HEADER HYDROLASE 19-MAR-07 2P74 TITLE CTX-M-9 CLASS A BETA-LACTAMASE APO CRYSTAL STRUCTURE AT 0.88 ANGSTROM TITLE 2 RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE CTX-M-9A; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BETA-LACTAMASE, CTX-M-9 BETA-LACTAMASE, BETALACTAMASE CTX-M- COMPND 5 9; COMPND 6 EC: 3.5.2.6; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: CTX-M; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET-9A KEYWDS CTX-M, BETA-LACTAMASE, ACYLATION, ESBL, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR Y.CHEN,R.BONNET,B.K.SHOICHET REVDAT 5 30-AUG-23 2P74 1 REMARK LINK REVDAT 4 25-DEC-19 2P74 1 SEQADV SEQRES LINK REVDAT 3 24-FEB-09 2P74 1 VERSN REVDAT 2 08-MAY-07 2P74 1 JRNL REVDAT 1 24-APR-07 2P74 0 JRNL AUTH Y.CHEN,R.BONNET,B.K.SHOICHET JRNL TITL THE ACYLATION MECHANISM OF CTX-M BETA-LACTAMASE AT 0.88 A JRNL TITL 2 RESOLUTION. JRNL REF J.AM.CHEM.SOC. V. 129 5378 2007 JRNL REFN ISSN 0002-7863 JRNL PMID 17408273 JRNL DOI 10.1021/JA0712064 REMARK 2 REMARK 2 RESOLUTION. 0.88 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) : 0.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 85.2 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) : 0.100 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : 0.100 REMARK 3 FREE R VALUE (NO CUTOFF) : 0.114 REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : 4.300 REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : 12801 REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 349495 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : 0.090 REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : 0.090 REMARK 3 FREE R VALUE (F>4SIG(F)) : 0.106 REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : 4.500 REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : 11505 REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 255420 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3903 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 27 REMARK 3 SOLVENT ATOMS : 1001 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 4834.6 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 3805.0 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 201 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 48641 REMARK 3 NUMBER OF RESTRAINTS : 62998 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.015 REMARK 3 ANGLE DISTANCES (A) : 0.032 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : 0.000 REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : 0.038 REMARK 3 ZERO CHIRAL VOLUMES (A**3) : 0.111 REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : 0.112 REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : 0.054 REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : 0.005 REMARK 3 SIMILAR ADP COMPONENTS (A**2) : 0.040 REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : 0.091 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: RIDING HYDROGENS WERE ADDED BY SHELX REMARK 3 AUTOMATICALLY. HYDROGEN ATOMS ON THE END GROUPS OF SER, THR, TYR REMARK 3 AND LYS WERE MODELED WHEN OBSERVED ABOVE 1.5 SIGMA IN THE FO-FC REMARK 3 MAP. REMARK 4 REMARK 4 2P74 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-MAR-07. REMARK 100 THE DEPOSITION ID IS D_1000042049. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-APR-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.800 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 310765 REMARK 200 RESOLUTION RANGE HIGH (A) : 0.880 REMARK 200 RESOLUTION RANGE LOW (A) : 22.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 88.9 REMARK 200 DATA REDUNDANCY : 5.500 REMARK 200 R MERGE (I) : 0.03200 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) : 0.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 0.91 REMARK 200 COMPLETENESS FOR SHELL (%) : 80.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.10 REMARK 200 R MERGE FOR SHELL (I) : 0.32600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: SHELX REMARK 200 STARTING MODEL: PDB ENTRY 1YLJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.94 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.01 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: POTASSIUM PHOSPHATE, PH 8.8, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 53.39800 REMARK 290 SMTRY3 2 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 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 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 PCA B 25 REMARK 465 THR B 26 REMARK 465 SER B 27 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 ARG A 65 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG A 65 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 ARG A 184 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 GLN A 188 CG - CD - OE1 ANGL. DEV. = -13.0 DEGREES REMARK 500 ARG A 222 CD - NE - CZ ANGL. DEV. = 11.2 DEGREES REMARK 500 ARG A 222 NH1 - CZ - NH2 ANGL. DEV. = -8.6 DEGREES REMARK 500 ARG A 222 NE - CZ - NH1 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG A 222 NE - CZ - NH2 ANGL. DEV. = 12.4 DEGREES REMARK 500 ARG A 256 CD - NE - CZ ANGL. DEV. = 8.5 DEGREES REMARK 500 ARG A 256 CD - NE - CZ ANGL. DEV. = 13.5 DEGREES REMARK 500 ARG A 256 NH1 - CZ - NH2 ANGL. DEV. = -7.1 DEGREES REMARK 500 ARG A 256 NE - CZ - NH1 ANGL. DEV. = 10.2 DEGREES REMARK 500 ARG A 256 NE - CZ - NH1 ANGL. DEV. = 10.2 DEGREES REMARK 500 ARG A 256 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 256 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 TYR A 264 CB - CG - CD2 ANGL. DEV. = 10.1 DEGREES REMARK 500 TYR A 264 CB - CG - CD1 ANGL. DEV. = -6.0 DEGREES REMARK 500 TYR A 264 CG - CD1 - CE1 ANGL. DEV. = 5.8 DEGREES REMARK 500 GLU A 273 OE1 - CD - OE2 ANGL. DEV. = -10.4 DEGREES REMARK 500 ARG A 276 NE - CZ - NH1 ANGL. DEV. = 8.1 DEGREES REMARK 500 ARG A 276 NE - CZ - NH1 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG A 276 NE - CZ - NH2 ANGL. DEV. = 8.8 DEGREES REMARK 500 ARG A 284 NE - CZ - NH1 ANGL. DEV. = -4.5 DEGREES REMARK 500 ARG A 284 NE - CZ - NH1 ANGL. DEV. = -7.0 DEGREES REMARK 500 ARG A 284 NE - CZ - NH2 ANGL. DEV. = 7.5 DEGREES REMARK 500 ARG A 284 NE - CZ - NH2 ANGL. DEV. = 3.0 DEGREES REMARK 500 ASP B 53 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ARG B 65 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG B 222 CD - NE - CZ ANGL. DEV. = 13.4 DEGREES REMARK 500 ARG B 222 NE - CZ - NH1 ANGL. DEV. = 5.1 DEGREES REMARK 500 ARG B 222 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG B 256 NE - CZ - NH1 ANGL. DEV. = -4.4 DEGREES REMARK 500 ARG B 256 NE - CZ - NH2 ANGL. DEV. = 10.0 DEGREES REMARK 500 ARG B 256 NE - CZ - NH2 ANGL. DEV. = 7.5 DEGREES REMARK 500 ARG B 276 NH1 - CZ - NH2 ANGL. DEV. = -6.9 DEGREES REMARK 500 ARG B 276 NH1 - CZ - NH2 ANGL. DEV. = -7.9 DEGREES REMARK 500 ARG B 276 NE - CZ - NH1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG B 276 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 ARG B 276 NE - CZ - NH2 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG B 284 CD - NE - CZ ANGL. DEV. = 12.3 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 CYS A 69 -140.44 50.82 REMARK 500 VAL A 103 -137.83 -115.76 REMARK 500 ASN A 106 49.47 -141.07 REMARK 500 ASN A 106 63.51 -152.19 REMARK 500 SER A 220 -129.17 -103.20 REMARK 500 ARG A 256 -178.61 -177.21 REMARK 500 CYS B 69 -141.05 50.85 REMARK 500 VAL B 103 -136.59 -110.39 REMARK 500 SER B 220 -128.68 -105.47 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 VAL B 29 12.13 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 K A1006 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 70 OG REMARK 620 2 SER A 130 O 107.9 REMARK 620 3 SER A 130 OG 65.5 69.5 REMARK 620 4 ASN A 132 OD1 77.9 71.9 113.3 REMARK 620 5 PO4 A1001 O2 70.3 118.5 53.7 148.2 REMARK 620 6 HOH A2078 O 81.6 139.5 143.6 72.0 101.8 REMARK 620 7 HOH A2645 O 139.9 98.9 98.3 140.0 70.8 97.1 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 K B1007 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 70 OG REMARK 620 2 SER B 130 OG 65.4 REMARK 620 3 SER B 130 O 107.5 69.5 REMARK 620 4 ASN B 132 OD1 78.9 114.6 72.2 REMARK 620 5 PO4 B1002 O4 70.7 52.7 117.4 149.6 REMARK 620 6 HOH B2520 O 81.6 142.5 141.4 73.1 101.2 REMARK 620 7 HOH B2748 O 138.7 104.6 105.2 135.7 72.2 88.3 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 1002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 1003 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 1004 