HEADER ISOMERASE/ISOMERASE INHIBITOR 03-OCT-11 3U2D TITLE S. AUREUS GYRB ATPASE DOMAIN IN COMPLEX WITH SMALL MOLECULE INHIBITOR COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA GYRASE SUBUNIT B; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: ATPASE DOMAIN WITH LOOP DELETION, UNP RESIDUES 14-104 AND COMPND 5 128-233; COMPND 6 EC: 5.99.1.3; COMPND 7 ENGINEERED: YES 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; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PT73.3 KEYWDS PROTEIN-INHIBITOR COMPLEX, ATP-BINDING, STRUCTURE-BASED DRUG DESIGN, KEYWDS 2 ANTIMICROBIAL, ISOMERASE-ISOMERASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR P.A.BORIACK-SJODIN,D.B.PRINCE,A.E.EAKIN,B.A.SHERER REVDAT 4 28-FEB-24 3U2D 1 REMARK SEQADV LINK REVDAT 3 09-AUG-17 3U2D 1 SOURCE REMARK REVDAT 2 29-FEB-12 3U2D 1 JRNL REVDAT 1 11-JAN-12 3U2D 0 JRNL AUTH A.E.EAKIN,O.GREEN,N.HALES,G.K.WALKUP,S.BIST,A.SINGH, JRNL AUTH 2 G.MULLEN,J.BRYANT,K.EMBREY,N.GAO,A.BREEZE,D.TIMMS,B.ANDREWS, JRNL AUTH 3 M.URIA-NICKELSEN,J.DEMERITT,J.T.LOCH,K.HULL,A.BLODGETT, JRNL AUTH 4 R.N.ILLINGWORTH,B.PRINCE,P.A.BORIACK-SJODIN,S.HAUCK, JRNL AUTH 5 L.J.MACPHERSON,H.NI,B.SHERER JRNL TITL PYRROLAMIDE DNA GYRASE INHIBITORS: FRAGMENT-BASED NUCLEAR JRNL TITL 2 MAGNETIC RESONANCE SCREENING TO IDENTIFY ANTIBACTERIAL JRNL TITL 3 AGENTS. JRNL REF ANTIMICROB.AGENTS CHEMOTHER. V. 56 1240 2012 JRNL REFN ISSN 0066-4804 JRNL PMID 22183167 JRNL DOI 10.1128/AAC.05485-11 REMARK 2 REMARK 2 RESOLUTION. 1.85 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.85 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 51.77 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 33063 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) : 0.202 REMARK 3 R VALUE (WORKING SET) : 0.201 REMARK 3 FREE R VALUE : 0.232 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1682 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) : 1.85 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.90 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2164 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.24 REMARK 3 BIN R VALUE (WORKING SET) : 0.2240 REMARK 3 BIN FREE R VALUE SET COUNT : 101 REMARK 3 BIN FREE R VALUE : 0.2500 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3060 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 54 REMARK 3 SOLVENT ATOMS : 324 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.34 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.35000 REMARK 3 B22 (A**2) : 0.10000 REMARK 3 B33 (A**2) : 0.26000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.04000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.148 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.094 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.376 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.948 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.934 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3246 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2132 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4412 ; 0.939 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5199 ; 0.751 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 395 ; 4.960 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 173 ;38.370 ;24.798 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 567 ;11.356 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;13.598 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 486 ; 0.061 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3680 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 641 ; 0.001 ; 