HEADER HYDROLASE 06-JUN-12 4AX1 TITLE Q157N MUTANT. CRYSTAL STRUCTURE OF THE MOBILE METALLO-BETA-LACTAMASE TITLE 2 AIM-1 FROM PSEUDOMONAS AERUGINOSA: INSIGHTS INTO ANTIBIOTIC BINDING TITLE 3 AND THE ROLE OF GLN157 COMPND MOL_ID: 1; COMPND 2 MOLECULE: METALLO-BETA-LACTAMASE AIM-1; COMPND 3 CHAIN: B; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PSEUDOMONAS AERUGINOSA; SOURCE 3 ORGANISM_TAXID: 287; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET-26B KEYWDS HYDROLASE, ANTIBIOTIC RESISTANCE, ACQUIRED B3, DRUG BINDING SITE EXPDTA X-RAY DIFFRACTION AUTHOR H.-K.S.LEIROS,P.S.BORRA,B.O.BRANDSDAL,K.S.W.EDVARDSEN,J.SPENCER, AUTHOR 2 T.R.WALSH,O.SAMUELSEN REVDAT 5 16-OCT-19 4AX1 1 REMARK REVDAT 4 20-JUN-18 4AX1 1 LINK REVDAT 3 17-JAN-18 4AX1 1 REMARK REVDAT 2 15-AUG-12 4AX1 1 JRNL REVDAT 1 20-JUN-12 4AX1 0 JRNL AUTH H.-K.S.LEIROS,P.S.BORRA,B.O.BRANDSDAL,K.S.W.EDVARDSEN, JRNL AUTH 2 J.SPENCER,T.R.WALSH,O.SAMUELSEN JRNL TITL CRYSTAL STRUCTURE OF THE MOBILE METALLO-BETA-LACTAMASE AIM-1 JRNL TITL 2 FROM PSEUDOMONAS AERUGINOSA: INSIGHTS INTO ANTIBIOTIC JRNL TITL 3 BINDING AND THE ROLE OF GLN157 JRNL REF ANTIMICROB.AGENTS CHEMOTHER. V. 56 4341 2012 JRNL REFN ISSN 0066-4804 JRNL PMID 22664968 JRNL DOI 10.1128/AAC.00448-12 REMARK 2 REMARK 2 RESOLUTION. 1.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 1.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 25.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.1 REMARK 3 NUMBER OF REFLECTIONS : 78274 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) : 0.131 REMARK 3 R VALUE (WORKING SET) : 0.130 REMARK 3 FREE R VALUE : 0.150 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4125 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) : 1.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.44 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3269 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 57.73 REMARK 3 BIN R VALUE (WORKING SET) : 0.4040 REMARK 3 BIN FREE R VALUE SET COUNT : 182 REMARK 3 BIN FREE R VALUE : 0.4330 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2004 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 411 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 15.21 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.48 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -0.04000 REMARK 3 B12 (A**2) : 0.01000 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): 0.041 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.039 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.021 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.206 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.976 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.972 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2215 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 1470 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3032 ; 1.753 ; 1.957 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3560 ; 1.113 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 292 ; 6.394 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 91 ;28.930 ;22.857 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 319 ;13.407 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;19.622 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 342 ; 0.109 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2543 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 453 ; 0.003 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): 3684 ; 3.954 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 96 ;41.544 ; 5.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3953 ;12.905 ; 5.000 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. U VALUES, REFINED INDIVIDUALLY REMARK 4 REMARK 4 4AX1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-JUN-12. REMARK 100 THE DEPOSITION ID IS D_1290052804. