HEADER HYDROLASE 17-JUN-08 3DHA TITLE AN ULTRAL HIGH RESOLUTION STRUCTURE OF N-ACYL HOMOSERINE LACTONE TITLE 2 HYDROLASE WITH THE PRODUCT N-HEXANOYL-L-HOMOSERINE BOUND AT AN TITLE 3 ALTERNATIVE SITE 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: THE FUSION PROTEIN, MALTOSE BINDING PROTEIN, WAS CUT SOURCE 10 OFF BEFORE CRYSTALLIZATION USING TEV PROTEASE RESULTING IN 4 EXTRA SOURCE 11 RESIDUES AT THE N TERMINUS. KEYWDS ZINC BIMETALLOHYDROLASE, QUORUM QUENCHING, N-ACYL HOMOSERINE LACTONE, KEYWDS 2 ALTERNATIVE BINDING SITE, PRODUCT COMPLEX, AHL LACTONASE, 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 3DHA 1 REMARK SEQADV REVDAT 4 25-OCT-17 3DHA 1 REMARK REVDAT 3 13-JUL-11 3DHA 1 VERSN REVDAT 2 24-FEB-09 3DHA 1 VERSN REVDAT 1 29-JUL-08 3DHA 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 THURINGENSIS: 2. SUBSTRATE MODELING AND ACTIVE SITE REMARK 1 TITL 3 MUTATIONS REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 2 REMARK 2 RESOLUTION. 0.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 0.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.9 REMARK 3 CROSS-VALIDATION METHOD : FREE R REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.133 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.133 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.169 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 7051 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 150193 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.123 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 83319 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2018 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 41 REMARK 3 SOLVENT ATOMS : 255 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 2406.5 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 1951.0 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 18 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 22638 REMARK 3 NUMBER OF RESTRAINTS : 28771 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.018 REMARK 3 ANGLE DISTANCES (A) : 0.036 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.000 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.031 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.098 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.110 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.058 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.007 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.064 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.110 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH AND HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: ANISOTROPIC REFINEMENT REDUCED FREE R REMARK 3 (NO CUTOFF) BY 0.0565 REMARK 4 REMARK 4 3DHA 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_1000048037. 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) : 0.9184 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : K-B PAIR OF 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 : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 141032 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.950 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 (%) : 93.9 REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.09100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 0.