HEADER HYDROLASE 17-JUN-08 3DHC TITLE 1.3 ANGSTROM STRUCTURE OF N-ACYL HOMOSERINE LACTONE HYDROLASE WITH THE TITLE 2 PRODUCT N-HEXANOYL-L-HOMOCYSTEINE BOUND TO THE CATALYTIC METAL CENTER COMPND MOL_ID: 1; COMPND 2 MOLECULE: N-ACYL HOMOSERINE LACTONE HYDROLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: AIIA-LIKE PROTEIN; COMPND 5 EC: 3.1.1.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS THURINGIENSIS SEROVAR KURSTAKI; SOURCE 3 ORGANISM_TAXID: 29339; SOURCE 4 GENE: AIIA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PMAL; SOURCE 9 OTHER_DETAILS: TEV PROTEASE WAS USED TO CUT OFF THE FUSION PROTEIN SOURCE 10 MBP RESULTING IN 4 EXTRA RESIDUES AT THE N TERMINUS. THE EXTRA SOURCE 11 RESIDUES ARE NOT OBSERVED IN THE STRUCTURE KEYWDS ZINC BIMETALLOHYDROLASE, QOURUM QUENCHING, N-ACYL HOMOCYSTEINE KEYWDS 2 THIOLACTONE, PRODUCT COMPLEX, AHL LACTONASE, GENERAL ACID, CATALYTIC KEYWDS 3 MECHANISM, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR D.LIU,J.MOMB,P.W.THOMAS,A.MOULIN,G.A.PETSKO,W.FAST,D.RINGE REVDAT 5 30-AUG-23 3DHC 1 REMARK SEQADV REVDAT 4 25-OCT-17 3DHC 1 REMARK REVDAT 3 13-JUL-11 3DHC 1 VERSN REVDAT 2 24-FEB-09 3DHC 1 VERSN REVDAT 1 29-JUL-08 3DHC 0 JRNL AUTH D.LIU,J.MOMB,P.W.THOMAS,A.MOULIN,G.A.PETSKO,W.FAST,D.RINGE JRNL TITL MECHANISM OF THE QUORUM-QUENCHING LACTONASE (AIIA) FROM JRNL TITL 2 BACILLUS THURINGIENSIS. 1. PRODUCT-BOUND STRUCTURES. JRNL REF BIOCHEMISTRY V. 47 7706 2008 JRNL REFN ISSN 0006-2960 JRNL PMID 18627129 JRNL DOI 10.1021/BI800368Y REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.MOMB,C.WANG,D.LIU,P.W.THOMAS,G.A.PETSKO,H.GUO,D.RINGE, REMARK 1 AUTH 2 W.FAST REMARK 1 TITL MECHANISM OF THE QUORUM-QUENCHING LACTONASE (AIIA) FROM REMARK 1 TITL 2 BACILLUS THURINGIENSIS: 2. SUBSTRATE MODELING AND ACTIVE REMARK 1 TITL 3 SITE MUTATIONS REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 23.62 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 3 NUMBER OF REFLECTIONS : 53865 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) : 0.145 REMARK 3 R VALUE (WORKING SET) : 0.143 REMARK 3 FREE R VALUE : 0.183 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2869 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) : 1.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.33 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2719 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 65.11 REMARK 3 BIN R VALUE (WORKING SET) : 0.3060 REMARK 3 BIN FREE R VALUE SET COUNT : 123 REMARK 3 BIN FREE R VALUE : 0.3550 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1989 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 53 REMARK 3 SOLVENT ATOMS : 271 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.40 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.40 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.02000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.053 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.052 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.030 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.615 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.976 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2153 ; 0.022 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2914 ; 2.050 ; 2.003 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 254 ; 6.490 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 97 ;30.452 ;25.155 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 385 ;12.242 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 7 ;21.579 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 329 ; 0.267 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1587 ; 0.012 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1099 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1504 ; 0.322 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 258 ; 0.217 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 4 ; 0.054 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 45 ; 0.186 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 23 ; 0.148 ; 0.200 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): 1309 ; 2.465 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2095 ; 3.331 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 941 ; 4.965 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 818 ; 6.622 ; 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 3DHC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1000048039. