HEADER ISOMERASE/ISOMERASE INHIBITOR 03-OCT-11 3U2K TITLE S. AUREUS GYRB ATPASE DOMAIN IN COMPLEX WITH A SMALL MOLECULE TITLE 2 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 3U2K 1 REMARK SEQADV LINK REVDAT 3 09-AUG-17 3U2K 1 SOURCE REMARK REVDAT 2 29-FEB-12 3U2K 1 JRNL REVDAT 1 11-JAN-12 3U2K 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. 1.64 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) : 1.64 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.17 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 88.2 REMARK 3 NUMBER OF REFLECTIONS : 42877 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) : 0.158 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.182 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2181 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) : 1.64 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.68 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2397 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 70.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.1900 REMARK 3 BIN FREE R VALUE SET COUNT : 129 REMARK 3 BIN FREE R VALUE : 0.2340 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3058 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 60 REMARK 3 SOLVENT ATOMS : 440 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.41 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.13000 REMARK 3 B22 (A**2) : 0.11000 REMARK 3 B33 (A**2) : -0.05000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.19000 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): 0.095 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.053 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.216 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.949 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3273 ; 0.007 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2143 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4456 ; 1.062 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5232 ; 0.769 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 400 ; 5.265 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 174 ;38.629 ;24.885 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 571 ;12.120 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;15.928 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 488 ; 0.066 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3726 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 646 ; 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): 1944 ; 0.485 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 800 ; 0.108 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3173 ; 0.968 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1329 ; 1.869 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1283 ; 3.237 ; 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): 7.1240 12.0590 20.0350 REMARK 3 T TENSOR REMARK 3 T11: 0.0041 T22: 0.0088 REMARK 3 T33: 0.0300 T12: -0.0004 REMARK 3 T13: 0.0093 T23: -0.0013 REMARK 3 L TENSOR REMARK 3 L11: 0.4528 L22: 0.5285 REMARK 3 L33: 0.5835 L12: -0.0179 REMARK 3 L13: 0.0679 L23: -0.0144 REMARK 3 S TENSOR REMARK 3 S11: -0.0001 S12: 0.0372 S13: 0.0032 REMARK 3 S21: 0.0048 S22: -0.0245 S23: 0.0533 REMARK 3 S31: 0.0221 S32: 0.0412 S33: 0.0246 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): 25.9450 -12.3190 2.6990 REMARK 3 T TENSOR REMARK 3 T11: 0.0186 T22: 0.0115 REMARK 3 T33: 0.0357 T12: -0.0087 REMARK 3 T13: -0.0141 T23: 0.0165 REMARK 3 L TENSOR REMARK 3 L11: 0.8567 L22: 0.8049 REMARK 3 L33: 0.6984 L12: 0.3147 REMARK 3 L13: 0.1628 L23: 0.1512 REMARK 3 S TENSOR REMARK 3 S11: -0.0859 S12: 0.0583 S13: 0.0896 REMARK 3 S21: -0.0858 S22: 0.0281 S23: 0.1024 REMARK 3 S31: -0.0469 S32: 0.0654 S33: 0.0578 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 3U2K 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_1000068225. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-NOV-10 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 : XDS REMARK 200 DATA SCALING SOFTWARE : D*TREK, SCALA 3.3.15 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 43084 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.640 REMARK 200 RESOLUTION RANGE LOW (A) : 35.175 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.3 REMARK 200 DATA REDUNDANCY : 2.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.02400 REMARK 200 FOR THE DATA SET : 21.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.64 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 72.6 REMARK 200 DATA REDUNDANCY IN SHELL : 1.90 REMARK 200 R MERGE FOR SHELL (I) : 0.18000 REMARK 200 R SYM FOR SHELL (I) : 0.18000 REMARK 200 FOR SHELL : 4.400 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 (%): 44.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 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 71.58750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.74850 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 71.58750 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 27.74850 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 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 GLU B 92 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 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 O HOH B 334 O HOH B 424 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 374 O HOH B 424 1565 2.18 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 206 78.15 -114.79 REMARK 500 ASN A 206 76.96 -114.79 REMARK 500 ASN A 221 89.22 -150.75 REMARK 500 HIS A 228 96.63 -161.04 REMARK 500 HIS B 228 85.10 -156.21 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 2 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY A 208 O REMARK 620 2 HOH A 264 O 98.1 REMARK 620 3 HOH A 344 O 168.9 79.4 REMARK 620 4 HOH A 345 O 84.1 85.3 85.0 REMARK 620 5 HOH A 346 O 90.7 168.8 93.3 102.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG A 3 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 50 OE1 REMARK 620 2 HOH A 244 O 92.9 REMARK 620 3 HOH A 350 O 98.2 168.3 REMARK 620 4 HOH A 355 O 89.5 86.3 97.4 REMARK 620 5 HOH A 381 O 62.2 100.3 81.9 151.0 REMARK 620 N 1 2 3 4 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 HOH A 9 O REMARK 620 2 HOH A 306 O 74.1 REMARK 620 3 HOH A 320 O 86.3 85.6 REMARK 620 4 HOH A 326 O 100.3 172.3 88.9 REMARK 620 5 HOH A 341 O 95.2 92.2 176.9 93.6 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 4 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 315 O REMARK 620 2 HOH A 373 O 81.2 REMARK 620 3 HOH B 318 O 85.9 93.8 REMARK 620 4 HOH B 336 O 164.3 83.9 99.9 REMARK 620 5 HOH B 374 O 94.1 152.6 112.9 96.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 5 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLY B 208 O REMARK 620 2 HOH B 255 O 82.2 REMARK 620 3 HOH B 269 O 94.5 89.9 REMARK 620 4 HOH B 321 O 173.1 90.9 85.3 REMARK 620 5 HOH B 343 O 95.9 92.5 169.5 84.