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 0.98 REMARK 200 COMPLETENESS FOR SHELL (%) : 61.9 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : 0.37100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: SHELX REMARK 200 STARTING MODEL: PDB ENTRY 2A7M REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 41.33 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.10 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: GLYCEROL, TRIS-HCL, PEG4000, MGCL2, N REMARK 280 -HEXANOYL-L-HOMOSERINE LACTONE, PH 8.5, VAPOR DIFFUSION, HANGING REMARK 280 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 27.46450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 39.35150 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 27.80200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.35150 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.46450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 27.80200 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 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 GLU A 45 OE1 - CD - OE2 ANGL. DEV. = 8.3 DEGREES REMARK 500 GLU A 45 OE1 - CD - OE2 ANGL. DEV. = 9.9 DEGREES REMARK 500 GLU A 48 OE1 - CD - OE2 ANGL. DEV. = 12.3 DEGREES REMARK 500 GLU A 59 CA - CB - CG ANGL. DEV. = 13.5 DEGREES REMARK 500 GLU A 59 CB - CG - CD ANGL. DEV. = 16.4 DEGREES REMARK 500 GLU A 59 OE1 - CD - OE2 ANGL. DEV. = 7.9 DEGREES REMARK 500 GLU A 65 OE1 - CD - OE2 ANGL. DEV. = 14.4 DEGREES REMARK 500 PHE A 72 O - C - N ANGL. DEV. = -9.6 DEGREES REMARK 500 VAL A 73 N - CA - CB ANGL. DEV. = -14.6 DEGREES REMARK 500 VAL A 73 CG1 - CB - CG2 ANGL. DEV. = 11.9 DEGREES REMARK 500 ARG A 86 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG A 93 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ASP A 99 CB - CG - OD1 ANGL. DEV. = 8.3 DEGREES REMARK 500 ASP A 99 CB - CG - OD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 TYR A 103 CB - CG - CD1 ANGL. DEV. = -3.7 DEGREES REMARK 500 GLU A 133 OE1 - CD - OE2 ANGL. DEV. = -8.0 DEGREES REMARK 500 ARG A 138 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG A 138 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 HIS A 149 ND1 - CE1 - NE2 ANGL. DEV. = -6.7 DEGREES REMARK 500 GLN A 166 OE1 - CD - NE2 ANGL. DEV. = 25.9 DEGREES REMARK 500 GLN A 166 CG - CD - OE1 ANGL. DEV. = -15.3 DEGREES REMARK 500 PHE A 181 CB - CG - CD2 ANGL. DEV. = 5.3 DEGREES REMARK 500 TYR A 198 CB - CG - CD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 PHE A 212 CB - CG - CD2 ANGL. DEV. = 5.1 DEGREES REMARK 500 PHE A 212 CG - CD2 - CE2 ANGL. DEV. = 7.4 DEGREES REMARK 500 ARG A 223 CD - NE - CZ ANGL. DEV. = 13.8 DEGREES REMARK 500 ILE A 234 CB - CA - C ANGL. DEV. = -12.3 DEGREES REMARK 500 ARG A 248 CD - NE - CZ ANGL. DEV. = 25.1 DEGREES REMARK 500 ARG A 248 NE - CZ - NH2 ANGL. DEV. = 5.1 DEGREES REMARK 500 TYR A 253 CB - CG - CD2 ANGL. DEV. = 4.8 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 54 160.16 69.68 REMARK 500 ILE A 146 43.67 -143.38 REMARK 500 ILE A 194 -135.99 54.10 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 256 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 108 NE2 REMARK 620 2 HIS A 110 ND1 93.9 REMARK 620 3 HIS A 173 NE2 105.9 95.8 REMARK 620 4 HOH A 307 O 119.4 108.0 126.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 255 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 112 OD1 REMARK 620 2 HIS A 113 NE2 85.4 REMARK 620 3 ASP A 195 OD2 167.6 95.1 REMARK 620 4 HIS A 239 NE2 86.9 118.9 103.6 REMARK 620 5 HOH A 307 O 87.3 105.8 80.6 134.2 REMARK 620 N 1 2 3 4 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 255 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 256 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE C6L A 257 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 258 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 259 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 260 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 