HEADER HYDROLASE/ANTIBIOTIC 19-OCT-10 3PAE
TITLE CRYSTAL STRUCTURE OF THE K84D MUTANT OF OXA-24/40 IN COMPLEX WITH
TITLE 2 DORIPENEM
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: BETA-LACTAMASE;
COMPND 3 CHAIN: A, B;
COMPND 4 FRAGMENT: UNP RESIDUES 32-275;
COMPND 5 SYNONYM: BETA-LACTAMASE OXA-33, BETALACTAMASE OXA24, CARBAPENEM-
COMPND 6 HYDROLYZING BETA-LACTAMASE OXA-40, CARBAPENEM-HYDROLYZING
COMPND 7 OXACILLINASE, CLASS D BETA-LACTAMASE OXA-40, OXA-24 CLASS D BETA-
COMPND 8 LACTAMASE, OXA40;
COMPND 9 EC: 3.5.2.6;
COMPND 10 ENGINEERED: YES;
COMPND 11 MUTATION: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: ACINETOBACTER BAUMANNII;
SOURCE 3 ORGANISM_TAXID: 470;
SOURCE 4 GENE: BLAOXA-33, BLA-OXA-40, BLAOXA-24, BLAOXA-40, OXA-24, OXA40;
SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562;
SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3);
SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID;
SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET24A
KEYWDS HYDROLASE, CARBAPENEMASE, HYDROLASE-ANTIBIOTIC COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR R.A.POWERS,D.A.LEONARD,K.D.SCHNEIDER
REVDAT 6 27-NOV-24 3PAE 1 REMARK
REVDAT 5 06-SEP-23 3PAE 1 REMARK SEQADV LINK
REVDAT 4 05-OCT-16 3PAE 1 FORMUL HETNAM HETSYN
REVDAT 3 25-NOV-15 3PAE 1 FORMUL HET HETATM HETNAM
REVDAT 3 2 1 VERSN
REVDAT 2 23-MAR-11 3PAE 1 JRNL
REVDAT 1 19-JAN-11 3PAE 0
JRNL AUTH K.D.SCHNEIDER,C.J.ORTEGA,N.A.RENCK,R.A.BONOMO,R.A.POWERS,
JRNL AUTH 2 D.A.LEONARD
JRNL TITL STRUCTURES OF THE CLASS D CARBAPENEMASE OXA-24 FROM
JRNL TITL 2 ACINETOBACTER BAUMANNII IN COMPLEX WITH DORIPENEM.
JRNL REF J.MOL.BIOL. V. 406 583 2011
JRNL REFN ISSN 0022-2836
JRNL PMID 21215758
JRNL DOI 10.1016/J.JMB.2010.12.042
REMARK 1
REMARK 1 REFERENCE 1
REMARK 1 AUTH K.D.SCHNEIDER,M.E.KARPEN,R.A.BONOMO,D.A.LEONARD,R.A.POWERS
REMARK 1 TITL THE 1.4 A CRYSTAL STRUCTURE OF THE CLASS D BETA-LACTAMASE
REMARK 1 TITL 2 OXA-1 COMPLEXED WITH DORIPENEM
REMARK 1 REF BIOCHEMISTRY V. 48 11840 2009
REMARK 1 REFN ISSN 0006-2960
REMARK 1 PMID 19919101
REMARK 1 DOI 10.1021/BI901690R
REMARK 2
REMARK 2 RESOLUTION. 2.10 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC 5.5.0109
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) : 2.10
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 31.68
REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL
REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5
REMARK 3 NUMBER OF REFLECTIONS : 48197
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) : 0.191
REMARK 3 R VALUE (WORKING SET) : 0.189
REMARK 3 FREE R VALUE : 0.231
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100
REMARK 3 FREE R VALUE TEST SET COUNT : 2574
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) : 2.10
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.15
REMARK 3 REFLECTION IN BIN (WORKING SET) : 3207
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 89.94
REMARK 3 BIN R VALUE (WORKING SET) : 0.2240
REMARK 3 BIN FREE R VALUE SET COUNT : 191
REMARK 3 BIN FREE R VALUE : 0.2620
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 3858
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 69
REMARK 3 SOLVENT ATOMS : 314
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.42
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : -2.18000
REMARK 3 B22 (A**2) : -2.18000
REMARK 3 B33 (A**2) : 4.36000
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): 0.150
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.147
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.102
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.899
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.941
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4014 ; 0.015 ; 0.022
REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5429 ; 1.522 ; 1.969
REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 490 ; 5.347 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 175 ;41.826 ;25.543
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 738 ;17.655 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;16.466 ;15.000
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 600 ; 0.096 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2946 ; 0.007 ; 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): 2422 ; 0.866 ; 1.500
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3899 ; 1.612 ; 2.000
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1592 ; 2.557 ; 3.000
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1528 ; 4.251 ; 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 3PAE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 10-NOV-10.
