HEADER HYDROLASE 03-SEP-09 3IXB TITLE X-RAY CRYSTAL STRUCTURE OF THE EXTENDED-SPECTRUM AMPC E219K MUTANT TITLE 2 BETA-LACTAMASE COMPLEXED WITH BENZO(B)THIOPHENE-2-BORONIC ACID (BZB) TITLE 3 AT 1.63 ANGSTROM RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: BETA-LACTAMASE; COMPND 3 CHAIN: B, A; COMPND 4 SYNONYM: CEPHALOSPORINASE; COMPND 5 EC: 3.5.2.6; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: AMPA, AMPC, B4150, JW4111; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: JM109; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: POGO295 KEYWDS SERINE HYDROLASE, BETA-LACTAMASE, CEPHALOSPORINASE, EXTENDED-SPECTRUM KEYWDS 2 ANTIBIOTIC RESISTANCE, ANTIBIOTIC RESISTANCE, HYDROLASE, PERIPLASM EXPDTA X-RAY DIFFRACTION AUTHOR B.K.SHOICHET,V.L.THOMAS REVDAT 3 06-SEP-23 3IXB 1 REMARK REVDAT 2 13-OCT-21 3IXB 1 REMARK SEQADV REVDAT 1 16-FEB-10 3IXB 0 JRNL AUTH V.L.THOMAS,A.C.MCREYNOLDS,B.K.SHOICHET JRNL TITL STRUCTURAL BASES FOR STABILITY-FUNCTION TRADEOFFS IN JRNL TITL 2 ANTIBIOTIC RESISTANCE. JRNL REF J.MOL.BIOL. V. 396 47 2010 JRNL REFN ISSN 0022-2836 JRNL PMID 19913034 JRNL DOI 10.1016/J.JMB.2009.11.005 REMARK 2 REMARK 2 RESOLUTION. 1.63 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 1.63 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 92583 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) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.208 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4868 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) : 1.63 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 6844 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.97 REMARK 3 BIN R VALUE (WORKING SET) : 0.2930 REMARK 3 BIN FREE R VALUE SET COUNT : 350 REMARK 3 BIN FREE R VALUE : 0.3270 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5557 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 857 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.24000 REMARK 3 B22 (A**2) : 0.15000 REMARK 3 B33 (A**2) : -0.27000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.13000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.091 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.091 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.054 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.522 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 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): 5787 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7911 ; 1.396 ; 1.954 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 715 ; 5.968 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 242 ;35.683 ;24.628 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 915 ;12.270 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;14.823 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 