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 1005 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K A 1006 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE K B 1007 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YLJ RELATED DB: PDB REMARK 900 CTX-M-9 APO PROTEIN CRYSTALLIZED AT PH 4.5 REMARK 900 RELATED ID: 1YLY RELATED DB: PDB REMARK 900 CTX-M-9 ACYLATION TRANSITION STATE ANALOG COMPLEX REMARK 900 RELATED ID: 1YMX RELATED DB: PDB REMARK 900 CTX-M-9 ACYL-ENZYME COMPLEX WITH CEFOXITIN REMARK 900 RELATED ID: 1YM1 RELATED DB: PDB REMARK 900 CTX-M-9 DEACYLATION TRANSITION STATE ANALOG COMPLEX DBREF 2P74 A 25 287 UNP Q9L5C8 Q9L5C8_ECOLI 29 291 DBREF 2P74 B 25 287 UNP Q9L5C8 Q9L5C8_ECOLI 29 291 SEQRES 1 A 263 PCA THR SER ALA VAL GLN GLN LYS LEU ALA ALA LEU GLU SEQRES 2 A 263 LYS SER SER GLY GLY ARG LEU GLY VAL ALA LEU ILE ASP SEQRES 3 A 263 THR ALA ASP ASN THR GLN VAL LEU TYR ARG GLY ASP GLU SEQRES 4 A 263 ARG PHE PRO MET CYS SER THR SER LYS VAL MET ALA ALA SEQRES 5 A 263 ALA ALA VAL LEU LYS GLN SER GLU THR GLN LYS GLN LEU SEQRES 6 A 263 LEU ASN GLN PRO VAL GLU ILE LYS PRO ALA ASP LEU VAL SEQRES 7 A 263 ASN TYR ASN PRO ILE ALA GLU LYS HIS VAL ASN GLY THR SEQRES 8 A 263 MET THR LEU ALA GLU LEU SER ALA ALA ALA LEU GLN TYR SEQRES 9 A 263 SER ASP ASN THR ALA MET ASN LYS LEU ILE ALA GLN LEU SEQRES 10 A 263 GLY GLY PRO GLY GLY VAL THR ALA PHE ALA ARG ALA ILE SEQRES 11 A 263 GLY ASP GLU THR PHE ARG LEU ASP ARG THR GLU PRO THR SEQRES 12 A 263 LEU ASN THR ALA ILE PRO GLY ASP PRO ARG ASP THR THR SEQRES 13 A 263 THR PRO ARG ALA MET ALA GLN THR LEU ARG GLN LEU THR SEQRES 14 A 263 LEU GLY HIS ALA LEU GLY GLU THR GLN ARG ALA GLN LEU SEQRES 15 A 263 VAL THR TRP LEU LYS GLY ASN THR THR GLY ALA ALA SER SEQRES 16 A 263 ILE ARG ALA GLY LEU PRO THR SER TRP THR ALA GLY ASP SEQRES 17 A 263 LYS THR GLY SER GLY ASP TYR GLY THR THR ASN ASP ILE SEQRES 18 A 263 ALA VAL ILE TRP PRO GLN GLY ARG ALA PRO LEU VAL LEU SEQRES 19 A 263 VAL THR TYR PHE THR GLN PRO GLN GLN ASN ALA GLU SER SEQRES 20 A 263 ARG ARG ASP VAL LEU ALA SER ALA ALA ARG ILE ILE ALA SEQRES 21 A 263 GLU GLY LEU SEQRES 1 B 263 PCA THR SER ALA VAL GLN GLN LYS LEU ALA ALA LEU GLU SEQRES 2 B 263 LYS SER SER GLY GLY ARG LEU GLY VAL ALA LEU ILE ASP SEQRES 3 B 263 THR ALA ASP ASN THR GLN VAL LEU TYR ARG GLY ASP GLU SEQRES 4 B 263 ARG PHE PRO MET CYS SER THR SER LYS VAL MET ALA ALA SEQRES 5 B 263 ALA ALA VAL LEU LYS GLN SER GLU THR GLN LYS GLN LEU SEQRES 6 B 263 LEU ASN GLN PRO VAL GLU ILE LYS PRO ALA ASP LEU VAL SEQRES 7 B 263 ASN TYR ASN PRO ILE ALA GLU LYS HIS VAL ASN GLY THR SEQRES 8 B 263 MET THR LEU ALA GLU LEU SER ALA ALA ALA LEU GLN TYR SEQRES 9 B 263 SER ASP ASN THR ALA MET ASN LYS LEU ILE ALA GLN LEU SEQRES 10 B 263 GLY GLY PRO GLY GLY VAL THR ALA PHE ALA ARG ALA ILE SEQRES 11 B 263 GLY ASP