HEADER HYDROLASE 16-NOV-09 2WYC TITLE THE QUORUM QUENCHING N-ACYL HOMOSERINE LACTONE ACYLASE PVDQ TITLE 2 IN COMPLEX WITH 3-OXO-LAURIC ACID COMPND MOL_ID: 1; COMPND 2 MOLECULE: ACYL-HOMOSERINE LACTONE ACYLASE PVDQ SUBUNIT COMPND 3 ALPHA; COMPND 4 CHAIN: A; COMPND 5 SYNONYM: ACYL-HSL ACYLASE PVDQ SUBUNIT ALPHA; COMPND 6 EC: 3.5.1.97; COMPND 7 ENGINEERED: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: ACYL-HOMOSERINE LACTONE ACYLASE PVDQ SUBUNIT COMPND 10 BETA; COMPND 11 CHAIN: B; COMPND 12 SYNONYM: ACYL-HSL ACYLASE PVDQ SUBUNIT BETA; COMPND 13 EC: 3.5.1.97; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 208964; SOURCE 4 STRAIN: PAO1; SOURCE 5 ATCC: 15692; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 316385; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: K-12 SUBSTR. DH10B; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PMCTNDE; SOURCE 10 OTHER_DETAILS: HOLLOWAY COLLECTION; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 13 ORGANISM_TAXID: 208964; SOURCE 14 STRAIN: PAO1; SOURCE 15 ATCC: 15692; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 316385; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: K-12 SUBSTR. DH10B; SOURCE 19 EXPRESSION_SYSTEM_PLASMID: PMCTNDE; SOURCE 20 OTHER_DETAILS: HOLLOWAY COLLECTION KEYWDS ZYMOGEN, HYDROLASE, PERIPLASM EXPDTA X-RAY DIFFRACTION AUTHOR M.BOKHOVE,P.NADAL JIMENEZ,W.J.QUAX,B.W.DIJKSTRA REVDAT 2 26-JAN-10 2WYC 1 JRNL REVDAT 1 29-DEC-09 2WYC 0 JRNL AUTH M.BOKHOVE,P.NADAL JIMENEZ,W.J.QUAX,B.W.DIJKSTRA JRNL TITL THE QUORUM-QUENCHING N-ACYL HOMOSERINE LACTONE JRNL TITL 2 ACYLASE PVDQ IS AN NTN-HYDROLASE WITH AN UNUSUAL JRNL TITL 3 SUBSTRATE-BINDING POCKET JRNL REF PROC.NATL.ACAD.SCI.USA V. 107 686 2010 JRNL REFN ISSN 0027-8424 JRNL PMID 20080736 JRNL DOI 10.1073/PNAS.0911839107 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0096 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NONE REMARK 3 COMPLETENESS FOR RANGE (%) : 99.69 REMARK 3 NUMBER OF REFLECTIONS : 70962 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) : 0.16426 REMARK 3 R VALUE (WORKING SET) : 0.16294 REMARK 3 FREE R VALUE : 0.18985 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.0 REMARK 3 FREE R VALUE TEST SET COUNT : 3759 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) : 1.900 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.949 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5186 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.89 REMARK 3 BIN R VALUE (WORKING SET) : 0.201 REMARK 3 BIN FREE R VALUE SET COUNT : 272 REMARK 3 BIN FREE R VALUE : 0.237 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5625 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 73 REMARK 3 SOLVENT ATOMS : 396 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.5 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.404 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.18 REMARK 3 B22 (A**2) : 0.42 REMARK 3 B33 (A**2) : -0.60 REMARK 3 B12 (A**2) : 0.00 REMARK 3 B13 (A**2) : 0.00 REMARK 3 B23 (A**2) : 0.00 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.114 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.108 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.069 