HEADER HYDROLASE 29-FEB-08 2ZJ9 TITLE X-RAY CRYSTAL STRUCTURE OF AMPC BETA-LACTAMASE (AMPC(D)) FROM AN TITLE 2 ESCHERICHIA COLI WITH A TRIPEPTIDE DELETION (GLY286 SER287 ASP288) ON TITLE 3 THE H10 HELIX COMPND MOL_ID: 1; COMPND 2 MOLECULE: AMPC; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: AMPC-EC5, AMPC-EC30, CLASS C BETA-LACTAMASE AMPC(D); COMPND 5 EC: 3.5.2.6; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 STRAIN: HKY28; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: CS14-2; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PBCKS+ KEYWDS LACTAMASE, TRIPEPTIDE DELETION, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.YAMAGUCHI,G.SATO,Y.YAMAGATA,J.WACHINO,Y.ARAKAWA,H.KUROSAKI REVDAT 3 01-NOV-23 2ZJ9 1 REMARK SEQADV LINK REVDAT 2 16-JUN-09 2ZJ9 1 JRNL REVDAT 1 10-MAR-09 2ZJ9 0 JRNL AUTH Y.YAMAGUCHI,G.SATO,Y.YAMAGATA,Y.DOI,J.WACHINO,Y.ARAKAWA, JRNL AUTH 2 K.MATSUDA,H.KUROSAKI JRNL TITL STRUCTURE OF AMPC BETA-LACTAMASE (AMPCD) FROM AN ESCHERICHIA JRNL TITL 2 COLI CLINICAL ISOLATE WITH A TRIPEPTIDE DELETION JRNL TITL 3 (GLY286-SER287-ASP288) IN THE H10 HELIX JRNL REF ACTA CRYSTALLOGR.,SECT.F V. 65 540 2009 JRNL REFN ESSN 1744-3091 JRNL PMID 19478427 JRNL DOI 10.1107/S1744309109014249 REMARK 2 REMARK 2 RESOLUTION. 1.70 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.16 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 94.1 REMARK 3 NUMBER OF REFLECTIONS : 62030 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) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.206 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3287 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3855 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 79.42 REMARK 3 BIN R VALUE (WORKING SET) : 0.2280 REMARK 3 BIN FREE R VALUE SET COUNT : 206 REMARK 3 BIN FREE R VALUE : 0.3060 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5576 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 611 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.86 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.121 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.117 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.072 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.139 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.964 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6003 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8252 ; 1.400 ; 1.949 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 783 ; 5.607 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 262 ;38.577 ;24.695 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1003 ;14.565 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;15.733 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 904 ; 0.115 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4627 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2903 ; 0.217 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 4135 ; 0.312 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 521 ; 0.129 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): 