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-APR-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 23-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97934 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : K-B PAIR BIOMORPH MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 56793 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.4 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 67.5 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : 0.48100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 2A7M REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: GLYCEROL, TRIS-HCL, MGCL2, N-HEXANOYL REMARK 280 -L-HOMOCYSTEINE THIOLACTONE, METHANOL, PH 8.5, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 27.38750 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 39.59550 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.73000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.59550 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.38750 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 27.73000 REMARK 290 SMTRY3 4 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 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 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 -3 REMARK 465 ARG A -2 REMARK 465 ILE A -1 REMARK 465 SER A 0 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 GLU A 43 CD OE1 OE2 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 OE1 GLU A 44 O HOH A 371 2.13 REMARK 500 O HOH A 510 O HOH A 518 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 129 CD GLU A 129 OE2 0.095 REMARK 500 CYS A 243 CB CYS A 243 SG -0.115 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 CYS A 37 CA - CB - SG ANGL. DEV. = 9.1 DEGREES REMARK 500 ARG A 82 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ILE A 237 CG1 - CB - CG2 ANGL. DEV. = 16.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 50 162.27 69.24 REMARK 500 HIS A 133 -21.21 -147.95 REMARK 500 ILE A 142 45.45 -144.62 REMARK 500 ILE A 190 -137.14 52.99 REMARK 500 HIS A 235 67.33 -150.10 REMARK 500 PHE A 246 131.40 -39.08 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 ZN A 251 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 104 NE2 REMARK 620 2 HIS A 106 ND1 92.0 REMARK 620 3 HIS A 169 NE2 108.5 97.8 REMARK 620 4 CYK A 253 O1 149.0 90.9 101.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 252 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 109 NE2 REMARK 620 2 ASP A 191 OD2 100.2 REMARK 620 3 HIS A 235 NE2 118.0 123.6 REMARK 620 4 CYK A 253 O2 103.9 88.8 117.2 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 ZN A 251 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 252 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CYK A 253 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 254 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 255 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 256 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 257 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 258 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 259 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2A7M RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITHOUT THE PRODUCT BOUND. REMARK 900 RELATED ID: 2R2D RELATED DB: PDB REMARK 900 A HOMOLOG FROM AGROBACTERIUM TUMEFACIENS. REMARK 900 RELATED ID: 3DHA RELATED DB: PDB REMARK 900 N-ACYL HOMOSERINE LACTONE HYDROLASE WITH N-HEXANOYL-L-HOMOSERINE REMARK 900 RELATED ID: 3DHB RELATED DB: PDB REMARK 900 N-ACYL HOMOSERINE LACTONE HYDROLASE WITH N-HEXANOYL-L-HOMOSERINE DBREF 3DHC A 1 250 UNP Q7B8B9 Q7B8B9_BACTK 1 250 SEQADV 3DHC GLY A -3 UNP Q7B8B9 EXPRESSION TAG SEQADV 3DHC ARG A -2 UNP Q7B8B9 EXPRESSION TAG SEQADV 3DHC ILE A -1 UNP Q7B8B9 EXPRESSION TAG SEQADV 3DHC SER A 0 UNP Q7B8B9 EXPRESSION TAG SEQRES 1 A 254 GLY ARG ILE SER MET THR VAL LYS LYS LEU TYR PHE ILE SEQRES 2 A 254 PRO ALA GLY ARG CYS