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): 1931 ; 0.331 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 796 ; 0.068 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3147 ; 0.652 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1315 ; 1.166 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1265 ; 2.045 ; 4.500 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 14 A 230 REMARK 3 ORIGIN FOR THE GROUP (A): 7.3550 11.6700 20.0900 REMARK 3 T TENSOR REMARK 3 T11: 0.0053 T22: 0.0307 REMARK 3 T33: 0.0082 T12: 0.0010 REMARK 3 T13: 0.0040 T23: 0.0014 REMARK 3 L TENSOR REMARK 3 L11: 0.6402 L22: 0.7767 REMARK 3 L33: 0.7138 L12: -0.0218 REMARK 3 L13: 0.0104 L23: -0.1215 REMARK 3 S TENSOR REMARK 3 S11: 0.0045 S12: 0.0075 S13: 0.0058 REMARK 3 S21: -0.0004 S22: -0.0214 S23: 0.0763 REMARK 3 S31: 0.0031 S32: 0.0243 S33: 0.0169 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 230 REMARK 3 ORIGIN FOR THE GROUP (A): 25.5420 -13.0160 2.1980 REMARK 3 T TENSOR REMARK 3 T11: 0.0341 T22: 0.0381 REMARK 3 T33: 0.0343 T12: -0.0051 REMARK 3 T13: -0.0164 T23: 0.0178 REMARK 3 L TENSOR REMARK 3 L11: 1.1180 L22: 1.2159 REMARK 3 L33: 0.8494 L12: 0.2943 REMARK 3 L13: 0.1117 L23: 0.2122 REMARK 3 S TENSOR REMARK 3 S11: -0.0859 S12: 0.0825 S13: 0.1195 REMARK 3 S21: -0.0899 S22: 0.0111 S23: 0.1712 REMARK 3 S31: -0.0646 S32: 0.0042 S33: 0.0748 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 : 1.40 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 REMARK 4 REMARK 4 3U2D COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-OCT-11. REMARK 100 THE DEPOSITION ID IS D_1000068218. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-SEP-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU FR-E+ SUPERBRIGHT REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : MIRRORS REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU SATURN 944 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK 9.8L REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 33210 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.850 REMARK 200 RESOLUTION RANGE LOW (A) : 51.770 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 3.020 REMARK 200 R MERGE (I) : 0.09500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.85 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 92.4 REMARK 200 DATA REDUNDANCY IN SHELL : 2.57 REMARK 200 R MERGE FOR SHELL (I) : 0.33500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.23 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 19-30% PEG3350, 0.1MHEPES, PH 7.5, REMARK 280 0.2M MGCL2, SITTING DROP, INHIBITOR SOAK, 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 71.74350 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.82300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 71.74350 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.82300 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 HOH A 381 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 13 REMARK 465 GLY A 231 REMARK 465 GLY A 232 REMARK 465 ILE A 233 REMARK 465 MET 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 LYS B 93 REMARK 465 MET B 94 REMARK 465 GLY B 231 REMARK 465 GLY B 232 REMARK 465 ILE B 233 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 TYR A 14 CG CD1 CD2 CE1 CE2 CZ OH 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 206 73.80 -119.91 REMARK 500 HIS A 228 90.16 -161.59 REMARK 500 HIS B 228 83.11 -156.31 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 MG A 235 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 164 OE1 REMARK 620 2 HOH A 283 O 100.9 REMARK 620 3 HOH B 247 O 155.9 102.3 REMARK 620 4 HOH B 290 O 99.7 154.0 56.