GLU THR PHE ARG LEU ASP ARG THR GLU PRO THR SEQRES 12 B 263 LEU ASN THR ALA ILE PRO GLY ASP PRO ARG ASP THR THR SEQRES 13 B 263 THR PRO ARG ALA MET ALA GLN THR LEU ARG GLN LEU THR SEQRES 14 B 263 LEU GLY HIS ALA LEU GLY GLU THR GLN ARG ALA GLN LEU SEQRES 15 B 263 VAL THR TRP LEU LYS GLY ASN THR THR GLY ALA ALA SER SEQRES 16 B 263 ILE ARG ALA GLY LEU PRO THR SER TRP THR ALA GLY ASP SEQRES 17 B 263 LYS THR GLY SER GLY ASP TYR GLY THR THR ASN ASP ILE SEQRES 18 B 263 ALA VAL ILE TRP PRO GLN GLY ARG ALA PRO LEU VAL LEU SEQRES 19 B 263 VAL THR TYR PHE THR GLN PRO GLN GLN ASN ALA GLU SER SEQRES 20 B 263 ARG ARG ASP VAL LEU ALA SER ALA ALA ARG ILE ILE ALA SEQRES 21 B 263 GLU GLY LEU MODRES 2P74 PCA A 25 GLN PYROGLUTAMIC ACID HET PCA A 25 8 HET PO4 A1001 10 HET PO4 A1003 5 HET K A1006 1 HET PO4 B1002 10 HET PO4 B1004 5 HET PO4 B1005 5 HET K B1007 1 HETNAM PCA PYROGLUTAMIC ACID HETNAM PO4 PHOSPHATE ION HETNAM K POTASSIUM ION FORMUL 1 PCA C5 H7 N O3 FORMUL 3 PO4 5(O4 P 3-) FORMUL 5 K 2(K 1+) FORMUL 10 HOH *1001(H2 O) HELIX 1 1 SER A 27 GLY A 41 1 15 HELIX 2 2 CYS A 69 THR A 71 5 3 HELIX 3 3 SER A 72 GLU A 85 1 14 HELIX 4 4 GLN A 89 ASN A 92 5 4 HELIX 5 5 LYS A 98 LEU A 102 5 5 HELIX 6 6 ILE A 108 VAL A 113 5 6 HELIX 7 7 LEU A 119 SER A 130 1 12 HELIX 8 8 ASP A 131 LEU A 142 1 12 HELIX 9 9 GLY A 144 ILE A 155 1 12 HELIX 10 10 PRO A 167 THR A 171 5 5 HELIX 11 11 THR A 182 LEU A 195 1 14 HELIX 12 12 GLY A 200 GLY A 213 1 14 HELIX 13 13 SER A 220 LEU A 225 5 6 HELIX 14 14 ARG A 275 GLY A 289 1 15 HELIX 15 15 ALA B 28 GLY B 41 1 14 HELIX 16 16 CYS B 69 THR B 71 5 3 HELIX 17 17 SER B 72 GLU B 85 1 14 HELIX 18 18 GLN B 89 ASN B 92 5 4 HELIX 19 19 LYS B 98 LEU B 102 5 5 HELIX 20 20 ILE B 108 VAL B 113 5 6 HELIX 21 21 LEU B 119 SER B 130 1 12 HELIX 22 22 ASP B 131 LEU B 142 1 12 HELIX 23 23 GLY B 144 ILE B 155 1 12 HELIX 24 24 PRO B 167 THR B 171 5 5 HELIX 25 25 THR B 182 LEU B 195 1 14 HELIX 26 26 GLY B 200 GLY B 213 1 14 HELIX 27 27 SER B 220 LEU B 225 5 6 HELIX 28 28 ARG B 275 GLY B 289 1 15 SHEET 1 A 5 GLN A 56 TYR A 60 0 SHEET 2 A 5 ARG A 43 ASP A 50 -1 N LEU A 48 O VAL A 57 SHEET 3 A 5 LEU A 259 THR A 266 -1 O TYR A 264 N GLY A 45 SHEET 4 A 5 THR A 243 TRP A 251 -1 N ILE A 250 O LEU A 259 SHEET 5 A 5 THR A 230 GLY A 238 -1 N THR A 230 O TRP A 251 SHEET 1 B 2 PHE A 66 PRO A 67 0 SHEET 2 B 2 THR A 180 THR A 181 -1 O THR A 181 N PHE A 66 SHEET 1 C 2 PRO A 94 ILE A 97 0 SHEET 2 C 2 GLY A 115 THR A 118 -1 O MET A 117 N VAL A 95 SHEET 1 D 5 GLN B 56 TYR B 60 0 SHEET 2 D 5 ARG B 43 ASP B 50 -1 N VAL B 46 O TYR B 60 SHEET 3 D 5 LEU B 259 THR B 266 -1 O TYR B 264 N GLY B 45 SHEET 4 D 5 THR B 243 TRP B 251 -1 N ILE B 250 O LEU B 259 SHEET 5 D 5 THR B 230 GLY B 238 -1 N THR B 230 O TRP B 251 SHEET 1 E 2 PHE B 66 PRO B 67 0 SHEET 2 E 2 THR B 180 THR B 181 -1 O THR B 181 N