REMARK 100 THE DEPOSITION ID IS D_1000062156.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 14-MAR-09
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 : 21-ID-D
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 1.1
REMARK 200 MONOCHROMATOR : SI(111)
REMARK 200 OPTICS : NULL
REMARK 200
REMARK 200 DETECTOR TYPE : CCD
REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD
REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO
REMARK 200 DATA SCALING SOFTWARE : SCALEPACK
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50780
REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100
REMARK 200 RESOLUTION RANGE LOW (A) : 50.000
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8
REMARK 200 DATA REDUNDANCY : NULL
REMARK 200 R MERGE (I) : NULL
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.18
REMARK 200 COMPLETENESS FOR SHELL (%) : 94.2
REMARK 200 DATA REDUNDANCY IN SHELL : NULL
REMARK 200 R MERGE FOR SHELL (I) : NULL
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL
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: 2JC7
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 69.58
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.04
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM TRIS-HCL, 2.0 M AMMONIUM
REMARK 280 SULFATE, PH 8.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41
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 -Y,X,Z+1/4
REMARK 290 4555 Y,-X,Z+3/4
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 42.72500
REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000
REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 21.36250
REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000
REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 64.08750
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 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 350
REMARK 350 BIOMOLECULE: 2
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: 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 31
REMARK 465 MET B 31
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 GLU A 196 CG CD OE1 OE2
REMARK 470 GLU B 196 CG CD OE1 OE2
REMARK 470 GLU B 254 CG 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 O1 SO4 B 3 O HOH B 402 1.99
REMARK 500 OG SER B 81 OAD 4J6 B 300 2.09
REMARK 500 O PRO B 79 OG1 THR B 82 2.12
REMARK 500 OG SER A 81 OAD 4J6 A 300 2.14
REMARK 500 O GLU B 254 O HOH B 409 2.19
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 ALA A 69 66.23 -152.51
REMARK 500 ALA A 80 -127.72 52.81
REMARK 500 THR A 157 11.56 53.87
REMARK 500 ASN A 165 11.93 -151.10
REMARK 500 ASN A 211 62.69 30.68
REMARK 500 GLU A 254 127.75 -31.86
REMARK 500 ALA B 69 65.55 -151.40
REMARK 500 ALA B 80 -124.03 63.12
REMARK 500 THR B 157 11.09 57.11
REMARK 500 ASN B 165 11.57 -147.05
REMARK 500 ASN B 211 -112.28 35.32
REMARK 500 GLU B 254 126.68 -34.07
REMARK 500
REMARK 500 REMARK: NULL
REMARK 600
REMARK 600 HETEROGEN
REMARK 600
REMARK 600 4J6 IN THE STRUCTURE REPRESENTS THE DELTA 2 TAUTOMER, IN WHICH A
REMARK 600 DOUBLE BOND IS PRESENT BETWEEN CARBONS 2 AND 3 (ATOMS CAS AND CAZ).