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 5.105 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.950 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5832 ; 0.009 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7930 ; 1.121 ; 1.964 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 732 ; 5.519 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 284 ;37.034 ;23.275 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 911 ;12.288 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 60 ;14.920 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 837 ; 0.079 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4591 ; 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): 3610 ; 0.462 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5781 ; 0.875 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2222 ; 1.627 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2149 ; 2.803 ; 4.500 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 : 3 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 : B 323 B 480 REMARK 3 ORIGIN FOR THE GROUP (A): 32.6840 68.4110 31.3680 REMARK 3 T TENSOR REMARK 3 T11: 0.3208 T22: 0.1304 REMARK 3 T33: 0.1296 T12: 0.0382 REMARK 3 T13: 0.0456 T23: -0.0060 REMARK 3 L TENSOR REMARK 3 L11: 1.3298 L22: 2.1259 REMARK 3 L33: 3.1296 L12: 0.9718 REMARK 3 L13: -1.4777 L23: -1.1271 REMARK 3 S TENSOR REMARK 3 S11: -0.0124 S12: 0.3071 S13: 0.0162 REMARK 3 S21: -0.4387 S22: 0.1158 S23: -0.1698 REMARK 3 S31: -0.2217 S32: -0.1056 S33: -0.1035 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 4 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 51 A 95 REMARK 3 RESIDUE RANGE : A 129 A 168 REMARK 3 RESIDUE RANGE : B 75 B 155 REMARK 3 RESIDUE RANGE : B 206 B 250 REMARK 3 ORIGIN FOR THE GROUP (A): 44.7920 35.0700 47.0630 REMARK 3 T TENSOR REMARK 3 T11: 0.0145 T22: 0.0222 REMARK 3 T33: 0.0467 T12: 0.0076 REMARK 3 T13: -0.0020 T23: 0.0077 REMARK 3 L TENSOR REMARK 3 L11: 2.5481 L22: 0.4813 REMARK 3 L33: 0.9981 L12: -0.0992 REMARK 3 L13: -0.6149 L23: -0.0117 REMARK 3 S TENSOR REMARK 3 S11: -0.0364 S12: 0.0272 S13: -0.1322 REMARK 3 S21: -0.0310 S22: 0.0101 S23: -0.0682 REMARK 3 S31: 0.0751 S32: 0.0937 S33: 0.0264 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 6 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 6 A 50 REMARK 3 RESIDUE RANGE : A 96 A 128 REMARK 3 RESIDUE RANGE : B 1 B 74 REMARK 3 RESIDUE RANGE : B 156 B 205 REMARK 3 RESIDUE RANGE : B 251 B 322 REMARK 3 RESIDUE RANGE : B 481 B 546 REMARK 3 ORIGIN FOR THE GROUP (A): 29.9860 56.7190 60.7880 REMARK 3 T TENSOR REMARK 3 T11: 0.0533 T22: 0.0185 REMARK 3 T33: 0.0147 T12: 0.0118 REMARK 3 T13: 0.0027 T23: -0.0100 REMARK 3 L TENSOR REMARK 3 L11: 1.0589 L22: 0.9075 REMARK 3 L33: 1.0741 L12: 0.0828 REMARK 3 L13: -0.1171 L23: 0.0645 REMARK 3 S TENSOR REMARK 3 S11: 0.0064 S12: -0.0861 S13: 0.1165 REMARK 3 S21: 0.0386 S22: 0.0258 S23: -0.0292 REMARK 3 S31: -0.2309 S32: -0.0330 S33: -0.0322 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 REMARK 3 RIDING POSITIONS. REMARK 3 ATOM RECORD CONTAINS SUM OF TLS AND RESIDUAL B FACTORS REMARK 4 REMARK 4 2WYC COMPLIES WITH FORMAT V. 3.20, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-NOV-09. REMARK 100 THE PDBE ID CODE IS EBI-41732. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUN-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID29 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 75009 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.80 REMARK 200 RESOLUTION RANGE LOW (A) : 48.90 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.0 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 3.69 REMARK 200 R MERGE (I) : 0.06 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.53 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.72 REMARK 200 R MERGE FOR SHELL (I) : 0.36 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.16 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: NULL REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.3 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 24% PEG 6000, 100 MM BICINE PH REMARK 280 9.1 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 47.15000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 47.15000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 60.40000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 83.25000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 60.40000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 83.25000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 47.15000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 60.40000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 83.25000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 47.15000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 60.40000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 83.25000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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 GENERATING THE BIOMOLECULE REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10220 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 27730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.02 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 ASP A 1 REMARK 465 MET A 2 REMARK 465 PRO A 3 REMARK 465 ARG A 4 REMARK 465 PRO A 5 REMARK 465 VAL A 170 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 A 169 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASN A 42 27.79 -145.44 REMARK 500 ASN A 84 43.20 -104.75 REMARK 500 ARG B 42 -11.23 -145.20 REMARK 500 PRO B 54 43.85 -87.75 REMARK 500 LYS B 137 -57.16 -131.02 REMARK 500 ASN B 141 -154.71 -112.71 REMARK 500 TRP B 186 27.94 -154.53 REMARK 500 ASN B 202 54.94 -93.67 REMARK 500 ASP B 263 -77.57 -96.84 REMARK 500 ILE B 430 116.02 -32.70 REMARK 500 SER B 480 -94.59 -139.70 REMARK 500 SER B 501 163.73 77.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B1547 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1170 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B1548 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B1549 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1171 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1172 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1173 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1174 