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 234 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 208 O REMARK 620 2 HOH A 282 O 90.6 REMARK 620 3 HOH A 327 O 93.0 175.3 REMARK 620 4 HOH A 379 O 171.6 93.5 83.2 REMARK 620 5 HOH A 380 O 86.3 97.6 85.7 86.0 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 1 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 54 OD1 REMARK 620 2 HOH B 308 O 71.6 REMARK 620 3 HOH B 318 O 97.6 154.6 REMARK 620 4 HOH B 351 O 73.5 71.5 83.5 REMARK 620 5 HOH B 383 O 150.4 90.1 89.3 78.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 234 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY B 208 O REMARK 620 2 HOH B 294 O 91.0 REMARK 620 3 HOH B 313 O 172.6 93.7 REMARK 620 4 HOH B 333 O 92.2 171.8 82.5 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 08B A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 08B B 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 234 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 234 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 235 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3TTZ RELATED DB: PDB REMARK 900 RELATED ID: 3U2K RELATED DB: PDB DBREF 3U2D A 14 104 UNP P0A0K8 GYRB_STAAU 14 104 DBREF 3U2D A 128 233 UNP P0A0K8 GYRB_STAAU 128 233 DBREF 3U2D B 14 104 UNP P0A0K8 GYRB_STAAU 14 104 DBREF 3U2D B 128 233 UNP P0A0K8 GYRB_STAAU 128 233 SEQADV 3U2D MET A 13 UNP P0A0K8 INITIATING METHIONINE SEQADV 3U2D MET B 13 UNP P0A0K8 INITIATING METHIONINE SEQRES 1 A 198 MET TYR GLY ALA GLY GLN ILE GLN VAL LEU GLU GLY LEU SEQRES 2 A 198 GLU ALA VAL ARG LYS ARG PRO GLY MET TYR ILE GLY SER SEQRES 3 A 198 THR SER GLU ARG GLY LEU HIS HIS LEU VAL TRP GLU ILE SEQRES 4 A 198 VAL ASP ASN SER ILE ASP GLU ALA LEU ALA GLY TYR ALA SEQRES 5 A 198 ASN GLN ILE GLU VAL VAL ILE GLU LYS ASP ASN TRP ILE SEQRES 6 A 198 LYS VAL THR ASP ASN GLY ARG GLY ILE PRO VAL ASP ILE SEQRES 7 A 198 GLN GLU LYS MET GLY ARG PRO ALA VAL GLU VAL ILE LEU SEQRES 8 A 198 THR SER SER VAL VAL ASN ALA LEU SER GLN ASP LEU GLU SEQRES 9 A 198 VAL TYR VAL HIS ARG ASN GLU THR ILE TYR HIS GLN ALA SEQRES 10 A 198 TYR LYS LYS GLY VAL PRO GLN PHE ASP LEU LYS GLU VAL SEQRES 11 A 198 GLY THR THR ASP LYS THR GLY THR VAL ILE ARG PHE LYS SEQRES 12 A 198 ALA ASP GLY GLU ILE PHE THR GLU THR THR VAL TYR ASN SEQRES 13 A 198 TYR GLU THR LEU GLN GLN ARG ILE ARG GLU LEU ALA PHE SEQRES 14 A 198 LEU ASN LYS GLY ILE GLN ILE THR LEU ARG ASP GLU ARG SEQRES 15 A 198 ASP GLU GLU ASN VAL ARG GLU ASP SER TYR HIS TYR GLU SEQRES 16 A 198 GLY GLY ILE SEQRES 1 B 198 MET TYR GLY ALA GLY GLN ILE GLN VAL LEU GLU GLY LEU SEQRES 2 B 198 GLU ALA VAL ARG LYS ARG PRO GLY MET TYR ILE GLY SER SEQRES 3 B 198 THR SER GLU ARG GLY LEU HIS HIS LEU VAL TRP GLU ILE SEQRES 4 B 198 VAL ASP ASN SER ILE ASP GLU ALA LEU ALA GLY TYR ALA SEQRES 5 B 198 ASN GLN ILE GLU VAL VAL ILE GLU LYS ASP ASN TRP ILE SEQRES 6 B 198 LYS VAL THR ASP ASN GLY ARG GLY ILE PRO VAL ASP ILE SEQRES 7 B 198 GLN GLU LYS MET GLY ARG PRO ALA VAL GLU VAL ILE LEU SEQRES 8 B 198 THR SER SER VAL VAL ASN ALA LEU SER GLN ASP LEU GLU SEQRES 9 B 198 VAL TYR VAL HIS ARG ASN GLU THR ILE TYR HIS GLN ALA SEQRES 10 B 198 TYR LYS LYS GLY VAL PRO GLN PHE ASP LEU LYS GLU VAL SEQRES 11 B 198 GLY THR THR ASP LYS THR GLY THR VAL ILE ARG PHE LYS SEQRES 12 B 198 ALA ASP GLY GLU ILE PHE THR GLU THR THR VAL TYR ASN SEQRES 13 B 198 TYR GLU THR LEU GLN GLN ARG ILE ARG GLU LEU ALA PHE SEQRES 14 B 198 LEU ASN LYS GLY ILE GLN ILE THR LEU ARG ASP GLU ARG SEQRES 15 B 198 ASP GLU GLU ASN VAL ARG GLU ASP SER TYR HIS TYR GLU