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I911-3 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 82502 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.400 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.3 REMARK 200 DATA REDUNDANCY : 6.400 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 0.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.48 REMARK 200 COMPLETENESS FOR SHELL (%) : 76.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.40 REMARK 200 R MERGE FOR SHELL (I) : 0.46000 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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 62.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17-18% POLYETHYLENE GLYCOL MONOMETHYL REMARK 280 ETHERS (PEG MME) 2000, 0.10 OR 0.15 M CALCIUM ACETATE AND 0.1 M REMARK 280 SODIUM CACODYLATE AT PH 5.0, VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 7555 Y,X,-Z+1/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+2/3 REMARK 290 10555 -Y,-X,-Z+5/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+1/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 79.92200 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 159.84400 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 119.88300 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 199.80500 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 39.96100 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 79.92200 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 159.84400 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 199.80500 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 119.88300 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 39.96100 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: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 CA CA B3234 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2361 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN B, GLN 145 TO ASN 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 B 2 REMARK 465 LYS B 3 REMARK 465 ARG B 4 REMARK 465 ARG B 5 REMARK 465 PHE B 6 REMARK 465 THR B 7 REMARK 465 LEU B 8 REMARK 465 LEU B 9 REMARK 465 GLY B 10 REMARK 465 SER B 11 REMARK 465 VAL B 12 REMARK 465 VAL B 13 REMARK 465 ALA B 14 REMARK 465 LEU B 15 REMARK 465 ALA B 16 REMARK 465 LEU B 17 REMARK 465 SER B 18 REMARK 465 SER B 19 REMARK 465 THR B 20 REMARK 465 ALA B 21 REMARK 465 LEU B 22 REMARK 465 ALA B 23 REMARK 465 SER B 24 REMARK 465 ASP B 25 REMARK 465 ALA B 26 REMARK 465 PRO B 27 REMARK 465 PRO B 313 REMARK 465 SER B 314 REMARK 465 SER B 315 REMARK 465 GLY B 316 REMARK 465 ALA B 317 REMARK 465 ARG B 318 REMARK 465 PRO B 319 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 ARG B 30 NE CZ NH1 NH2 REMARK 470 ASP B 35 OD2 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 O HOH B 2089 O HOH B 2090 1.50 REMARK 500 O PRO B 89 O HOH B 2089 1.75 REMARK 500 O HOH B 2088 O HOH B 2176 1.82 REMARK 500 CZ ARG B 298 O HOH B 2376 1.93 REMARK 500 NH2 ARG B 298 O HOH B 2376 1.94 REMARK 500 O HOH B 2136 O HOH B 2137 1.94 REMARK 500 NH1 ARG B 298 O HOH B 2376 2.00 REMARK 500 CE MET B 43 O HOH B 2038 2.01 REMARK 500 O HOH B 2159 O HOH B 2160 2.01 REMARK 500 O HOH B 2076 O HOH B 2185 2.05 REMARK 500 OE2 GLU B 162 O HOH B 2233 2.11 REMARK 500 CE MET B 43 O HOH B 2032 2.12 REMARK 500 O HOH B 2095 O HOH B 2096 2.12 REMARK 500 O HOH B 2356 O HOH B 2357 2.13 REMARK 500 NH1 ARG B 214 O HOH B 2287 2.13 REMARK 500 ND2 ASN B 39 OG1 THR B 87 2.13 REMARK 500 OD1 ASP B 212 NH1 ARG B 214 2.16 REMARK 500 REMARK 500 REMARK: NULL 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 ASP B 76 C ALA B 78 N 0.215 REMARK 500 THR B 87 C PRO B 89 N 0.129 REMARK 500 ASP B1227 C