856 ; 0.088 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4433 ; 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): 3569 ; 0.663 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5762 ; 1.253 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2218 ; 2.118 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2148 ; 3.534 ; 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 : 1.40 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 3IXB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-SEP-09. REMARK 100 THE DEPOSITION ID IS D_1000054981. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-JUL-09 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.7 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) : 1.11587 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.9 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 97467 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.630 REMARK 200 RESOLUTION RANGE LOW (A) : 87.702 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06100 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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 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: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 1KE4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.7M KPI, PH 8.7, 360 UM REMARK 280 BENZO(B)THIOPHENE-2-BORONIC ACID, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 58.53050 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.70600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 58.53050 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 38.70600 REMARK 290 SMTRY3 4 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: 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 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: 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 ASN A 285 REMARK 465 GLY A 286 REMARK 465 SER A 287 REMARK 465 ASP A 288 REMARK 465 ASN A 289 REMARK 465 LYS A 290 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 OG SER B 64 B BZB B 362 1.56 REMARK 500 OG SER A 64 B BZB A 363 1.60 REMARK 500 O HOH A 632 O HOH A 873 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH B 544 O HOH A 435 2556 2.07 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 B 126 -57.61 -128.65 REMARK 500 VAL B 178 -60.22 -122.77 REMARK 500 TYR B 221 23.03 -163.20 REMARK 500 ALA B 307 116.28 -38.15 REMARK 500 ASN B 341 38.74 -98.63 REMARK 500 LYS A 126 -52.03 -128.91 REMARK 500 VAL A 178 -59.26 -125.22 REMARK 500 LEU A 216 -5.55 78.44 REMARK 500 TYR A 221 16.25 -161.26 REMARK 500 ALA A 307 119.22 -38.03 REMARK 500 ASN A 341 41.64 -99.79 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 B 3 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BZB B 362 