3 ; 0.215 ; 0.200 REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 82 ; 0.166 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 33 ; 0.102 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): 1 ; 0.135 ; 0.200 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): 3670 ; 0.760 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5984 ; 1.372 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2492 ; 2.378 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2226 ; 3.849 ; 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 : 1.20 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 2ZJ9 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-MAR-08. REMARK 100 THE DEPOSITION ID IS D_1000028041. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-NOV-06; 10-DEC-06 REMARK 200 TEMPERATURE (KELVIN) : 100; 100 REMARK 200 PH : 5.6 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y; Y REMARK 200 RADIATION SOURCE : SPRING-8; PHOTON FACTORY REMARK 200 BEAMLINE : BL41XU; AR-NW12A REMARK 200 X-RAY GENERATOR MODEL : NULL; NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M; M REMARK 200 WAVELENGTH OR RANGE (A) : 1.07158; 1.00 REMARK 200 MONOCHROMATOR : NULL; NULL REMARK 200 OPTICS : NULL; NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD; CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315; ADSC QUANTUM REMARK 200 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 65343 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 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 (%) : NULL REMARK 200 DATA REDUNDANCY : 2.200 REMARK 200 R MERGE (I) : 0.06200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 18.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.26700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH; SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2BLS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 10MM HEPES, 20% PEG 4000, 5% ISO REMARK 280 -PROPANOL, 0.05M SODIUM CITRATE, PH 5.6, VAPOR DIFFUSION, REMARK 280 HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,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 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 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 ASN A 285 C ASN A 289 N 0.258 REMARK 500 ASN B 285 C ASN B 289 N 0.154 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 ASN B 285 O - C - N ANGL. DEV. = -11.7 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 LYS A 126 -30.84 -130.34 REMARK 500 TYR A 221 33.86 -156.63 REMARK 500 ASN A 285 67.04 -108.51 REMARK 500 ASN A 341 42.49 -98.57 REMARK 500 PRO B 5 132.05 -36.79 REMARK 500 VAL B 178 -60.12 -124.85 REMARK 500 TYR B 221 35.06 -162.43 REMARK 500 ASN B 285 58.50 -112.23 REMARK 500 ASN B 341 42.57 -100.28 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 ASN A 285 13.30 REMARK 500 ASN B 285 22.62 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 NA A 1 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 100 OE1 REMARK 620 2 GLN A 136 O 100.3 REMARK 620 3 TRP A 138 O 77.7 91.6 REMARK 620 4 GLN A 139 NE2 85.8 172.8 93.4 REMARK 620 5 HOH A 468 O 115.4 85.1 166.9 88.