SEQRES 16 B 198 GLY GLY ILE HET 08B A 1 25 HET MG A 234 1 HET MG A 235 1 HET 08B B 2 25 HET MG B 1 1 HET MG B 234 1 HETNAM 08B 4-BROMO-5-METHYL-N-[1-(3-NITROPYRIDIN-2-YL)PIPERIDIN-4- HETNAM 2 08B YL]-1H-PYRROLE-2-CARBOXAMIDE HETNAM MG MAGNESIUM ION FORMUL 3 08B 2(C16 H18 BR N5 O3) FORMUL 4 MG 4(MG 2+) FORMUL 9 HOH *324(H2 O) HELIX 1 1 GLY A 15 ARG A 31 1 17 HELIX 2 2 ARG A 31 GLY A 37 1 7 HELIX 3 3 SER A 40 ALA A 61 1 22 HELIX 4 4 LYS A 73 ASN A 75 5 3 HELIX 5 5 PRO A 97 SER A 128 1 9 HELIX 6 6 SER A 129 LEU A 134 1 6 HELIX 7 7 ASN A 191 ASN A 206 1 16 HELIX 8 8 VAL B 21 ARG B 31 1 11 HELIX 9 9 PRO B 32 GLY B 37 1 6 HELIX 10 10 SER B 40 ALA B 61 1 22 HELIX 11 11 PRO B 97 THR B 104 1 8 HELIX 12 12 SER B 129 LEU B 134 1 6 HELIX 13 13 ASN B 191 ASN B 206 1 16 SHEET 1 A 3 VAL A 157 PRO A 158 0 SHEET 2 A 3 THR A 147 LYS A 154 -1 N LYS A 154 O VAL A 157 SHEET 3 A 3 LYS A 163 THR A 167 -1 O LYS A 163 N HIS A 150 SHEET 1 B 8 VAL A 157 PRO A 158 0 SHEET 2 B 8 THR A 147 LYS A 154 -1 N LYS A 154 O VAL A 157 SHEET 3 B 8 SER A 135 ARG A 144 -1 N LEU A 138 O TYR A 153 SHEET 4 B 8 GLY A 172 ALA A 179 -1 O GLY A 172 N HIS A 143 SHEET 5 B 8 TRP A 76 ASP A 81 -1 N VAL A 79 O ILE A 175 SHEET 6 B 8 GLN A 66 GLU A 72 -1 N VAL A 70 O LYS A 78 SHEET 7 B 8 GLN A 210 ASP A 215 1 O THR A 212 N VAL A 69 SHEET 8 B 8 ARG A 223 TYR A 227 -1 O TYR A 227 N ILE A 211 SHEET 1 C 3 VAL B 157 PRO B 158 0 SHEET 2 C 3 THR B 147 LYS B 154 -1 N LYS B 154 O VAL B 157 SHEET 3 C 3 LYS B 163 THR B 167 -1 O VAL B 165 N ILE B 148 SHEET 1 D 8 VAL B 157 PRO B 158 0 SHEET 2 D 8 THR B 147 LYS B 154 -1 N LYS B 154 O VAL B 157 SHEET 3 D 8 SER B 135 ARG B 144 -1 N LEU B 138 O TYR B 153 SHEET 4 D 8 GLY B 172 ALA B 179 -1 O ARG B 176 N GLU B 139 SHEET 5 D 8 TRP B 76 ASP B 81 -1 N VAL B 79 O ILE B 175 SHEET 6 D 8 GLN B 66 GLU B 72 -1 N GLU B 68 O THR B 80 SHEET 7 D 8 GLN B 210 ASP B 215 1 O THR B 212 N VAL B 69 SHEET 8 D 8 ARG B 223 TYR B 227 -1 O ASP B 225 N LEU B 213 LINK OE1 GLU A 164 MG MG A 235 1555 1555 2.70 LINK O GLY A 208 MG MG A 234 1555 1555 2.14 LINK MG MG A 234 O HOH A 282 1555 1555 1.97 LINK MG MG A 234 O HOH A 327 1555 1555 2.34 LINK MG MG A 234 O HOH A 379 1555 1555 2.12 LINK MG MG A 234 O HOH A 380 1555 1555 2.08 LINK MG MG A 235 O HOH A 283 1555 1555 2.44 LINK MG MG A 235 O HOH B 247 1555 1555 2.68 LINK MG MG A 235 O HOH B 290 1555 1555 2.89 LINK MG MG B 1 OD1 ASN B 54 1555 1555 2.51 LINK MG MG B 1 O HOH B 308 1555 1555 2.07 LINK MG MG B 1 O HOH B 318 1555 1555 2.26 LINK MG MG B 1 O HOH B 351 1555 1555 2.62 LINK MG MG B 1 O HOH B 383 1555 1555 2.08 LINK O GLY B 208 MG MG B 234 1555 1555 2.12 LINK MG MG B 234 O HOH B 294 1555 1555 1.96 LINK MG MG B 234 O HOH B 313 1555 1555 2.08 LINK MG MG B 234 O HOH B 333 1555 1555 2.44 SITE 1 AC1 10 ASN A 54 SER A 55 GLU A 58 ASP A 81 SITE 2 AC1 10 ARG A 84 GLY A 85 ILE A 86 PRO A 87 SITE 3 AC1 10 HOH A 244 HOH A 385 SITE 1 AC2 13 THR A 185 ASN B 54 SER B 55 GLU B 58 SITE 2 AC2 13 ASP B 81 ARG B 84 GLY B 85 ILE B 86 SITE 3 AC2 13 PRO B 87 ILE B 175 HOH B 253 HOH B 279 SITE 4 AC2 13 HOH B 374 SITE 1 AC3 6 GLY A 208 HIS A 228 HOH A 282 HOH A 327 SITE 2 AC3 6 HOH A 379 HOH A 380 SITE 1 AC4 5 ASN B 54 HOH B 308 HOH B 318 HOH B 351 SITE 2 AC4 5 HOH B 383 SITE 1 AC5 5 GLY B 208 HIS B 228 HOH B 294 HOH B 313 SITE 2 AC5 5 HOH B 333 SITE 1 AC6 6 GLU A 164 HOH A 283 HOH A 337 LEU B 60 SITE 2 AC6 6 HOH B 247 HOH B 290 CRYST1 143.487 55.646 51.103 90.00 100.38 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 0.006969 0.000000 0.001276 0.00000 SCALE2 0.000000 0.017971 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019894 0.00000