HEADER HYDROLASE 03-APR-06 2GKL TITLE CRYSTAL STRUCTURE OF THE ZINC CARBAPENEMASE CPHA IN COMPLEX WITH THE TITLE 2 INHIBITOR PYRIDINE-2,4-DICARBOXYLATE COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.5.2.6; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: AEROMONAS HYDROPHILA; SOURCE 3 ORGANISM_TAXID: 644; SOURCE 4 GENE: CPHA; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PUC20-CPHA KEYWDS HYDROLASE, LACTAMASE, INHIBITOR, ZN EXPDTA X-RAY DIFFRACTION AUTHOR G.GARAU,O.DIDEBERG REVDAT 6 25-OCT-23 2GKL 1 REMARK LINK REVDAT 5 13-JUL-11 2GKL 1 VERSN REVDAT 4 06-OCT-09 2GKL 1 REMARK REVDAT 3 24-FEB-09 2GKL 1 VERSN REVDAT 2 05-JUN-07 2GKL 1 JRNL REVDAT 1 13-MAR-07 2GKL 0 JRNL AUTH L.E.HORSFALL,G.GARAU,B.M.R.LIENARD,O.DIDEBERG,C.J.SCHOFIELD, JRNL AUTH 2 J.M.FRERE,M.GALLENI JRNL TITL COMPETITIVE INHIBITORS OF THE CPHA METALLO-{BETA}-LACTAMASE JRNL TITL 2 FROM AEROMONAS HYDROPHILA JRNL REF ANTIMICROB.AGENTS CHEMOTHER. V. 51 2136 2007 JRNL REFN ISSN 0066-4804 JRNL PMID 17307979 JRNL DOI 10.1128/AAC.00866-06 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH G.GARAU,C.BEBRONE,C.ANNE,M.GALLENI,J.M.FRERE,O.DIDEBERG REMARK 1 TITL A METALLO-BETA-LACTAMASE ENZYME IN ACTION: CRYSTAL REMARK 1 TITL 2 STRUCTURES OF THE MONOZINC CARBAPENEMASE CPHA AND ITS REMARK 1 TITL 3 COMPLEX WITH BIAPENEM REMARK 1 REF J.MOL.BIOL. V. 345 785 2005 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 15588826 REMARK 1 DOI 10.1016/J.JMB.2004.10.070 REMARK 1 REFERENCE 2 REMARK 1 AUTH G.GARAU,I.GARCIA-SAEZ,C.BEBRONE,C.ANNE,P.MERCURI,M.GALLENI, REMARK 1 AUTH 2 J.M.FRERE,O.DIDEBERG REMARK 1 TITL UPDATE OF THE STANDARD NUMBERING SCHEME FOR CLASS B REMARK 1 TITL 2 BETA-LACTAMASES REMARK 1 REF ANTIMICROB.AGENTS CHEMOTHER. V. 48 2347 2004 REMARK 1 REFN ISSN 0066-4804 REMARK 1 PMID 15215079 REMARK 1 DOI 10.1128/AAC.48.7.2347-2349.2004 REMARK 1 REFERENCE 3 REMARK 1 AUTH A.CARFI,S.PARES,E.DUEE,M.GALLENI,C.DUEZ,J.M.FRERE,O.DIDEBERG REMARK 1 TITL THE 3-D STRUCTURE OF A ZINC METALLO-BETA-LACTAMASE FROM REMARK 1 TITL 2 BACILLUS CEREUS REVEALS A NEW TYPE OF PROTEIN FOLD REMARK 1 REF EMBO J. V. 14 4914 1995 REMARK 1 REFN ISSN 0261-4189 REMARK 1 PMID 7588620 REMARK 2 REMARK 2 RESOLUTION. 1.86 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) : 1.86 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 21.90 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 20495 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) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.159 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1102 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) : 1.86 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.91 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1425 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.24 REMARK 3 BIN R VALUE (WORKING SET) : 0.1620 REMARK 3 BIN FREE R VALUE SET COUNT : 77 REMARK 3 BIN FREE R VALUE : 0.1960 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1758 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 190 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 14.15 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.21000 REMARK 3 B22 (A**2) : 0.48000 REMARK 3 B33 (A**2) : -0.27000 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): 0.120 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.116 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.067 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.188 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.953 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.930 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1835 ; 0.013 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1239 ; 0.007 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2476 ; 1.365 ; 1.974 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3021 ; 1.218 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 215 ; 6.180 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 79 ;29.922 ;23.924 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 299 ;14.122 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 