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PO4 A 362 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BZB A 363 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3IWO RELATED DB: PDB REMARK 900 RELATED ID: 3IWI RELATED DB: PDB REMARK 900 RELATED ID: 3IWQ RELATED DB: PDB REMARK 900 RELATED ID: 3IXD RELATED DB: PDB REMARK 900 RELATED ID: 3IXG RELATED DB: PDB REMARK 900 RELATED ID: 3IXH RELATED DB: PDB DBREF 3IXB B 4 361 UNP P00811 AMPC_ECOLI 20 377 DBREF 3IXB A 4 361 UNP P00811 AMPC_ECOLI 20 377 SEQADV 3IXB LYS B 219 UNP P00811 GLU 235 ENGINEERED MUTATION SEQADV 3IXB LYS A 219 UNP P00811 GLU 235 ENGINEERED MUTATION SEQRES 1 B 358 ALA PRO GLN GLN ILE ASN ASP ILE VAL HIS ARG THR ILE SEQRES 2 B 358 THR PRO LEU ILE GLU GLN GLN LYS ILE PRO GLY MET ALA SEQRES 3 B 358 VAL ALA VAL ILE TYR GLN GLY LYS PRO TYR TYR PHE THR SEQRES 4 B 358 TRP GLY TYR ALA ASP ILE ALA LYS LYS GLN PRO VAL THR SEQRES 5 B 358 GLN GLN THR LEU PHE GLU LEU GLY SER VAL SER LYS THR SEQRES 6 B 358 PHE THR GLY VAL LEU GLY GLY ASP ALA ILE ALA ARG GLY SEQRES 7 B 358 GLU ILE LYS LEU SER ASP PRO THR THR LYS TYR TRP PRO SEQRES 8 B 358 GLU LEU THR ALA LYS GLN TRP ASN GLY ILE THR LEU LEU SEQRES 9 B 358 HIS LEU ALA THR TYR THR ALA GLY GLY LEU PRO LEU GLN SEQRES 10 B 358 VAL PRO ASP GLU VAL LYS SER SER SER ASP LEU LEU ARG SEQRES 11 B 358 PHE TYR GLN ASN TRP GLN PRO ALA TRP ALA PRO GLY THR SEQRES 12 B 358 GLN ARG LEU TYR ALA ASN SER SER ILE GLY LEU PHE GLY SEQRES 13 B 358 ALA LEU ALA VAL LYS PRO SER GLY LEU SER PHE GLU GLN SEQRES 14 B 358 ALA MET GLN THR ARG VAL PHE GLN PRO LEU LYS LEU ASN SEQRES 15 B 358 HIS THR TRP ILE ASN VAL PRO PRO ALA GLU GLU LYS ASN SEQRES 16 B 358 TYR ALA TRP GLY TYR ARG GLU GLY LYS ALA VAL HIS VAL SEQRES 17 B 358 SER PRO GLY ALA LEU ASP ALA LYS ALA TYR GLY VAL LYS SEQRES 18 B 358 SER THR ILE GLU ASP MET ALA ARG TRP VAL GLN SER ASN SEQRES 19 B 358 LEU LYS PRO LEU ASP ILE ASN GLU LYS THR LEU GLN GLN SEQRES 20 B 358 GLY ILE GLN LEU ALA GLN SER ARG TYR TRP GLN THR GLY SEQRES 21 B 358 ASP MET TYR GLN GLY LEU GLY TRP GLU MET LEU ASP TRP SEQRES 22 B 358 PRO VAL ASN PRO ASP SER ILE ILE ASN GLY SER ASP ASN SEQRES 23 B 358 LYS ILE ALA LEU ALA ALA ARG PRO VAL LYS ALA ILE THR SEQRES 24 B 358 PRO PRO THR PRO ALA VAL ARG ALA SER TRP VAL HIS LYS SEQRES 25 B 358 THR GLY ALA THR GLY GLY PHE GLY SER TYR VAL ALA PHE SEQRES 26 B 358 ILE PRO GLU LYS GLU LEU GLY ILE VAL MET LEU ALA ASN SEQRES 27 B 358 LYS ASN TYR PRO ASN PRO ALA ARG VAL ASP ALA ALA TRP SEQRES 28 B 358 GLN ILE LEU ASN ALA LEU GLN SEQRES 1 A 358 ALA PRO GLN GLN ILE ASN ASP ILE VAL HIS ARG THR ILE SEQRES 2 A 358 THR PRO LEU ILE GLU GLN GLN LYS ILE PRO GLY MET ALA SEQRES 3 A 358 VAL ALA VAL ILE TYR GLN GLY LYS PRO TYR TYR PHE THR SEQRES 4 A 358 TRP GLY TYR ALA ASP ILE ALA LYS LYS GLN PRO VAL THR SEQRES 5 A 358 GLN GLN THR LEU PHE