VAL B2227 N 0.152 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 THR B 57 CA - C - N ANGL. DEV. = 14.0 DEGREES REMARK 500 THR B 57 O - C - N ANGL. DEV. = -16.7 DEGREES REMARK 500 ASP B 76 O - C - N ANGL. DEV. = -9.8 DEGREES REMARK 500 THR B 87 CA - C - N ANGL. DEV. = -29.5 DEGREES REMARK 500 PRO B 89 C - N - CA ANGL. DEV. = -25.5 DEGREES REMARK 500 ARG B 105 NE - CZ - NH2 ANGL. DEV. = -3.9 DEGREES REMARK 500 ARG B 110 NE - CZ - NH1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ASP B 176 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG B 229 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG B 229 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 PHE B 243 CB - CG - CD1 ANGL. DEV. = 4.7 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 ASP B 35 32.32 -97.05 REMARK 500 ASP B 84 162.65 77.96 REMARK 500 ALA B 86 -155.93 52.25 REMARK 500 ALA B 86 -135.71 52.25 REMARK 500 THR B 87 -149.31 -93.81 REMARK 500 SER B 115 -71.40 -80.67 REMARK 500 GLU B 117 33.67 -87.88 REMARK 500 HIS B 236 73.02 -162.77 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 THR B 87 -18.71 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B2017 DISTANCE = 6.28 ANGSTROMS REMARK 525 HOH B2087 DISTANCE = 6.45 ANGSTROMS REMARK 525 HOH B2106 DISTANCE = 5.98 ANGSTROMS REMARK 525 HOH B2155 DISTANCE = 5.83 ANGSTROMS 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 MG B3231 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASN B 98 OD1 REMARK 620 2 HOH B2025 O 102.6 REMARK 620 3 HOH B2027 O 95.0 103.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B3228 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 116 NE2 REMARK 620 2 HIS B 118 ND1 101.3 REMARK 620 3 HIS B 196 NE2 98.5 101.6 REMARK 620 4 HOH B2149 O 113.7 111.0 127.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B3229 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 120 OD2 REMARK 620 2 HIS B 121 NE2 91.4 REMARK 620 3 HIS B 263 NE2 94.9 103.6 REMARK 620 4 HOH B2149 O 94.7 111.7 143.1 REMARK 620 5 HOH B2150 O 167.9 99.5 87.6 76.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B3230 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER B 221 OG REMARK 620 2 HOH B2409 O 87.1 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B3232 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B2370 O REMARK 620 2 HOH B2347 O 87.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B3234 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B2275 O REMARK 620 2 HOH B2277 O 68.8 REMARK 620 3 HOH B2339 O 75.2 142.8 REMARK 620 4 HOH B2343 O 80.5 73.8 91.6 REMARK 620 5 HOH B2339 O 74.7 87.2 92.3 153.0 REMARK 620 6 HOH B2275 O 135.8 140.2 74.5 131.4 75.2 REMARK 620 7 HOH B2277 O 140.1 115.0 86.9 64.3 142.6 68.6 REMARK 620 8 HOH B2343 O 131.8 64.4 152.7 97.0 91.7 80.4 73.7 REMARK 620 N 1 2 3 4 5 6 7 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 3228 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 3229 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 3230 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 3231 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 3232 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACT B 3233 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 3234 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4AWY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE MOBILE METALLO-BETA-LACTAMASE AIM-1 FROM REMARK 900 PSEUDOMONAS AERUGINOSA: INSIGHTS INTO ANTIBIOTIC BINDING AND THE REMARK 900 ROLE OF GLN157 REMARK 900 RELATED ID: 4AWZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE MOBILE METALLO-BETA-LACTAMASE AIM-1 FROM REMARK 900 PSEUDOMONAS AERUGINOSA: INSIGHTS INTO ANTIBIOTIC BINDING AND THE REMARK 900 ROLE OF GLN157 REMARK 900 RELATED ID: 4AX0 RELATED DB: PDB REMARK 