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: AC1
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 4J6 A 300
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC3
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 4J6 B 300
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC4
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 2
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC5
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 3
REMARK 900
REMARK 900 RELATED ENTRIES
REMARK 900 RELATED ID: 3ISG RELATED DB: PDB
REMARK 900 THE NON-CARBAPENEMASE OXA-1 IN COMPLEX WITH THE SAME DRUG,
REMARK 900 DORIPENEM.
REMARK 900 RELATED ID: 3PAG RELATED DB: PDB
DBREF 3PAE A 32 275 UNP Q8RLA6 Q8RLA6_ACIBA 32 275
DBREF 3PAE B 32 275 UNP Q8RLA6 Q8RLA6_ACIBA 32 275
SEQADV 3PAE MET A 31 UNP Q8RLA6 INITIATING METHIONINE
SEQADV 3PAE ASP A 84 UNP Q8RLA6 LYS 84 ENGINEERED MUTATION
SEQADV 3PAE MET B 31 UNP Q8RLA6 INITIATING METHIONINE
SEQADV 3PAE ASP B 84 UNP Q8RLA6 LYS 84 ENGINEERED MUTATION
SEQRES 1 A 245 MET HIS ILE SER SER GLN GLN HIS GLU LYS ALA ILE LYS
SEQRES 2 A 245 SER TYR PHE ASP GLU ALA GLN THR GLN GLY VAL ILE ILE
SEQRES 3 A 245 ILE LYS GLU GLY LYS ASN LEU SER THR TYR GLY ASN ALA
SEQRES 4 A 245 LEU ALA ARG ALA ASN LYS GLU TYR VAL PRO ALA SER THR
SEQRES 5 A 245 PHE ASP MET LEU ASN ALA LEU ILE GLY LEU GLU ASN HIS
SEQRES 6 A 245 LYS ALA THR THR ASN GLU ILE PHE LYS TRP ASP GLY LYS
SEQRES 7 A 245 LYS ARG THR TYR PRO MET TRP GLU LYS ASP MET THR LEU
SEQRES 8 A 245 GLY GLU ALA MET ALA LEU SER ALA VAL PRO VAL TYR GLN
SEQRES 9 A 245 GLU LEU ALA ARG ARG THR GLY LEU GLU LEU MET GLN LYS
SEQRES 10 A 245 GLU VAL LYS ARG VAL ASN PHE GLY ASN THR ASN ILE GLY
SEQRES 11 A 245 THR GLN VAL ASP ASN PHE TRP LEU VAL GLY PRO LEU LYS
SEQRES 12 A 245 ILE THR PRO VAL GLN GLU VAL ASN PHE ALA ASP ASP LEU
SEQRES 13 A 245 ALA HIS ASN ARG LEU PRO PHE LYS LEU GLU THR GLN GLU
SEQRES 14 A 245 GLU VAL LYS LYS MET LEU LEU ILE LYS GLU VAL ASN GLY
SEQRES 15 A 245 SER LYS ILE TYR ALA LYS SER GLY TRP GLY MET GLY VAL
SEQRES 16 A 245 THR PRO GLN VAL GLY TRP LEU THR GLY TRP VAL GLU GLN
SEQRES 17 A 245 ALA ASN GLY LYS LYS ILE PRO PHE SER LEU ASN LEU GLU
SEQRES 18 A 245 MET LYS GLU GLY MET SER GLY SER ILE ARG ASN GLU ILE