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1175 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DMS B1550 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 3LA B1551 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2WYB RELATED DB: PDB REMARK 900 THE QUORUM QUENCHING N-ACYL HOMOSERINE REMARK 900 LACTONE ACYLASE PVDQ WITH A COVALENTLY BOUND REMARK 900 DODECANOIC ACID REMARK 900 RELATED ID: 2WYE RELATED DB: PDB REMARK 900 THE QUORUM QUENCHING N-ACYL HOMOSERINE REMARK 900 LACTONE ACYLASE PVDQ IS AN NTN-HYDROLASE REMARK 900 WITH AN UNUSUAL SUBSTRATE-BINDING POCKET REMARK 900 RELATED ID: 2WYD RELATED DB: PDB REMARK 900 THE QUORUM QUENCHING N-ACYL HOMOSERINE REMARK 900 LACTONE ACYLASE PVDQ IN COMPLEX WITH REMARK 900 DODECANOIC ACID DBREF 2WYC A 1 170 UNP Q9I194 PVDQ_PSEAE 24 193 DBREF 2WYC B 1 546 UNP Q9I194 PVDQ_PSEAE 217 762 SEQRES 1 A 170 ASP MET PRO ARG PRO THR GLY LEU ALA ALA ASP ILE ARG SEQRES 2 A 170 TRP THR ALA TYR GLY VAL PRO HIS ILE ARG ALA LYS ASP SEQRES 3 A 170 GLU ARG GLY LEU GLY TYR GLY ILE GLY TYR ALA TYR ALA SEQRES 4 A 170 ARG ASP ASN ALA CYS LEU LEU ALA GLU GLU ILE VAL THR SEQRES 5 A 170 ALA ARG GLY GLU ARG ALA ARG TYR PHE GLY SER GLU GLY SEQRES 6 A 170 LYS SER SER ALA GLU LEU ASP ASN LEU PRO SER ASP ILE SEQRES 7 A 170 PHE TYR ALA TRP LEU ASN GLN PRO GLU ALA LEU GLN ALA SEQRES 8 A 170 PHE TRP GLN ALA GLN THR PRO ALA VAL ARG GLN LEU LEU SEQRES 9 A 170 GLU GLY TYR ALA ALA GLY PHE ASN ARG PHE LEU ARG GLU SEQRES 10 A 170 ALA ASP GLY LYS THR THR SER CYS LEU GLY GLN PRO TRP SEQRES 11 A 170 LEU ARG ALA ILE ALA THR ASP ASP LEU LEU ARG LEU THR SEQRES 12 A 170 ARG ARG LEU LEU VAL GLU GLY GLY VAL GLY GLN PHE ALA SEQRES 13 A 170 ASP ALA LEU VAL ALA ALA ALA PRO PRO GLY ALA GLU LYS SEQRES 14 A 170 VAL SEQRES 1 B 546 SER ASN ALA ILE ALA VAL GLY SER GLU ARG SER ALA ASP SEQRES 2 B 546 GLY LYS GLY MET LEU LEU ALA ASN PRO HIS PHE PRO TRP SEQRES 3 B 546 ASN GLY ALA MET ARG PHE TYR GLN MET HIS LEU THR ILE SEQRES 4 B 546 PRO GLY ARG LEU ASP VAL MET GLY ALA SER LEU PRO GLY SEQRES 5 B 546 LEU PRO VAL VAL ASN ILE GLY PHE SER ARG HIS LEU ALA SEQRES 6 B 546 TRP THR HIS THR VAL ASP THR SER SER HIS PHE THR LEU SEQRES 7 B 546 TYR ARG LEU ALA LEU ASP PRO LYS ASP PRO ARG ARG TYR SEQRES 8 B 546 LEU VAL ASP GLY ARG SER LEU PRO LEU GLU GLU LYS SER SEQRES 9 B 546 VAL ALA ILE GLU VAL ARG GLY ALA ASP GLY LYS LEU SER SEQRES 10 B 546 ARG VAL GLU HIS LYS VAL TYR GLN SER ILE TYR GLY PRO SEQRES 11 B 546 LEU VAL VAL TRP PRO GLY LYS LEU ASP TRP ASN ARG SER SEQRES 12 B 546 GLU ALA TYR ALA LEU ARG ASP ALA ASN LEU GLU ASN THR SEQRES 13 B 546 ARG VAL LEU GLN GLN TRP TYR SER ILE ASN GLN ALA SER SEQRES 14 B 546 ASP VAL ALA ASP LEU ARG ARG ARG VAL GLU ALA LEU GLN SEQRES 15 B 546 GLY ILE PRO TRP VAL ASN THR LEU ALA ALA ASP GLU GLN SEQRES 16 B 546 GLY ASN ALA LEU TYR MET ASN GLN SER VAL VAL PRO TYR SEQRES 17 B 546 LEU LYS PRO GLU LEU ILE PRO ALA CYS ALA ILE PRO GLN SEQRES 18 B 546 LEU VAL ALA GLU GLY LEU PRO ALA LEU GLN GLY GLN ASP SEQRES 19 B 546 SER ARG CYS ALA TRP SER ARG ASP PRO ALA ALA ALA GLN SEQRES 20 B 546 ALA GLY ILE THR PRO ALA ALA GLN LEU PRO VAL LEU LEU SEQRES 21 B 546 ARG ARG ASP PHE VAL GLN ASN SER ASN ASP SER ALA TRP SEQRES 22 B 546 LEU THR