GLU LEU GLY SER VAL SER LYS THR SEQRES 6 A 358 PHE THR GLY VAL LEU GLY GLY ASP ALA ILE ALA ARG GLY SEQRES 7 A 358 GLU ILE LYS LEU SER ASP PRO THR THR LYS TYR TRP PRO SEQRES 8 A 358 GLU LEU THR ALA LYS GLN TRP ASN GLY ILE THR LEU LEU SEQRES 9 A 358 HIS LEU ALA THR TYR THR ALA GLY GLY LEU PRO LEU GLN SEQRES 10 A 358 VAL PRO ASP GLU VAL LYS SER SER SER ASP LEU LEU ARG SEQRES 11 A 358 PHE TYR GLN ASN TRP GLN PRO ALA TRP ALA PRO GLY THR SEQRES 12 A 358 GLN ARG LEU TYR ALA ASN SER SER ILE GLY LEU PHE GLY SEQRES 13 A 358 ALA LEU ALA VAL LYS PRO SER GLY LEU SER PHE GLU GLN SEQRES 14 A 358 ALA MET GLN THR ARG VAL PHE GLN PRO LEU LYS LEU ASN SEQRES 15 A 358 HIS THR TRP ILE ASN VAL PRO PRO ALA GLU GLU LYS ASN SEQRES 16 A 358 TYR ALA TRP GLY TYR ARG GLU GLY LYS ALA VAL HIS VAL SEQRES 17 A 358 SER PRO GLY ALA LEU ASP ALA LYS ALA TYR GLY VAL LYS SEQRES 18 A 358 SER THR ILE GLU ASP MET ALA ARG TRP VAL GLN SER ASN SEQRES 19 A 358 LEU LYS PRO LEU ASP ILE ASN GLU LYS THR LEU GLN GLN SEQRES 20 A 358 GLY ILE GLN LEU ALA GLN SER ARG TYR TRP GLN THR GLY SEQRES 21 A 358 ASP MET TYR GLN GLY LEU GLY TRP GLU MET LEU ASP TRP SEQRES 22 A 358 PRO VAL ASN PRO ASP SER ILE ILE ASN GLY SER ASP ASN SEQRES 23 A 358 LYS ILE ALA LEU ALA ALA ARG PRO VAL LYS ALA ILE THR SEQRES 24 A 358 PRO PRO THR PRO ALA VAL ARG ALA SER TRP VAL HIS LYS SEQRES 25 A 358 THR GLY ALA THR GLY GLY PHE GLY SER TYR VAL ALA PHE SEQRES 26 A 358 ILE PRO GLU LYS GLU LEU GLY ILE VAL MET LEU ALA ASN SEQRES 27 A 358 LYS ASN TYR PRO ASN PRO ALA ARG VAL ASP ALA ALA TRP SEQRES 28 A 358 GLN ILE LEU ASN ALA LEU GLN HET PO4 B 3 5 HET BZB B 362 12 HET PO4 A 362 5 HET BZB A 363 12 HETNAM PO4 PHOSPHATE ION HETNAM BZB BENZO[B]THIOPHENE-2-BORONIC ACID FORMUL 3 PO4 2(O4 P 3-) FORMUL 4 BZB 2(C8 H7 B O2 S) FORMUL 7 HOH *857(H2 O) HELIX 1 1 PRO B 5 LYS B 24 1 20 HELIX 2 2 VAL B 65 ARG B 80 1 16 HELIX 3 3 PRO B 88 TRP B 93 1 6 HELIX 4 4 ALA B 98 ASN B 102 5 5 HELIX 5 5 THR B 105 THR B 111 1 7 HELIX 6 6 SER B 127 TRP B 138 1 12 HELIX 7 7 ALA B 151 VAL B 163 1 13 HELIX 8 8 LYS B 164 GLY B 167 5 4 HELIX 9 9 SER B 169 VAL B 178 1 10 HELIX 10 10 PRO B 192 TYR B 199 5 8 HELIX 11 11 LEU B 216 TYR B 221 1 6 HELIX 12 12 THR B 226 LYS B 239 1 14 HELIX 13 13 PRO B 240 ILE B 243 5 4 HELIX 14 14 GLU B 245 GLN B 256 1 12 HELIX 15 15 ASN B 279 ASP B 288 1 10 HELIX 16 16 ASP B 288 LEU B 293 1 6 HELIX 17 17 PRO B 330 GLU B 333 5 4 HELIX 18 18 PRO B 345 GLN B 361 1 17 HELIX 19 19 PRO A 5 LYS A 24 1 20 HELIX 20 20 VAL A 65 ARG A 80 1 16 HELIX 21 21 PRO A 88 TYR A 92 5 5 HELIX 22 22 ALA A 98 ASN A 102 5 5 HELIX 23 23 THR A 105 THR A 111 1 7 HELIX 24 24 SER A 127 TRP A 138 1 12 HELIX 25 25 ALA A 151 VAL A 163 1 13 HELIX 26 26 LYS A 164 GLY A 167 5 4 HELIX 27 27 SER A 169 VAL A 178 1 10 HELIX 28 28 PRO A 192 TYR A 199 5 8 HELIX 29 29 LEU A 