9 ;20.365 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 273 ; 0.082 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1967 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 359 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 439 ; 0.359 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1340 ; 0.205 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 888 ; 0.180 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 863 ; 0.088 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 169 ; 0.157 ; 0.200 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): 7 ; 0.104 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 34 ; 0.263 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 28 ; 0.106 ; 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): 1130 ; 0.758 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 451 ; 0.205 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1784 ; 1.181 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 800 ; 2.185 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 692 ; 3.474 ; 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 : 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 RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2GKL COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-APR-06. REMARK 100 THE DEPOSITION ID IS D_1000037234. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-OCT-05 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.50 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 : ENRAF-NONIUS FR591 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54179 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21647 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.860 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : 0.07000 REMARK 200 FOR THE DATA SET : 7.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.86 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.91 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 0.17900 REMARK 200 R SYM FOR SHELL (I) : 0.17900 REMARK 200 FOR SHELL : 4.100 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CCP4 REMARK 200 STARTING MODEL: PDB ENTRY 1X8H REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG, AS, PH 6.50, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 280K 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 58.56050 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 58.56050 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 21.31900 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 50.60550 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 21.31900 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 50.60550 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 58.56050 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 21.31900 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 50.60550 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 58.56050 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 21.31900 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 50.60550 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 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 GLN A 306 REMARK 465 SER A 307 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 PRO A 305 CA C O CB CG CD 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 TYR A 60 C VAL A 67 N 0.150 REMARK 500 LYS A 106 C PRO A 108 N 0.201 REMARK 500 ILE A 131 C GLY A 133 N 0.149 REMARK 500 PHE A 205 C PRO A 209 N 0.148 REMARK 500 GLU A 211 C GLN A 215 N 0.140 REMARK 500 LYS A 226 C LEU A 231 N 0.202 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 TYR A 60 -127.54 56.47 REMARK 500 THR A 86 172.83 71.59 REMARK 500 ALA A 195 -102.72 -152.76 REMARK 500 ASN A 220 -160.75 59.96 REMARK 500 ASP A 264 -157.96 62.