SEQRES 19 A 245 THR TYR LYS SER LEU GLU ASN LEU GLY ILE ILE
SEQRES 1 B 245 MET HIS ILE SER SER GLN GLN HIS GLU LYS ALA ILE LYS
SEQRES 2 B 245 SER TYR PHE ASP GLU ALA GLN THR GLN GLY VAL ILE ILE
SEQRES 3 B 245 ILE LYS GLU GLY LYS ASN LEU SER THR TYR GLY ASN ALA
SEQRES 4 B 245 LEU ALA ARG ALA ASN LYS GLU TYR VAL PRO ALA SER THR
SEQRES 5 B 245 PHE ASP MET LEU ASN ALA LEU ILE GLY LEU GLU ASN HIS
SEQRES 6 B 245 LYS ALA THR THR ASN GLU ILE PHE LYS TRP ASP GLY LYS
SEQRES 7 B 245 LYS ARG THR TYR PRO MET TRP GLU LYS ASP MET THR LEU
SEQRES 8 B 245 GLY GLU ALA MET ALA LEU SER ALA VAL PRO VAL TYR GLN
SEQRES 9 B 245 GLU LEU ALA ARG ARG THR GLY LEU GLU LEU MET GLN LYS
SEQRES 10 B 245 GLU VAL LYS ARG VAL ASN PHE GLY ASN THR ASN ILE GLY
SEQRES 11 B 245 THR GLN VAL ASP ASN PHE TRP LEU VAL GLY PRO LEU LYS
SEQRES 12 B 245 ILE THR PRO VAL GLN GLU VAL ASN PHE ALA ASP ASP LEU
SEQRES 13 B 245 ALA HIS ASN ARG LEU PRO PHE LYS LEU GLU THR GLN GLU
SEQRES 14 B 245 GLU VAL LYS LYS MET LEU LEU ILE LYS GLU VAL ASN GLY
SEQRES 15 B 245 SER LYS ILE TYR ALA LYS SER GLY TRP GLY MET GLY VAL
SEQRES 16 B 245 THR PRO GLN VAL GLY TRP LEU THR GLY TRP VAL GLU GLN
SEQRES 17 B 245 ALA ASN GLY LYS LYS ILE PRO PHE SER LEU ASN LEU GLU
SEQRES 18 B 245 MET LYS GLU GLY MET SER GLY SER ILE ARG ASN GLU ILE
SEQRES 19 B 245 THR TYR LYS SER LEU GLU ASN LEU GLY ILE ILE
HET 4J6 A 300 27
HET SO4 A 1 5
HET 4J6 B 300 27
HET SO4 B 2 5
HET SO4 B 3 5
HETNAM 4J6 (4R,5S)-5-[(2S,3R)-3-HYDROXY-1-OXOBUTAN-2-YL]-4-METHYL-
HETNAM 2 4J6 3-({(3S,5S)-5-[(SULFAMOYLAMINO)METHYL]PYRROLIDIN-3-
HETNAM 3 4J6 YL}SULFANYL)-4,5-DIHYDRO-1H-PYRROLE-2-CARBOXYLIC ACID
HETNAM SO4 SULFATE ION
HETSYN 4J6 DORIPENEM(OPEN FORM, PYRROLINE TAUTOMER FORM 1, SP2
HETSYN 2 4J6 CONNECTION TO THIO)
FORMUL 3 4J6 2(C15 H26 N4 O6 S2)
FORMUL 4 SO4 3(O4 S 2-)
FORMUL 8 HOH *314(H2 O)
HELIX 1 1 SER A 34 ALA A 49 1 16
HELIX 2 2 ALA A 69 LYS A 75 5 7
HELIX 3 3 PRO A 79 THR A 82 5 4
HELIX 4 4 PHE A 83 ASN A 94 1 12
HELIX 5 5 TYR A 112 GLU A 116 5 5
HELIX 6 6 THR A 120 SER A 128 1 9
HELIX 7 7 ALA A 129 GLY A 141 1 13
HELIX 8 8 GLY A 141 ASN A 153 1 13
HELIX 9 9 THR A 175 HIS A 188 1 14
HELIX 10 10 LYS A 194 MET A 204 1 11
HELIX 11 11 GLY A 258 LEU A 272 1 15