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 2 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN B 100 OE1 REMARK 620 2 GLN B 136 O 102.5 REMARK 620 3 TRP B 138 O 78.7 89.2 REMARK 620 4 GLN B 139 OE1 95.7 161.8 93.3 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 NA A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 362 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 362 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE 214TH RESIDUE IS ARG ACCORDING TO DOI ET AL. [ANTIMICROB REMARK 999 AGENTS CHEMOTHER. 48, 2652-2658(2004)] DBREF 2ZJ9 A 4 361 UNP Q5EET9 Q5EET9_ECOLX 20 377 DBREF 2ZJ9 B 4 361 UNP Q5EET9 Q5EET9_ECOLX 20 377 SEQADV 2ZJ9 ARG A 214 UNP Q5EET9 GLY 230 SEE REMARK 999 SEQADV 2ZJ9 A UNP Q5EET9 GLY 302 DELETION SEQADV 2ZJ9 A UNP Q5EET9 SER 303 DELETION SEQADV 2ZJ9 A UNP Q5EET9 ASP 304 DELETION SEQADV 2ZJ9 ARG B 214 UNP Q5EET9 GLY 230 SEE REMARK 999 SEQADV 2ZJ9 B UNP Q5EET9 GLY 302 DELETION SEQADV 2ZJ9 B UNP Q5EET9 SER 303 DELETION SEQADV 2ZJ9 B UNP Q5EET9 ASP 304 DELETION SEQRES 1 A 355 ALA PRO GLN GLN ILE ASN ASP ILE VAL HIS ARG THR ILE SEQRES 2 A 355 THR PRO LEU ILE GLU GLN GLN LYS ILE PRO GLY MET ALA SEQRES 3 A 355 VAL ALA VAL ILE TYR GLN GLY LYS PRO TYR TYR PHE THR SEQRES 4 A 355 TRP GLY TYR ALA ASP ILE ALA LYS LYS GLN PRO VAL THR SEQRES 5 A 355 GLN GLN THR LEU PHE GLU LEU GLY SER VAL SER LYS THR SEQRES 6 A 355 PHE THR GLY VAL LEU GLY GLY ASP ALA ILE ALA ARG GLY SEQRES 7 A 355 GLU ILE LYS LEU SER ASP PRO THR THR LYS TYR TRP PRO SEQRES 8 A 355 GLU LEU THR ALA LYS GLN TRP ASN GLY ILE THR LEU LEU SEQRES 9 A 355 HIS LEU ALA THR TYR THR ALA GLY GLY LEU PRO LEU GLN SEQRES 10 A 355 VAL PRO ASP GLU VAL LYS SER SER SER ASP LEU LEU ARG SEQRES 11 A 355 PHE TYR GLN ASN TRP GLN PRO ALA TRP ALA PRO GLY THR SEQRES 12 A 355 GLN ARG LEU TYR ALA ASN SER SER ILE GLY LEU PHE GLY SEQRES 13 A 355 ALA LEU ALA VAL LYS PRO SER GLY LEU SER PHE GLU GLN SEQRES 14 A 355 ALA MET LYS THR ARG VAL PHE GLN PRO LEU LYS LEU ASN SEQRES 15 A 355 HIS THR TRP ILE ASN VAL PRO SER ALA GLU GLU LYS ASN SEQRES 16 A 355 TYR ALA TRP GLY TYR ARG GLU GLY LYS ALA VAL HIS VAL SEQRES 17 A 355 SER PRO ARG ALA LEU ASP ALA GLU ALA TYR GLY VAL LYS SEQRES 18 A 355 SER THR ILE GLU ASP MET ALA ARG TRP VAL GLN SER ASN SEQRES 19 A 355 LEU LYS PRO LEU ASP ILE ASN GLU LYS THR LEU GLN GLN SEQRES 20 A 355 GLY ILE GLN LEU ALA GLN SER ARG TYR TRP GLN THR GLY SEQRES 21 A 355 ASP MET TYR GLN GLY LEU GLY TRP GLU MET LEU ASP TRP SEQRES 22 A 355 PRO VAL ASN PRO ASP ILE ILE ILE ASN ASN LYS ILE ALA SEQRES 23 A 355 LEU ALA ALA ARG PRO VAL LYS PRO ILE THR PRO PRO THR SEQRES 24 A 355 PRO ALA VAL ARG ALA SER TRP VAL HIS LYS THR GLY ALA SEQRES 25 A 355 THR GLY GLY PHE GLY SER TYR VAL ALA PHE ILE PRO GLU SEQRES 26 A 355 LYS GLU LEU GLY ILE VAL MET LEU ALA ASN LYS ASN TYR SEQRES 27 A 355 PRO ASN PRO ALA ARG VAL ALA ALA ALA TRP GLN ILE LEU SEQRES 28 A 355 ASN ALA LEU GLN SEQRES 1 B 355 ALA PRO GLN GLN ILE ASN ASP ILE VAL HIS ARG THR ILE SEQRES 2 B 355 THR