PHE B 66 SHEET 1 F 2 PRO B 94 ILE B 97 0 SHEET 2 F 2 GLY B 115 THR B 118 -1 O GLY B 115 N ILE B 97 LINK C PCA A 25 N THR A 26 1555 1555 1.34 LINK OG SER A 70 K A K A1006 1555 1555 2.88 LINK O SER A 130 K A K A1006 1555 1555 2.79 LINK OG SER A 130 K A K A1006 1555 1555 2.86 LINK OD1 ASN A 132 K A K A1006 1555 1555 2.97 LINK O2 APO4 A1001 K A K A1006 1555 1555 2.91 LINK K A K A1006 O HOH A2078 1555 1555 2.79 LINK K A K A1006 O HOH A2645 1555 1555 3.05 LINK OG SER B 70 K A K B1007 1555 1555 2.87 LINK OG SER B 130 K A K B1007 1555 1555 2.90 LINK O SER B 130 K A K B1007 1555 1555 2.77 LINK OD1 ASN B 132 K A K B1007 1555 1555 2.94 LINK O4 APO4 B1002 K A K B1007 1555 1555 2.92 LINK K A K B1007 O HOH B2520 1555 1555 2.81 LINK K A K B1007 O HOH B2748 1555 1555 2.90 CISPEP 1 GLU A 166 PRO A 167 0 4.65 CISPEP 2 GLU B 166 PRO B 167 0 6.56 SITE 1 AC1 13 SER A 70 SER A 130 LYS A 234 THR A 235 SITE 2 AC1 13 GLY A 236 SER A 237 K A1006 HOH A2265 SITE 3 AC1 13 HOH A2479 HOH A2645 HOH A2856 HOH A2867 SITE 4 AC1 13 HOH A2960 SITE 1 AC2 13 SER B 70 SER B 130 LYS B 234 THR B 235 SITE 2 AC2 13 GLY B 236 SER B 237 K B1007 HOH B2214 SITE 3 AC2 13 HOH B2317 HOH B2480 HOH B2667 HOH B2748 SITE 4 AC2 13 HOH B2975 SITE 1 AC3 9 ARG A 153 GLU A 158 HOH A2036 HOH A2542 SITE 2 AC3 9 HIS B 197 ARG B 204 HOH B2365 HOH B2393 SITE 3 AC3 9 HOH B2612 SITE 1 AC4 11 PRO A 177 HOH A2331 GLU B 85 THR B 202 SITE 2 AC4 11 GLN B 203 HOH B2060 HOH B2231 HOH B2260 SITE 3 AC4 11 HOH B2280 HOH B2474 HOH B2931 SITE 1 AC5 4 LYS B 38 HOH B2590 HOH B2618 HOH B2732 SITE 1 AC6 6 SER A 70 SER A 130 ASN A 132 PO4 A1001 SITE 2 AC6 6 HOH A2078 HOH A2645 SITE 1 AC7 6 SER B 70 SER B 130 ASN B 132 PO4 B1002 SITE 2 AC7 6 HOH B2520 HOH B2748 CRYST1 45.162 106.796 47.785 90.00 102.09 90.00 P 1 21 1 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 0.022143 0.000000 0.004743 0.00000 SCALE2 0.000000 0.009364 0.000000 0.00000 SCALE3 0.000000 0.000000 0.021402 0.00000 HETATM 1 N PCA A 25 14.098 77.809 27.125 1.00 25.37 N ANISOU 1 N PCA A 25 3747 2207 3686 -1447 2640 -1009 N HETATM 2 CA PCA A 25 14.616 76.957 26.077 1.00 18.07 C ANISOU 2 CA PCA A 25 2223 1790 2853 -696 1408 -484 C HETATM 3 CB PCA A 25 16.038 76.546 26.552 1.00 19.82 C ANISOU 3 CB PCA A 25 2677 2784 2068 -989 536 -114 C HETATM 4 CG PCA A 25 15.905 76.623 28.065 1.00 28.78 C ANISOU 4 CG PCA A 25 5003 3801 2131 -2227 854 -88 C HETATM 5 CD PCA A 25 14.773 77.611 28.271 1.00 36.52 C ANISOU 5 CD PCA A 25 6094 5092 2690 -1627 2652 -823 C HETATM 6 OE PCA A 25 14.663 78.190 29.398 1.00 41.92 O ANISOU 6 OE PCA A 25 6333 5646 3950 -3565 2695 -2256 O HETATM 7 C PCA A 25 13.730 75.764 25.798 1.00 17.02 C ANISOU 7 C PCA A 25 2407 2130 1930 -961 1081 -275 C HETATM 8 O PCA A 25 12.959 75.344 26.665 1.00 20.50 O ANISOU 8 O PCA A 25 2921 2652 2217 -1382 1361 -382 O