216 TYR A 221 1 6 HELIX 30 30 THR A 226 LYS A 239 1 14 HELIX 31 31 PRO A 240 ILE A 243 5 4 HELIX 32 32 GLU A 245 GLN A 256 1 12 HELIX 33 33 ASN A 279 ILE A 284 1 6 HELIX 34 34 PRO A 330 GLU A 333 5 4 HELIX 35 35 PRO A 345 GLN A 361 1 17 SHEET 1 A10 GLN B 52 PRO B 53 0 SHEET 2 A10 LYS B 37 ASP B 47 -1 N ALA B 46 O GLN B 52 SHEET 3 A10 GLY B 27 TYR B 34 -1 N VAL B 30 O PHE B 41 SHEET 4 A10 LEU B 334 ALA B 340 -1 O LEU B 339 N ALA B 29 SHEET 5 A10 PHE B 322 ILE B 329 -1 N TYR B 325 O MET B 338 SHEET 6 A10 SER B 311 THR B 319 -1 N GLY B 317 O SER B 324 SHEET 7 A10 GLU B 272 ASP B 275 -1 N GLU B 272 O HIS B 314 SHEET 8 A10 MET B 265 GLN B 267 -1 N TYR B 266 O MET B 273 SHEET 9 A10 ARG B 258 THR B 262 -1 N THR B 262 O MET B 265 SHEET 10 A10 LYS B 299 THR B 305 -1 O THR B 305 N ARG B 258 SHEET 1 B 2 PHE B 60 GLU B 61 0 SHEET 2 B 2 LYS B 224 SER B 225 -1 O SER B 225 N PHE B 60 SHEET 1 C 2 GLN B 147 ARG B 148 0 SHEET 2 C 2 ARG B 296 PRO B 297 -1 O ARG B 296 N ARG B 148 SHEET 1 D 2 GLY B 202 ARG B 204 0 SHEET 2 D 2 LYS B 207 VAL B 209 -1 O VAL B 209 N GLY B 202 SHEET 1 E10 GLN A 52 PRO A 53 0 SHEET 2 E10 LYS A 37 ASP A 47 -1 N ALA A 46 O GLN A 52 SHEET 3 E10 GLY A 27 TYR A 34 -1 N VAL A 30 O PHE A 41 SHEET 4 E10 LEU A 334 ALA A 340 -1 O LEU A 339 N ALA A 29 SHEET 5 E10 GLY A 323 ILE A 329 -1 N TYR A 325 O MET A 338 SHEET 6 E10 SER A 311 ALA A 318 -1 N GLY A 317 O SER A 324 SHEET 7 E10 GLU A 272 ASP A 275 -1 N LEU A 274 O TRP A 312 SHEET 8 E10 MET A 265 GLN A 267 -1 N TYR A 266 O MET A 273 SHEET 9 E10 ARG A 258 THR A 262 -1 N THR A 262 O MET A 265 SHEET 10 E10 LYS A 299 THR A 305 -1 O THR A 305 N ARG A 258 SHEET 1 F 3 PHE A 60 GLU A 61 0 SHEET 2 F 3 LYS A 224 SER A 225 -1 O SER A 225 N PHE A 60 SHEET 3 F 3 THR A 187 TRP A 188 -1 N TRP A 188 O LYS A 224 SHEET 1 G 2 GLN A 147 ARG A 148 0 SHEET 2 G 2 ARG A 296 PRO A 297 -1 O ARG A 296 N ARG A 148 SHEET 1 H 2 GLY A 202 ARG A 204 0 SHEET 2 H 2 LYS A 207 VAL A 209 -1 O VAL A 209 N GLY A 202 CISPEP 1 TRP B 276 PRO B 277 0 3.28 CISPEP 2 THR B 302 PRO B 303 0 0.04 CISPEP 3 TRP A 276 PRO A 277 0 6.79 CISPEP 4 THR A 302 PRO A 303 0 -1.01 SITE 1 AC1 6 SER A 127 SER A 128 HOH A 604 HOH B 458 SITE 2 AC1 6 HOH B 876 HOH B1039 SITE 1 AC2 8 SER B 64 GLN B 120 TYR B 150 ASN B 152 SITE 2 AC2 8 TYR B 221 ALA B 318 HOH B 415 HOH B 509 SITE 1 AC3 9 HIS A 186 HOH A 383 HOH A 489 HOH A 647 SITE 2 AC3 9 HOH A 875 HOH A1018 HOH A1030 HOH A1031 SITE 3 AC3 9 LYS B 290 SITE 1 AC4 9 SER A 64 GLN A 120 TYR A 150 ASN A 152 SITE 2 AC4 9 TYR A 221 GLY A 317 ALA A 318 HOH A 460 SITE 3 AC4 9 HOH A1022 CRYST1 117.061 77.412 97.235 90.00 115.58 90.00 C 1 2 1 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 0.008543 0.000000 0.004089 0.00000 SCALE2 0.000000 0.012918 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011402 0.00000