261 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2A7M RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITHOUT THE PRODUCT BOUND TO THE ACTIVE SITE. REMARK 900 RELATED ID: 2R2D RELATED DB: PDB REMARK 900 A HOMOLOG FROM AGROBACTERIUM TUMEFACIENS REMARK 900 RELATED ID: 3DHB RELATED DB: PDB REMARK 900 N-ACYL HOMOSERINE LACTONE HYDROLASE WITH N-HEXANOYL-L-HOMOSERINE REMARK 900 RELATED ID: 3DHC RELATED DB: PDB REMARK 900 N-ACYL HOMOSERINE LACTONE HYDROLASE WITH N-HEXANOYL-L-HOMOCYSTEINE DBREF 3DHA A 5 254 UNP Q7B8B9 Q7B8B9_BACTK 1 250 SEQADV 3DHA GLY A 1 UNP Q7B8B9 EXPRESSION TAG SEQADV 3DHA ARG A 2 UNP Q7B8B9 EXPRESSION TAG SEQADV 3DHA ILE A 3 UNP Q7B8B9 EXPRESSION TAG SEQADV 3DHA SER A 4 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 255 1 HET ZN A 256 1 HET C6L A 257 15 HET GOL A 258 6 HET GOL A 259 12 HET GOL A 260 12 HET GOL A 261 6 HETNAM ZN ZINC ION HETNAM C6L N-HEXANOYL-L-HOMOSERINE HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ZN 2(ZN 2+) FORMUL 4 C6L C10 H19 N O4 FORMUL 5 GOL 4(C3 H8 O3) FORMUL 9 HOH *255(H2 O) HELIX 1 1 SER A 23 VAL A 25 5 3 HELIX 2 2 PRO A 58 VAL A 62 5 5 HELIX 3 3 THR A 82 ASP A 85 5 4 HELIX 4 4 ARG A 86 GLY A 95 1 10 HELIX 5 5 GLU A 97 LEU A 101 5 5 HELIX 6 6 HIS A 110 GLY A 115 1 6 HELIX 7 7 GLY A 116 PHE A 120 5 5 HELIX 8 8 ARG A 129 ARG A 138 1 10 HELIX 9 9 MET A 142 ILE A 146 5 5 HELIX 10 10 ASP A 195 SER A 197 5 3 HELIX 11 11 THR A 199 ASP A 205 1 7 HELIX 12 12 ASP A 213 LYS A 232 1 20 HELIX 13 13 ASP A 240 LYS A 245 1 6 SHEET 1 A 7 ILE A 77 LYS A 80 0 SHEET 2 A 7 LYS A 9 ASP A 21 -1 N ARG A 17 O LYS A 80 SHEET 3 A 7 LEU A 34 THR A 46 -1 O LEU A 43 N TYR A 11 SHEET 4 A 7 GLY A 49 VAL A 53 -1 O VAL A 53 N TYR A 42 SHEET 5 A 7 TYR A 103 ILE A 105 1 O ILE A 105 N LEU A 52 SHEET 6 A 7 ILE A 125 GLN A 128 1 O ILE A 126 N ILE A 104 SHEET 7 A 7 TYR A 152 ILE A 155 1 O LYS A 153 N ILE A 125 SHEET 1 B 5 TYR A 159 VAL A 162 0 SHEET 2 B 5 VAL A 165 TYR A 169 -1 O LEU A 167 N TYR A 159 SHEET 3 B 5 GLN A 178 THR A 184 -1 O SER A 179 N LEU A 168 SHEET 4 B 5 GLY A 188 ILE A 194 -1 O VAL A 190 N ILE A 182 SHEET 5 B 5 ILE A 234 PHE A 237 1 O ILE A 234 N LEU A 191 LINK NE2 HIS A 108 ZN ZN A 256 1555 1555 2.03 LINK ND1 HIS A 110 ZN ZN A 256 1555 1555 2.13 LINK OD1 ASP A 112 ZN ZN A 255 1555 1555 2.34 LINK NE2 HIS A 113 ZN ZN A 255 1555 1555 2.02 LINK NE2 HIS A 173 ZN ZN A 256 1555 1555 1.99 LINK OD2 ASP A 195 ZN ZN A 255 1555 1555 2.06 LINK NE2 HIS A 239 ZN ZN A 255 1555 1555 2.00 LINK ZN ZN A 255 O HOH A 307 1555 1555 2.02 LINK ZN ZN A 256 O HOH A 307 1555 1555 1.94 CISPEP 1 PHE A 250 PRO A 251 0 7.38 SITE 1 AC1 5 ASP A 112 HIS A 113 ASP A 195 HIS A 239 SITE 2 AC1 5 HOH A 307 SITE 1 AC2 5 HIS A 108 HIS A 110 HIS A 173 ASP A 195 SITE 2 AC2 5 HOH A 307 SITE 1 AC3 13 SER A 24 PHE A 72 GLN A 76 ILE A 77 SITE 2 AC3 13 HIS A 110 PHE A 111 GLU A 140 TYR A 198 SITE 3 AC3 13 HOH A 290 HOH A 300 HOH A 326 HOH A 447 SITE 4 AC3 13 HOH A 466 SITE 1 AC4 5 LEU A 34 ARG A 93 PHE A 250 HOH A 344 SITE 2 AC4 5 HOH A 394 SITE 1 AC5 9 PRO A 98 ALA A 119 THR A 130 GLY A 157 SITE 2 AC5 9 TYR A 169 HOH A 264 HOH A 306 HOH A 389 SITE 3 AC5 9 HOH A 513 SITE 1 AC6 11 MET A 57 GLU A 59 ILE A 87 GLY A 115 SITE 2 AC6 11 ALA A 119 GLU A 156 HOH A 270 HOH A 316 SITE 3 AC6 11 HOH A 348 HOH A 357 HOH A 433 SITE 1 AC7 8 HIS A 149 LEU A 150 ASN A 151 LYS A 230 SITE 2 AC7 8 HOH A 304 HOH A 327 HOH A 342 HOH A 482 CRYST1 54.929 55.604 78.703 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 0.018205 0.000000 0.000000 0.00000 SCALE2 0.000000 0.017984 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012706 0.00000