PRO LEU ILE GLU GLN GLN LYS ILE PRO GLY MET ALA SEQRES 3 B 355 VAL ALA VAL ILE TYR GLN GLY LYS PRO TYR TYR PHE THR SEQRES 4 B 355 TRP GLY TYR ALA ASP ILE ALA LYS LYS GLN PRO VAL THR SEQRES 5 B 355 GLN GLN THR LEU PHE GLU LEU GLY SER VAL SER LYS THR SEQRES 6 B 355 PHE THR GLY VAL LEU GLY GLY ASP ALA ILE ALA ARG GLY SEQRES 7 B 355 GLU ILE LYS LEU SER ASP PRO THR THR LYS TYR TRP PRO SEQRES 8 B 355 GLU LEU THR ALA LYS GLN TRP ASN GLY ILE THR LEU LEU SEQRES 9 B 355 HIS LEU ALA THR TYR THR ALA GLY GLY LEU PRO LEU GLN SEQRES 10 B 355 VAL PRO ASP GLU VAL LYS SER SER SER ASP LEU LEU ARG SEQRES 11 B 355 PHE TYR GLN ASN TRP GLN PRO ALA TRP ALA PRO GLY THR SEQRES 12 B 355 GLN ARG LEU TYR ALA ASN SER SER ILE GLY LEU PHE GLY SEQRES 13 B 355 ALA LEU ALA VAL LYS PRO SER GLY LEU SER PHE GLU GLN SEQRES 14 B 355 ALA MET LYS THR ARG VAL PHE GLN PRO LEU LYS LEU ASN SEQRES 15 B 355 HIS THR TRP ILE ASN VAL PRO SER ALA GLU GLU LYS ASN SEQRES 16 B 355 TYR ALA TRP GLY TYR ARG GLU GLY LYS ALA VAL HIS VAL SEQRES 17 B 355 SER PRO ARG ALA LEU ASP ALA GLU ALA TYR GLY VAL LYS SEQRES 18 B 355 SER THR ILE GLU ASP MET ALA ARG TRP VAL GLN SER ASN SEQRES 19 B 355 LEU LYS PRO LEU ASP ILE ASN GLU LYS THR LEU GLN GLN SEQRES 20 B 355 GLY ILE GLN LEU ALA GLN SER ARG TYR TRP GLN THR GLY SEQRES 21 B 355 ASP MET TYR GLN GLY LEU GLY TRP GLU MET LEU ASP TRP SEQRES 22 B 355 PRO VAL ASN PRO ASP ILE ILE ILE ASN ASN LYS ILE ALA SEQRES 23 B 355 LEU ALA ALA ARG PRO VAL LYS PRO ILE THR PRO PRO THR SEQRES 24 B 355 PRO ALA VAL ARG ALA SER TRP VAL HIS LYS THR GLY ALA SEQRES 25 B 355 THR GLY GLY PHE GLY SER TYR VAL ALA PHE ILE PRO GLU SEQRES 26 B 355 LYS GLU LEU GLY ILE VAL MET LEU ALA ASN LYS ASN TYR SEQRES 27 B 355 PRO ASN PRO ALA ARG VAL ALA ALA ALA TRP GLN ILE LEU SEQRES 28 B 355 ASN ALA LEU GLN HET NA A 1 1 HET IPA A 362 4 HET NA B 2 1 HET IPA B 362 4 HETNAM NA SODIUM ION HETNAM IPA ISOPROPYL ALCOHOL HETSYN IPA 2-PROPANOL FORMUL 3 NA 2(NA 1+) FORMUL 4 IPA 2(C3 H8 O) FORMUL 7 HOH *611(H2 O) HELIX 1 1 PRO A 5 LYS A 24 1 20 HELIX 2 2 VAL A 65 ARG A 80 1 16 HELIX 3 3 PRO A 88 TRP A 93 1 6 HELIX 4 4 PRO A 94 THR A 97 5 4 HELIX 5 5 ALA A 98 ASN A 102 5 5 HELIX 6 6 THR A 105 THR A 111 1 7 HELIX 7 7 SER A 127 TRP A 138 1 12 HELIX 8 8 ALA A 151 VAL A 163 1 13 HELIX 9 9 LYS A 164 GLY A 167 5 4 HELIX 10 10 SER A 169 VAL A 178 1 10 HELIX 11 11 PRO A 192 TYR A 199 5 8 HELIX 12 12 LEU A 216 GLY A 222 1 7 HELIX 13 13 THR A 226 LYS A 239 1 14 HELIX 14 14 PRO A 240 ILE A 243 5 4 HELIX 15 15 GLU A 245 GLN A 256 1 12 HELIX 16 16 ASN A 279 ASN A 285 1 7 HELIX 17 17 PRO A 330 GLU A 333 5 4 HELIX 18 18 PRO A 345 GLN A 361 1 17 HELIX 19 19 PRO B 5 LYS B 24 1 20 HELIX 20 20 VAL B 65 ARG B 80 1 16 HELIX 21 21 PRO B 88 TRP B 93 1 6 HELIX 22 22 PRO B 94 THR B 97 5 4 HELIX 23 23 ALA B 98 ASN B 102 5 5 HELIX 24 24 THR B 105 THR B 111 1 7 HELIX 25 25 SER B 127 TRP B 138 1 12 HELIX 26 26 ALA B 151 VAL B 163 1 13 HELIX 27 27 LYS B 164 GLY B 167 5 4 HELIX 28 28 SER B 169 VAL B 178 1 10 HELIX 29 29 PRO B 192 TYR B 199 5 8 HELIX 30 30 LEU B 216 GLY B 222 1 7 HELIX 31 31 THR B 226 LYS B 