MET LEU ASP HIS SER SER VAL ASN SEQRES 3 A 254 SER ALA LEU THR PRO GLY LYS LEU LEU ASN LEU PRO VAL SEQRES 4 A 254 TRP CYS TYR LEU LEU GLU THR GLU GLU GLY PRO ILE LEU SEQRES 5 A 254 VAL ASP THR GLY MET PRO GLU SER ALA VAL ASN ASN GLU SEQRES 6 A 254 GLY LEU PHE ASN GLY THR PHE VAL GLU GLY GLN ILE LEU SEQRES 7 A 254 PRO LYS MET THR GLU GLU ASP ARG ILE VAL ASN ILE LEU SEQRES 8 A 254 LYS ARG VAL GLY TYR GLU PRO ASP ASP LEU LEU TYR ILE SEQRES 9 A 254 ILE SER SER HIS LEU HIS PHE ASP HIS ALA GLY GLY ASN SEQRES 10 A 254 GLY ALA PHE THR ASN THR PRO ILE ILE VAL GLN ARG THR SEQRES 11 A 254 GLU TYR GLU ALA ALA LEU HIS ARG GLU GLU TYR MET LYS SEQRES 12 A 254 GLU CYS ILE LEU PRO HIS LEU ASN TYR LYS ILE ILE GLU SEQRES 13 A 254 GLY ASP TYR GLU VAL VAL PRO GLY VAL GLN LEU LEU TYR SEQRES 14 A 254 THR PRO GLY HIS SER PRO GLY HIS GLN SER LEU PHE ILE SEQRES 15 A 254 GLU THR GLU GLN SER GLY SER VAL LEU LEU THR ILE ASP SEQRES 16 A 254 ALA SER TYR THR LYS GLU ASN PHE GLU ASP GLU VAL PRO SEQRES 17 A 254 PHE ALA GLY PHE ASP PRO GLU LEU ALA LEU SER SER ILE SEQRES 18 A 254 LYS ARG LEU LYS GLU VAL VAL LYS LYS GLU LYS PRO ILE SEQRES 19 A 254 ILE PHE PHE GLY HIS ASP ILE GLU GLN GLU LYS SER CYS SEQRES 20 A 254 ARG VAL PHE PRO GLU TYR ILE HET ZN A 251 1 HET ZN A 252 1 HET CYK A 253 15 HET GOL A 254 6 HET GOL A 255 6 HET GOL A 256 6 HET GOL A 257 6 HET GOL A 258 6 HET GOL A 259 6 HETNAM ZN ZINC ION HETNAM CYK N-HEXANOYL-L-HOMOCYSTEINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ZN 2(ZN 2+) FORMUL 4 CYK C10 H19 N O3 S FORMUL 5 GOL 6(C3 H8 O3) FORMUL 11 HOH *271(H2 O) HELIX 1 1 SER A 19 VAL A 21 5 3 HELIX 2 2 PRO A 54 VAL A 58 5 5 HELIX 3 3 THR A 78 ASP A 81 5 4 HELIX 4 4 ARG A 82 GLY A 91 1 10 HELIX 5 5 GLU A 93 LEU A 97 5 5 HELIX 6 6 HIS A 106 GLY A 111 1 6 HELIX 7 7 GLY A 112 PHE A 116 5 5 HELIX 8 8 ARG A 125 LEU A 132 1 8 HELIX 9 9 MET A 138 ILE A 142 5 5 HELIX 10 10 ASP A 191 SER A 193 5 3 HELIX 11 11 THR A 195 ASP A 201 1 7 HELIX 12 12 ASP A 209 LYS A 228 1 20 HELIX 13 13 ASP A 236 LYS A 241 1 6 SHEET 1 A 7 ILE A 73 LYS A 76 0 SHEET 2 A 7 LYS A 5 ASP A 17 -1 N MET A 15 O LEU A 74 SHEET 3 A 7 LEU A 30 THR A 42 -1 O LEU A 39 N TYR A 7 SHEET 4 A 7 GLY A 45 VAL A 49 -1 O VAL A 49 N TYR A 38 SHEET 5 A 7 TYR A 99 ILE A 101 1 O ILE A 101 N LEU A 48 SHEET 6 A 7 ILE A 121 GLN A 124 1 O ILE A 122 N ILE A 100 SHEET 7 A 7 TYR A 148 ILE A 151 1 O LYS A 149 N ILE A 121 SHEET 1 B 5 TYR A 155 VAL A 158 0 SHEET 2 B 5 VAL A 161 TYR A 165 -1 O LEU A 163 N TYR A 155 SHEET 3 B 5 GLN A 174 THR A 180 -1 O PHE A 177 N GLN A 162 SHEET 4 B 5 GLY A 184 ILE A 190 -1 O VAL A 186 N ILE A 178 SHEET 5 B 5 ILE A 230 PHE A 233 1 O PHE A 232 N LEU A 187 LINK NE2 HIS A 104 ZN ZN A 251 1555 1555 2.12 LINK ND1 HIS A 106 ZN ZN A 251 1555 1555 2.17 LINK NE2 HIS A 109 ZN ZN A 252 1555 1555 2.06 LINK NE2 HIS A 169 ZN ZN A 251 1555 1555 2.03 LINK OD2 ASP A 191 ZN ZN A 252 1555 1555 1.99 LINK NE2 HIS A 235 ZN ZN A 252 1555 1555 2.06 LINK ZN ZN A 251 O1 CYK A 253 1555 1555 1.94 LINK ZN ZN A 252 O2 CYK A 253 1555 1555 1.96 CISPEP 1 PHE A 246 PRO A 247 0 10.90 SITE 1 AC1 6 HIS A 104 HIS A 106 HIS A 169 ASP A 191 SITE 2 AC1 6 ZN A 252 CYK A 253 SITE 1 AC2 6 ASP A 108 HIS A 109 ASP A 191 HIS A 235 SITE 2 AC2 6 ZN A 251 CYK A 253 SITE 1 AC3 13 LEU A 16 HIS A 106 PHE A 107 ASP A 108 SITE 2 AC3 13 HIS A 109 HIS A 169 ASP A 191 TYR A 194 SITE 3 AC3 13 HIS A 235 ZN A 251 ZN A 252 HOH A 442 SITE 4 AC3 13 HOH A 501 SITE 1 AC4 7 ASN A 59 ASN A 60 GLU A 61 LYS A 76 SITE 2 AC4 7 MET A 77 HOH A 278 HOH A 360 SITE 1 AC5 6 LYS A 29 LEU A 30 ARG A 89 PHE A 246 SITE 2 AC5 6 HOH A 310 HOH A 332 SITE 1 AC6 4 GLU A 61 GLY A 62 ASN A 65 PRO A 247 SITE 1 AC7 9 MET A 53 GLU A 55 GLY A 111 ALA A 115 SITE 2 AC7 9 GLU A 152 HOH A 267 HOH A 293 HOH A 329 SITE 3 AC7 9 HOH A 471 SITE 1 AC8 7 HIS A 133 ARG A 134 PRO A 171 SER A 242 SITE 2 AC8 7 HOH A 306 HOH A 455 HOH A 520 SITE 1 AC9 6 PRO A 94 ALA A 115 GLU A 152 HOH A 290 SITE 2 AC9 6 HOH A 295 HOH A 408 CRYST1 54.775 55.460 79.191 90.00 90.00 90.00 P 21 21 21 4 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 0.018257 0.000000 0.000000 0.00000 SCALE2 0.000000 0.018031 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012628 0.00000