HELIX 12 12 SER B 34 ALA B 49 1 16
HELIX 13 13 ALA B 69 LYS B 75 5 7
HELIX 14 14 PRO B 79 THR B 82 5 4
HELIX 15 15 PHE B 83 ASN B 94 1 12
HELIX 16 16 TYR B 112 GLU B 116 5 5
HELIX 17 17 THR B 120 SER B 128 1 9
HELIX 18 18 ALA B 129 GLY B 141 1 13
HELIX 19 19 GLY B 141 ASN B 153 1 13
HELIX 20 20 THR B 175 HIS B 188 1 14
HELIX 21 21 LYS B 194 MET B 204 1 11
HELIX 22 22 GLY B 258 LEU B 272 1 15
SHEET 1 A 6 ASN A 62 GLY A 67 0
SHEET 2 A 6 GLY A 53 GLU A 59 -1 N ILE A 57 O SER A 64
SHEET 3 A 6 LYS A 243 MET A 252 -1 O ASN A 249 N VAL A 54
SHEET 4 A 6 GLN A 228 GLU A 237 -1 N LEU A 232 O LEU A 248
SHEET 5 A 6 SER A 213 GLY A 222 -1 N LYS A 214 O GLU A 237
SHEET 6 A 6 LEU A 206 VAL A 210 -1 N LYS A 208 O ILE A 215
SHEET 1 B 6 ASN B 62 GLY B 67 0
SHEET 2 B 6 GLY B 53 GLU B 59 -1 N ILE B 57 O SER B 64
SHEET 3 B 6 LYS B 243 MET B 252 -1 O ASN B 249 N VAL B 54
SHEET 4 B 6 GLN B 228 GLU B 237 -1 N GLY B 230 O LEU B 250
SHEET 5 B 6 SER B 213 GLY B 222 -1 N LYS B 218 O THR B 233
SHEET 6 B 6 LEU B 206 VAL B 210 -1 N VAL B 210 O SER B 213
LINK OG SER A 81 CAJ 4J6 A 300 1555 1555 1.30
LINK OG SER B 81 CAJ 4J6 B 300 1555 1555 1.29
CISPEP 1 GLY A 170 PRO A 171 0 6.73
CISPEP 2 THR A 226 PRO A 227 0 -4.10
CISPEP 3 GLY B 170 PRO B 171 0 2.82
CISPEP 4 THR B 226 PRO B 227 0 -4.00
SITE 1 AC1 18 HOH A 8 ALA A 80 SER A 81 TRP A 115
SITE 2 AC1 18 LEU A 127 SER A 128 LEU A 168 SER A 219
SITE 3 AC1 18 GLY A 220 TRP A 221 MET A 223 GLY A 258
SITE 4 AC1 18 SER A 259 ARG A 261 HOH A 284 HOH A 390
SITE 5 AC1 18 HOH A 392 HOH A 406
SITE 1 AC2 5 GLY A 141 LEU A 142 GLU A 143 HOH A 288
SITE 2 AC2 5 HOH A 364
SITE 1 AC3 18 ALA B 80 SER B 81 TRP B 115 LEU B 127
SITE 2 AC3 18 SER B 128 VAL B 130 LEU B 168 SER B 219
SITE 3 AC3 18 GLY B 220 TRP B 221 MET B 223 GLY B 258
SITE 4 AC3 18 SER B 259 ARG B 261 HOH B 314 HOH B 351
SITE 5 AC3 18 HOH B 355 HOH B 401
SITE 1 AC4 4 HOH A 356 GLY B 141 LEU B 142 GLU B 143
SITE 1 AC5 7 GLU B 76 TYR B 77 VAL B 78 VAL B 225
SITE 2 AC5 7 PRO B 227 VAL B 229 HOH B 402
CRYST1 102.334 102.334 85.450 90.00 90.00 90.00 P 41 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 0.009772 0.000000 0.000000 0.00000
SCALE2 0.000000 0.009772 0.000000 0.00000
SCALE3 0.000000 0.000000 0.011703 0.00000