ASN PRO ALA SER PRO LEU GLN GLY PHE SER PRO SEQRES 23 B 546 LEU VAL SER GLN GLU LYS PRO ILE GLY PRO ARG ALA ARG SEQRES 24 B 546 TYR ALA LEU SER ARG LEU GLN GLY LYS GLN PRO LEU GLU SEQRES 25 B 546 ALA LYS THR LEU GLU GLU MET VAL THR ALA ASN HIS VAL SEQRES 26 B 546 PHE SER ALA ASP GLN VAL LEU PRO ASP LEU LEU ARG LEU SEQRES 27 B 546 CYS ARG ASP ASN GLN GLY GLU LYS SER LEU ALA ARG ALA SEQRES 28 B 546 CYS ALA ALA LEU ALA GLN TRP ASP ARG GLY ALA ASN LEU SEQRES 29 B 546 ASP SER GLY SER GLY PHE VAL TYR PHE GLN ARG PHE MET SEQRES 30 B 546 GLN ARG PHE ALA GLU LEU ASP GLY ALA TRP LYS GLU PRO SEQRES 31 B 546 PHE ASP ALA GLN ARG PRO LEU ASP THR PRO GLN GLY ILE SEQRES 32 B 546 ALA LEU ASP ARG PRO GLN VAL ALA THR GLN VAL ARG GLN SEQRES 33 B 546 ALA LEU ALA ASP ALA ALA ALA GLU VAL GLU LYS SER GLY SEQRES 34 B 546 ILE PRO ASP GLY ALA ARG TRP GLY ASP LEU GLN VAL SER SEQRES 35 B 546 THR ARG GLY GLN GLU ARG ILE ALA ILE PRO GLY GLY ASP SEQRES 36 B 546 GLY HIS PHE GLY VAL TYR ASN ALA ILE GLN SER VAL ARG SEQRES 37 B 546 LYS GLY ASP HIS LEU GLU VAL VAL GLY GLY THR SER TYR SEQRES 38 B 546 ILE GLN LEU VAL THR PHE PRO GLU GLU GLY PRO LYS ALA SEQRES 39 B 546 ARG GLY LEU LEU ALA PHE SER GLN SER SER ASP PRO ARG SEQRES 40 B 546 SER PRO HIS TYR ARG ASP GLN THR GLU LEU PHE SER ARG SEQRES 41 B 546 GLN GLN TRP GLN THR LEU PRO PHE SER ASP ARG GLN ILE SEQRES 42 B 546 ASP ALA ASP PRO GLN LEU GLN ARG LEU SER ILE ARG GLU HET GOL B1547 6 HET GOL A1170 6 HET GOL B1548 6 HET GOL B1549 6 HET GOL A1171 6 HET GOL A1172 6 HET GOL A1173 6 HET GOL A1174 6 HET GOL A1175 6 HET DMS B1550 4 HET 3LA B1551 15 HETNAM 3LA 3-OXODODECANOIC ACID HETNAM GOL GLYCEROL HETNAM DMS DIMETHYL SULFOXIDE HETSYN 3LA 3-OXO-LAURIC ACID FORMUL 3 3LA C12 H22 O3 FORMUL 4 GOL 9(C3 H8 O3) FORMUL 5 DMS C2 H6 O S FORMUL 6 HOH *396(H2 O) HELIX 1 1 ALA A 16 GLY A 18 5 3 HELIX 2 2 ASP A 26 ARG A 54 1 29 HELIX 3 3 GLU A 56 GLY A 62 1 7 HELIX 4 4 ASP A 72 ASN A 84 1 13 HELIX 5 5 GLN A 85 ALA A 95 1 11 HELIX 6 6 THR A 97 ALA A 118 1 22 HELIX 7 7 ALA A 135 VAL A 148 1 14 HELIX 8 8 GLU A 149 GLN A 154 5 6 HELIX 9 9 PHE A 155 ALA A 162 1 8 HELIX 10 10 ASN B 27 ARG B 31 5 5 HELIX 11 11 ASN B 152 ASN B 155 5 4 HELIX 12 12 ARG B 157 GLN B 167 1 11 HELIX 13 13 ASP B 170 GLN B 182 1 13 HELIX 14 14 LYS B 210 GLU B 212 5 3 HELIX 15 15 LEU B 213 ALA B 218 1 6 HELIX 16 16 ILE B 219 ALA B 224 1 6 HELIX 17 17 ASP B 234 ALA B 238 5 5 HELIX 18 18 PRO B 252 LEU B 256 5 5 HELIX 19 19 GLY B 295 GLN B 306 1 12 HELIX 20 20 GLU B 312 ALA B 322 1 11 HELIX 21 21 PHE B 326 ASN B 342 1 17 HELIX 22 22 GLU B 345 TRP B 358 1 14 HELIX 23 23 SER B 368 ALA B 381 1 14 HELIX 24 24 ARG B 407 SER B 428 1 22 HELIX 25 25 ARG B 435 LEU B 439 1 5 HELIX 26 26 ASP B 455 GLY B 459 5 5 HELIX 27 27 ARG B 512 ARG B 520 1 9 HELIX 28 28 SER B 529 ASP B 536 1 8 SHEET 1 BA10 VAL B 258 ARG B 261 0 SHEET 2 BA10 ALA B 198 MET B 201 -1 O ALA B 198 N ARG B 261 SHEET 3 BA10 VAL B 187 ASP B 193 -1 O THR B 189 N MET B 201 SHEET 4 BA10 LEU B 64 VAL B 70 -1 O ALA B 65 N ALA B 192 SHEET 5 BA10 ILE B 58 PHE B 60 -1 O GLY B 59 N TRP B 66 SHEET 6 BA10 LEU B 43 SER B 49 -1 O MET B 46 N PHE B 60 SHEET 7 BA10 TYR B 33 ILE B 39 -1 O TYR B 33 N SER B 49 SHEET 8 BA10 