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 6 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 54 OD1 REMARK 620 2 HOH B 252 O 95.9 REMARK 620 3 HOH B 268 O 79.3 72.9 REMARK 620 4 HOH B 292 O 73.9 164.9 94.0 REMARK 620 5 HOH B 371 O 159.2 95.7 87.8 91.0 REMARK 620 6 HOH B 397 O 89.6 104.7 168.3 86.6 103.9 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 087 A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 087 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 A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 5 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 6 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3TTZ RELATED DB: PDB REMARK 900 RELATED ID: 3U2D RELATED DB: PDB DBREF 3U2K A 14 104 UNP P0A0K8 GYRB_STAAU 14 104 DBREF 3U2K A 128 233 UNP P0A0K8 GYRB_STAAU 128 233 DBREF 3U2K B 14 104 UNP P0A0K8 GYRB_STAAU 14 104 DBREF 3U2K B 128 233 UNP P0A0K8 GYRB_STAAU 128 233 SEQADV 3U2K MET A 13 UNP P0A0K8 INITIATING METHIONINE SEQADV 3U2K 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 087 A 1 27 HET MG A 234 1 HET MG A 2 1 HET MG A 3 1 HET 087 B 2 27 HET MG B 4 1 HET MG B 5 1 HET MG B 6 1 HETNAM 087 2-CHLORO-6-(4-{[(3,4-DICHLORO-5-METHYL-1H-PYRROL-2-YL) HETNAM 2 087 CARBONYL]AMINO}PIPERIDIN-1-YL)PYRIDINE-4-CARBOXAMIDE HETNAM MG MAGNESIUM ION FORMUL 3 087 2(C17 H18 CL3 N5 O2) FORMUL 4 MG 6(MG 2+) FORMUL 11 HOH *440(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 ARG B 31 GLY B 37 1 7 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 ARG A 176 N GLU A 139 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 GLY B 172 N HIS B 143 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 VAL B 70 O LYS B 78 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 TYR B 227 N ILE B 211 LINK MG MG A 2 O GLY A 208 1555 1555 2.13 LINK MG MG A 2 O HOH A 264 1555 1555 2.21 LINK MG MG A 2 O HOH A 344 1555 1555 2.04 LINK MG MG A 2 O HOH A 345 1555 1555 1.94 LINK MG MG A 2 O HOH A 346 1555 1555 2.03 LINK MG MG A 3 OE1 GLU A 50 1555 1555 2.83 LINK MG MG A 3 O HOH A 244 1555 1555 2.17 LINK MG MG A 3 O HOH A 350 1555 1555 2.42 LINK MG MG A 3 O HOH A 355 1555 1555 1.98 LINK MG MG A 3 O HOH A 381 1555 1555 1.94 LINK O HOH A 9 MG MG A 234 1555 1555 2.23 LINK MG MG A 234 O HOH A 306 1555 1555 2.37 LINK MG MG A 234 O HOH A 320 1555 1555 2.14 LINK MG MG A 234 O HOH A 326 1555 1555 1.96 LINK MG MG A 234 O HOH A 341 1555 1555 2.21 LINK O HOH A 315 MG MG B 4 1555 1555 2.21 LINK O HOH A 373 MG MG B 4 1555 1555 2.07 LINK MG MG B 4 O HOH B 318 1555 1555 2.00 LINK MG MG B 4 O HOH B 336 1555 1555 2.03 LINK MG MG B 4 O HOH B 374 1555 1555 1.95 LINK MG MG B 5 O GLY B 208 1555 1555 2.05 LINK MG MG B 5 O HOH B 255 1555 1555 2.09 LINK MG MG B 5 O HOH B 269 1555 1555 2.10 LINK MG MG B 5 O HOH B 321 1555 1555 2.05 LINK MG MG B 5 O HOH B 343 1555 1555 2.18 LINK MG MG B 6 OD1 ASN B 54 1555 1555 2.53 LINK MG MG B 6 O HOH B 252 1555 1555 2.14 LINK MG MG B 6 O HOH B 268 1555 1555 2.21 LINK MG MG B 6 O HOH B 292 1555 1555 2.15 LINK MG MG B 6 O HOH B 371 1555 1555 1.97 LINK MG MG B 6 O HOH B 397 1555 1555 2.01 SITE 1 AC1 14 HOH A 5 ASN A 54 SER A 55 GLU A 58 SITE 2 AC1 14 ASP A 81 ARG A 84 GLY A 85 ILE A 86 SITE 3 AC1 14 PRO A 87 ARG A 144 HOH A 307 HOH A 339 SITE 4 AC1 14 HOH A 342 HOH A 347 SITE 1 AC2 19 THR A 185 GLU A 186 HOH A 283 HOH A 327 SITE 2 AC2 19 ASN B 54 SER B 55 GLU B 58 ASP B 81 SITE 3 AC2 19 ARG B 84 GLY B 85 ILE B 86 PRO B 87 SITE 4 AC2 19 ARG B 144 THR B 173 ILE B 175 HOH B 242 SITE 5 AC2 19 HOH B 330 HOH B 358 HOH B 360 SITE 1 AC3 5 HOH A 9 HOH A 306 HOH A 320 HOH A 326 SITE 2 AC3 5 HOH A 341 SITE 1 AC4 6 GLY A 208 HIS A 228 HOH A 264 HOH A 344 SITE 2 AC4 6 HOH A 345 HOH A 346 SITE 1 AC5 6 GLU A 50 HOH A 117 HOH A 244 HOH A 350 SITE 2 AC5 6 HOH A 355 HOH A 381 SITE 1 AC6 5 HOH A 315 HOH A 373 HOH B 318 HOH B 336 SITE 2 AC6 5 HOH B 374 SITE 1 AC7 6 GLY B 208 HIS B 228 HOH B 255 HOH B 269 SITE 2 AC7 6 HOH B 321 HOH B 343 SITE 1 AC8 7 ASP B 53 ASN B 54 HOH B 252 HOH B 268 SITE 2 AC8 7 HOH B 292 HOH B 371 HOH B 397 CRYST1 143.175 55.497 51.349 90.00 100.67 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 0.006984 0.000000 0.001316 0.00000 SCALE2 0.000000 0.018019 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019817 0.00000