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 LYS A 226 -12.55 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 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PD2 A 2 N1 REMARK 620 2 PD2 A 2 O22 75.9 REMARK 620 3 ASP A 120 OD2 90.5 165.9 REMARK 620 4 CYS A 221 SG 153.6 98.5 95.4 REMARK 620 5 HIS A 263 NE2 91.2 86.5 90.0 114.5 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PD2 A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 4 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 5 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1X8I RELATED DB: PDB REMARK 900 THE SAME PROTEIN WITH THE ANTIBIOTIC BIAPENEM REMARK 900 RELATED ID: 1X8H RELATED DB: PDB REMARK 900 THE MONO-ZINC CARBAPENEMASE CPHA (N220G MUTANT) SHOWS A ZN(II)- NH2 REMARK 900 ARG COORDINATION REMARK 900 RELATED ID: 1X8G RELATED DB: PDB REMARK 900 THE MONO-ZINC CARBAPENEMASE REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS COORDINATES USE NON-SEQUENTIAL RESIDUE NUMBERING. REMARK 999 THE NUMBERING RELATES TO PDB ENTRY 1X8H. DBREF 2GKL A 41 307 UNP P26918 BLAB_AERHY 28 254 SEQRES 1 A 227 ALA GLY MET SER LEU THR GLN VAL SER GLY PRO VAL TYR SEQRES 2 A 227 VAL VAL GLU ASP ASN TYR TYR VAL GLN GLU ASN SER MET SEQRES 3 A 227 VAL TYR PHE GLY ALA LYS GLY VAL THR VAL VAL GLY ALA SEQRES 4 A 227 THR TRP THR PRO ASP THR ALA ARG GLU LEU HIS LYS LEU SEQRES 5 A 227 ILE LYS ARG VAL SER ARG LYS PRO VAL LEU GLU VAL ILE SEQRES 6 A 227 ASN THR ASN TYR HIS THR ASP ARG ALA GLY GLY ASN ALA SEQRES 7 A 227 TYR TRP LYS SER ILE GLY ALA LYS VAL VAL SER THR ARG SEQRES 8 A 227 GLN THR ARG ASP LEU MET LYS SER ASP TRP ALA GLU ILE SEQRES 9 A 227 VAL ALA PHE THR ARG LYS GLY LEU PRO GLU TYR PRO ASP SEQRES 10 A 227 LEU PRO LEU VAL LEU PRO ASN VAL VAL HIS ASP GLY ASP SEQRES 11 A 227 PHE THR LEU GLN GLU GLY LYS VAL ARG ALA PHE TYR ALA SEQRES 12 A 227 GLY PRO ALA HIS THR PRO ASP GLY ILE PHE VAL TYR PHE SEQRES 13 A 227 PRO ASP GLU GLN VAL LEU TYR GLY ASN CYS ILE LEU LYS SEQRES 14 A 227 GLU LYS LEU GLY ASN LEU SER PHE ALA ASP VAL LYS ALA SEQRES 15 A 227 TYR PRO GLN THR LEU GLU ARG LEU LYS ALA MET LYS LEU SEQRES 16 A 227 PRO ILE LYS THR VAL ILE GLY GLY HIS ASP SER PRO LEU SEQRES 17 A 227 HIS GLY PRO GLU LEU ILE ASP HIS TYR GLU ALA LEU ILE SEQRES 18 A 227 LYS ALA ALA PRO GLN SER HET ZN A 401 1 HET PD2 A 2 12 HET GOL A 3 6 HET GOL A 4 6 HET GOL A 5 6 HETNAM ZN ZINC ION HETNAM PD2 PYRIDINE-2,4-DICARBOXYLIC ACID HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 ZN ZN 2+ FORMUL 3 PD2 C7 H5 N O4 FORMUL 4 GOL 3(C3 H8 O3) FORMUL 7 HOH *190(H2 O) HELIX 1 1 THR A 88 SER A 104 1 16 HELIX 2 2 HIS A 118 GLY A 123 1 6 HELIX 3 3 GLY A 124 ILE A 131 1 8 HELIX 4 4 ARG A 140 LEU A 161 1 22 HELIX 5 5 ASN A 220 LEU A 223 5 4 HELIX 6 6 LYS A 240 MET A 252 1 13 HELIX 7 7 PRO A 291 ALA A 303 1 13 SHEET 1 A 7 MET A 43 SER A 49 0 SHEET 2 A 7 VAL A 52 ASP A 57 -1 O VAL A 54 N THR A 46 SHEET 3 A 7 GLU A 69 PHE A 75 -1 O SER A 71 N VAL A 55 SHEET 4 A 7 VAL A 80 VAL A 83 -1 O VAL A 83 N MET A 72 SHEET 5 A 7 VAL A 109 ILE A 113 1 O GLU A 111 N VAL A 82 SHEET 6 A 7 LYS A 135 THR A 139 1 O VAL A 137 N VAL A 112 SHEET 7 A 7 VAL A 174 HIS A 176 1 O HIS A 176 N SER A 138 SHEET 1 B 6 PHE A 180 LEU A 182 0 SHEET 2 B 6 VAL A 187 PHE A 190 -1 O ALA A 189 N PHE A 180 SHEET 3 B 6 PHE A 202 PHE A 205 -1 O PHE A 202 N PHE A 190 SHEET 4 B 6 VAL A 216 TYR A 218 -1 O TYR A 218 N VAL A 203 SHEET 5 B 6 THR A 258 ILE A 260 1 O ILE A 260 N LEU A 217 SHEET 6 B 6 LEU A 267 HIS A 289 -1 O HIS A 289 N VAL A 259 LINK N1 PD2 A 2 ZN ZN A 401 1555 1555 2.19 LINK O22 PD2 A 2 ZN ZN A 401 1555 1555 2.26 LINK OD2 ASP A 120 ZN ZN A 401 1555 1555 2.13 LINK SG CYS A 221 ZN ZN A 401 1555 1555 2.30 LINK NE2 HIS A 263 ZN ZN A 401 1555 1555 2.17 SITE 1 AC1 4 PD2 A 2 ASP A 120 CYS A 221 HIS A 263 SITE 1 AC2 12 VAL A 67 ASP A 120 HIS A 196 CYS A 221 SITE 2 AC2 12 LYS A 224 GLY A 232 ASN A 233 HIS A 263 SITE 3 AC2 12 ZN A 401 HOH A 402 HOH A 407 HOH A 531 SITE 1 AC3 6 ARG A 188 PHE A 190 TYR A 204 MET A 252 SITE 2 AC3 6 LEU A 254 HOH A 491 SITE 1 AC4 4 HIS A 176 ASP A 177 GLY A 178 ASP A 179 SITE 1 AC5 6 LEU A 267 HIS A 289 GLY A 290 GLU A 292 SITE 2 AC5 6 HOH A 515 HOH A 568 CRYST1 42.638 101.211 117.121 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 0.023453 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009880 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008538 0.00000