VAL A 19 ARG A 23 1 O PRO A 20 N HIS B 36 SHEET 9 BA10 LEU A 8 THR A 15 -1 O ASP A 11 N ARG A 23 SHEET 10 BA10 GLN B 540 GLU B 546 -1 O GLN B 540 N TRP A 14 SHEET 1 BB 6 PHE B 264 ASN B 267 0 SHEET 2 BB 6 ASN B 2 VAL B 6 -1 O ALA B 3 N ASN B 267 SHEET 3 BB 6 MET B 17 ASN B 21 -1 O MET B 17 N VAL B 6 SHEET 4 BB 6 TYR B 481 THR B 486 -1 O GLN B 483 N ALA B 20 SHEET 5 BB 6 LYS B 493 LEU B 498 -1 O LYS B 493 N THR B 486 SHEET 6 BB 6 GLN B 524 THR B 525 -1 O GLN B 524 N GLY B 496 SHEET 1 BC 2 HIS B 23 PRO B 25 0 SHEET 2 BC 2 HIS B 472 THR B 479 1 O GLY B 478 N PHE B 24 SHEET 1 BD 4 GLU B 447 ALA B 450 0 SHEET 2 BD 4 GLN B 440 ARG B 444 -1 O SER B 442 N ILE B 449 SHEET 3 BD 4 HIS B 472 THR B 479 1 O LEU B 473 N VAL B 441 SHEET 4 BD 4 ILE B 464 LYS B 469 -1 O GLN B 465 N VAL B 476 SHEET 1 BE 4 GLU B 447 ALA B 450 0 SHEET 2 BE 4 GLN B 440 ARG B 444 -1 O SER B 442 N ILE B 449 SHEET 3 BE 4 HIS B 472 THR B 479 1 O LEU B 473 N VAL B 441 SHEET 4 BE 4 HIS B 23 PRO B 25 1 O PHE B 24 N GLY B 478 SHEET 1 BF 2 ILE B 464 LYS B 469 0 SHEET 2 BF 2 HIS B 472 THR B 479 -1 O HIS B 472 N LYS B 469 SHEET 1 BG 4 ARG B 96 PRO B 99 0 SHEET 2 BG 4 ASP B 87 VAL B 93 -1 O TYR B 91 N LEU B 98 SHEET 3 BG 4 PHE B 76 ASP B 84 -1 O ALA B 82 N LEU B 92 SHEET 4 BG 4 ALA B 229 GLN B 231 1 O LEU B 230 N ARG B 80 SHEET 1 BH 7 ARG B 96 PRO B 99 0 SHEET 2 BH 7 ASP B 87 VAL B 93 -1 O TYR B 91 N LEU B 98 SHEET 3 BH 7 PHE B 76 ASP B 84 -1 O ALA B 82 N LEU B 92 SHEET 4 BH 7 GLU B 144 ASP B 150 -1 O ALA B 145 N LEU B 81 SHEET 5 BH 7 GLY B 129 VAL B 132 -1 O PRO B 130 N LEU B 148 SHEET 6 BH 7 LEU B 116 SER B 126 -1 O TYR B 124 N LEU B 131 SHEET 7 BH 7 GLU B 101 ARG B 110 -1 O GLU B 101 N GLN B 125 SHEET 1 BI 2 ALA B 229 GLN B 231 0 SHEET 2 BI 2 PHE B 76 ASP B 84 1 O LEU B 78 N LEU B 230 SHEET 1 BJ 2 TRP B 387 GLU B 389 0 SHEET 2 BJ 2 GLN B 401 ILE B 403 -1 O GLN B 401 N GLU B 389 SSBOND 1 CYS A 44 CYS A 125 1555 1555 2.03 SSBOND 2 CYS B 217 CYS B 237 1555 1555 2.04 SSBOND 3 CYS B 339 CYS B 352 1555 1555 2.04 CISPEP 1 THR B 399 PRO B 400 0 0.64 SITE 1 AC1 5 LEU A 74 PRO B 40 GLU B 120 HIS B 121 SITE 2 AC1 5 HOH B2273 SITE 1 AC2 5 TRP A 82 LEU A 83 ARG A 144 HOH A2118 SITE 2 AC2 5 GLN B 125 SITE 1 AC3 7 LEU B 43 ASP B 44 ASN B 166 GLN B 167 SITE 2 AC3 7 ALA B 168 HOH B2274 HOH B2275 SITE 1 AC4 6 PHE B 380 ALA B 381 LEU B 383 GLY B 385 SITE 2 AC4 6 ALA B 386 TRP B 387 SITE 1 AC5 4 ARG A 54 GLU A 56 HOH A2036 HOH A2119 SITE 1 AC6 6 GLN A 90 TRP A 93 THR A 136 ASP A 137 SITE 2 AC6 6 HOH A2120 LYS B 427 SITE 1 AC7 4 GLU A 149 GLY A 150 GLN A 154 TRP B 186 SITE 1 AC8 6 GLU A 117 ALA A 118 ASP A 119 LYS A 121 SITE 2 AC8 6 HOH A2082 HOH A2121 SITE 1 AC9 5 LYS A 25 GLU A 70 LEU A 71 ASP A 72 SITE 2 AC9 5 ASP A 157 SITE 1 BC1 6 GLN B 357 TRP B 358 ASP B 359 ASP B 365 SITE 2 BC1 6 SER B 366 GLY B 367 SITE 1 BC2 10 THR A 143 LEU A 146 SER B 1 PHE B 24 SITE 2 BC2 10 ILE B 58 HIS B 68 VAL B 70 VAL B 158 SITE 3 BC2 10 TRP B 162 HOH B2001 CRYST1 120.800 166.500 94.300 90.00 90.00 90.00 C 2 2 21 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 0.008278 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006006 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010604 0.00000