239 1 14 HELIX 32 32 PRO B 240 ILE B 243 5 4 HELIX 33 33 GLU B 245 GLN B 256 1 12 HELIX 34 34 ASN B 279 ASN B 285 1 7 HELIX 35 35 PRO B 330 GLU B 333 5 4 HELIX 36 36 PRO B 345 GLN B 361 1 17 SHEET 1 A10 GLN A 52 PRO A 53 0 SHEET 2 A10 LYS A 37 ASP A 47 -1 N ALA A 46 O GLN A 52 SHEET 3 A10 GLY A 27 TYR A 34 -1 N VAL A 30 O PHE A 41 SHEET 4 A10 LEU A 334 ALA A 340 -1 O LEU A 339 N ALA A 29 SHEET 5 A10 GLY A 323 ILE A 329 -1 N TYR A 325 O MET A 338 SHEET 6 A10 SER A 311 ALA A 318 -1 N GLY A 317 O SER A 324 SHEET 7 A10 GLU A 272 ASP A 275 -1 N GLU A 272 O HIS A 314 SHEET 8 A10 MET A 265 GLN A 267 -1 N TYR A 266 O MET A 273 SHEET 9 A10 ARG A 258 THR A 262 -1 N THR A 262 O MET A 265 SHEET 10 A10 LYS A 299 THR A 305 -1 O LYS A 299 N GLN A 261 SHEET 1 B 3 PHE A 60 GLU A 61 0 SHEET 2 B 3 LYS A 224 SER A 225 -1 O SER A 225 N PHE A 60 SHEET 3 B 3 THR A 187 TRP A 188 -1 N TRP A 188 O LYS A 224 SHEET 1 C 2 GLN A 147 ARG A 148 0 SHEET 2 C 2 ARG A 296 PRO A 297 -1 O ARG A 296 N ARG A 148 SHEET 1 D 2 GLY A 202 ARG A 204 0 SHEET 2 D 2 LYS A 207 VAL A 209 -1 O VAL A 209 N GLY A 202 SHEET 1 E10 GLN B 52 PRO B 53 0 SHEET 2 E10 LYS B 37 ASP B 47 -1 N ALA B 46 O GLN B 52 SHEET 3 E10 GLY B 27 TYR B 34 -1 N TYR B 34 O LYS B 37 SHEET 4 E10 LEU B 334 ALA B 340 -1 O LEU B 339 N ALA B 29 SHEET 5 E10 GLY B 323 ILE B 329 -1 N ILE B 329 O LEU B 334 SHEET 6 E10 SER B 311 ALA B 318 -1 N GLY B 317 O SER B 324 SHEET 7 E10 GLU B 272 ASP B 275 -1 N GLU B 272 O HIS B 314 SHEET 8 E10 MET B 265 GLN B 267 -1 N TYR B 266 O MET B 273 SHEET 9 E10 ARG B 258 THR B 262 -1 N TYR B 259 O GLN B 267 SHEET 10 E10 LYS B 299 THR B 305 -1 O LYS B 299 N GLN B 261 SHEET 1 F 3 PHE B 60 GLU B 61 0 SHEET 2 F 3 LYS B 224 SER B 225 -1 O SER B 225 N PHE B 60 SHEET 3 F 3 THR B 187 TRP B 188 -1 N TRP B 188 O LYS B 224 SHEET 1 G 2 GLN B 147 ARG B 148 0 SHEET 2 G 2 ARG B 296 PRO B 297 -1 O ARG B 296 N ARG B 148 SHEET 1 H 2 GLY B 202 ARG B 204 0 SHEET 2 H 2 LYS B 207 VAL B 209 -1 O VAL B 209 N GLY B 202 LINK NA NA A 1 OE1 GLN A 100 1555 1555 2.53 LINK NA NA A 1 O GLN A 136 1555 1555 2.66 LINK NA NA A 1 O TRP A 138 1555 1555 2.44 LINK NA NA A 1 NE2BGLN A 139 1555 1555 2.25 LINK NA NA A 1 O HOH A 468 1555 1555 2.21 LINK NA NA B 2 OE1 GLN B 100 1555 1555 2.49 LINK NA NA B 2 O GLN B 136 1555 1555 2.71 LINK NA NA B 2 O TRP B 138 1555 1555 2.58 LINK NA NA B 2 OE1 GLN B 139 1555 1555 2.17 CISPEP 1 TRP A 276 PRO A 277 0 0.40 CISPEP 2 THR A 302 PRO A 303 0 -6.04 CISPEP 3 TRP B 276 PRO B 277 0 1.58 CISPEP 4 THR B 302 PRO B 303 0 -4.59 SITE 1 AC1 6 GLN A 100 GLN A 136 ASN A 137 TRP A 138 SITE 2 AC1 6 GLN A 139 HOH A 468 SITE 1 AC2 5 ARG A 148 MET A 265 TYR A 266 GLU A 272 SITE 2 AC2 5 HOH A 556 SITE 1 AC3 6 HOH A 443 GLN B 100 GLN B 136 ASN B 137 SITE 2 AC3 6 TRP B 138 GLN B 139 SITE 1 AC4 5 ARG B 148 MET B 265 TYR B 266 GLU B 272 SITE 2 AC4 5 HOH B 510 CRYST1 47.065 47.381 81.461 82.62 80.91 65.40 P 1 2 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 0.021247 -0.009730 -0.002729 0.00000 SCALE2 0.000000 0.023213 -0.001622 0.00000 SCALE3 0.000000 0.000000 0.012462 0.00000