 157 PRO B 158 0 SHEET 2 AA4 8 THR B 147 LYS B 154 -1 N LYS B 154 O VAL B 157 SHEET 3 AA4 8 SER B 135 ARG B 144 -1 N VAL B 142 O TYR B 149 SHEET 4 AA4 8 GLY B 172 ALA B 179 -1 O ARG B 176 N GLU B 139 SHEET 5 AA4 8 TRP B 76 ASP B 81 -1 N VAL B 79 O ILE B 175 SHEET 6 AA4 8 GLN B 66 ILE B 71 -1 N VAL B 70 O LYS B 78 SHEET 7 AA4 8 GLN B 210 ASP B 215 1 O THR B 212 N VAL B 69 SHEET 8 AA4 8 ARG B 223 TYR B 227 -1 O ASP B 225 N LEU B 213 LINK OD2 ASP A 57 CA CA A 306 1555 1555 2.42 LINK OD2 ASP A 57 CA CA A 306 1555 2555 2.42 LINK CA CA A 306 O HOH A 474 1555 1555 2.46 LINK CA CA A 306 O HOH A 474 1555 2555 2.46 LINK CA CA A 306 O HOH A 501 1555 1555 2.38 LINK CA CA A 306 O HOH A 501 1555 2555 2.38 SITE 1 AC1 12 ASN A 54 SER A 55 GLU A 58 ASP A 81 SITE 2 AC1 12 ARG A 84 GLY A 85 ILE A 86 PRO A 87 SITE 3 AC1 12 ILE A 102 ARG A 144 HOH A 411 HOH A 428 SITE 1 AC2 8 MET A 34 ARG A 200 GLU A 201 HOH A 415 SITE 2 AC2 8 ILE B 90 GLY B 95 ARG B 96 PRO B 97 SITE 1 AC3 3 HIS A 143 MPD A 304 HOH A 453 SITE 1 AC4 6 ASP A 81 HIS A 143 LYS A 170 THR A 171 SITE 2 AC4 6 MPD A 303 HOH A 453 SITE 1 AC5 3 GLN A 66 THR A 80 HOH A 446 SITE 1 AC6 3 ASP A 57 HOH A 474 HOH A 501 SITE 1 AC7 3 VAL A 88 ASP A 89 ARG A 144 SITE 1 AC8 15 THR A 185 ASN B 54 SER B 55 GLU B 58 SITE 2 AC8 15 ASP B 81 ARG B 84 GLY B 85 ILE B 86 SITE 3 AC8 15 PRO B 87 ARG B 144 THR B 173 ILE B 175 SITE 4 AC8 15 HOH B 403 HOH B 420 HOH B 423 SITE 1 AC9 6 HIS B 143 GLU B 186 THR B 187 VAL B 189 SITE 2 AC9 6 MPD B 303 HOH B 439 SITE 1 AD1 4 ASP B 81 HIS B 143 LYS B 170 MPD B 302 SITE 1 AD2 1 HOH B 440 SITE 1 AD3 3 VAL B 88 ASP B 89 ARG B 144 CRYST1 142.700 55.360 50.810 90.00 100.42 90.00 C 1 2 1 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 0.007008 0.000000 0.001289 0.00000 SCALE2 0.000000 0.018064 0.000000 0.00000 SCALE3 0.000000 0.000000 0.020011 0.00000