900 Q157A MUTANT. CRYSTAL STRUCTURE OF THE MOBILE METALLO- BETA- REMARK 900 LACTAMASE AIM-1 FROM PSEUDOMONAS AERUGINOSA: INSIGHTS INTO REMARK 900 ANTIBIOTIC BINDING AND THE ROLE OF GLN157 DBREF 4AX1 B 2 319 UNP B5DCA0 B5DCA0_PSEAI 1 303 SEQADV 4AX1 ASN B 157 UNP B5DCA0 GLN 145 ENGINEERED MUTATION SEQRES 1 B 303 MET LYS ARG ARG PHE THR LEU LEU GLY SER VAL VAL ALA SEQRES 2 B 303 LEU ALA LEU SER SER THR ALA LEU ALA SER ASP ALA PRO SEQRES 3 B 303 ALA SER ARG GLY CYS ALA ASP ASP ALA GLY TRP ASN ASP SEQRES 4 B 303 PRO ALA MET PRO LEU LYS VAL TYR GLY ASN THR TRP TYR SEQRES 5 B 303 VAL GLY THR CYS GLY ILE SER ALA LEU LEU VAL THR SER SEQRES 6 B 303 ASP ALA GLY HIS ILE LEU VAL ASP ALA ALA THR PRO GLN SEQRES 7 B 303 ALA GLY PRO GLN ILE LEU ALA ASN ILE ARG ALA LEU GLY SEQRES 8 B 303 PHE ARG PRO GLU ASP VAL ARG ALA ILE VAL PHE SER HIS SEQRES 9 B 303 GLU HIS PHE ASP HIS ALA GLY SER LEU ALA GLU LEU GLN SEQRES 10 B 303 LYS ALA THR GLY ALA PRO VAL TYR ALA ARG ALA PRO ALA SEQRES 11 B 303 ILE ASP THR LEU LYS ARG GLY LEU PRO ASP ARG THR ASP SEQRES 12 B 303 PRO ASN PHE GLU VAL ALA GLU PRO VAL ALA PRO VAL ALA SEQRES 13 B 303 ASN ILE VAL THR LEU ALA ASP ASP GLY VAL VAL SER VAL SEQRES 14 B 303 GLY PRO LEU ALA LEU THR ALA VAL ALA SER PRO GLY HIS SEQRES 15 B 303 THR PRO GLY GLY THR SER TRP THR TRP ARG SER CYS GLU SEQRES 16 B 303 GLY ASP ASP CYS ARG GLN MET VAL TYR ALA ASP SER LEU SEQRES 17 B 303 THR ALA ILE SER ASP ASP VAL PHE ARG TYR SER ASP ASP SEQRES 18 B 303 ALA ALA HIS PRO GLY TYR LEU ALA ALA PHE ARG ASN THR SEQRES 19 B 303 LEU ALA ARG VAL ALA ALA LEU ASP CYS ASP ILE LEU VAL SEQRES 20 B 303 THR PRO HIS PRO SER ALA SER GLY LEU TRP ASN ARG ILE SEQRES 21 B 303 GLY PRO ARG ALA ALA ALA PRO LEU MET ASP THR THR ALA SEQRES 22 B 303 CYS ARG ARG TYR ALA GLN GLY ALA ARG GLN ARG LEU GLU SEQRES 23 B 303 LYS ARG LEU ALA GLU GLU ALA ALA THR SER PRO SER SER SEQRES 24 B 303 GLY ALA ARG PRO HET ZN B3228 1 HET ZN B3229 1 HET CA B3230 1 HET MG B3231 1 HET MG B3232 1 HET ACT B3233 4 HET CA B3234 1 HETNAM ZN ZINC ION HETNAM CA CALCIUM ION HETNAM MG MAGNESIUM ION HETNAM ACT ACETATE ION FORMUL 2 ZN 2(ZN 2+) FORMUL 4 CA 2(CA 2+) FORMUL 5 MG 2(MG 2+) FORMUL 7 ACT C2 H3 O2 1- FORMUL 9 HOH *411(H2 O) HELIX 1 1 ALA B 91 LEU B 102 1 12 HELIX 2 2 ARG B 105 GLU B 107 5 3 HELIX 3 3 HIS B 118 GLY B 123 1 6 HELIX 4 4 SER B 124 GLY B 133 1 10 HELIX 5 5 ALA B 142 GLY B 149 1 8 HELIX 6 6 ASN B 157 ALA B 161 5 5 HELIX 7 7 ASP B 232 HIS B 236 5 5 HELIX 8 8 GLY B 238 ALA B 252 1 15 HELIX 9 9 HIS B 263 GLY B 268 5 6 HELIX 10 10 GLY B 268 ARG B 272 5 5 HELIX 11 11 THR B 288 ALA B 310 1 23 SHEET 1 BA 5 LEU B 45 TYR B 49 0 SHEET 2 BA 5 THR B 52 TYR B 54 -1 O THR B 52 N VAL B 48 SHEET 3 BA 5 LEU B 71 VAL B 73 -1 O LEU B 72 N TRP B 53 SHEET 4 BA 5 HIS B 80 VAL B 83 -1 O ILE B 81 N VAL B 73 SHEET 5 BA 5 VAL B 109 VAL B 113 1 N ARG B 110 O HIS B 80 SHEET 1 BB 2 VAL B 136 ARG B 139 0 SHEET 2 BB 2 ILE B 171 LEU B 174 1 O VAL B 172 N ALA B 138 SHEET 1 BC 5 VAL B 179 VAL B 182 0 SHEET 2 BC 5 LEU B 185 ALA B 191 -1 O LEU B 185 N VAL B 182 SHEET 3 BC 5 THR B 201 GLU B 209 -1 O SER B 202 N VAL B 190 SHEET 4 BC 5 ASP B 212 TYR B 218 -1 O ASP B 212 N GLU B 209 SHEET 5 BC 5 ILE B 258 VAL B 260 1 O ILE B 258 N VAL B 217 SSBOND 1 CYS B 32 CYS B 66 1555 1555 2.06 SSBOND 2 CYS B 208 CYS B 213 1555 1555 2.12 SSBOND 3 CYS B 256 CYS B 290 1555 1555 2.10 LINK OD1 ASN B 98 MG MG B3231 1555 1555 2.61 LINK NE2 HIS B 116 ZN ZN B3228 1555 1555 2.05 LINK ND1 HIS B 118 ZN ZN B3228 1555 1555 2.06 LINK OD2 ASP B 120 ZN ZN B3229 1555 1555 2.12 LINK NE2 HIS B 121 ZN ZN B3229 1555 1555 2.03 LINK NE2 HIS B 196 ZN ZN B3228 1555 1555 2.04 LINK OG SER B 221 CA CA B3230 1555 1555 3.01 LINK NE2 HIS B 263 ZN ZN B3229 1555 1555 2.03 LINK ZN ZN B3228 O HOH B2149 1555 1555 1.93 LINK ZN ZN B3229 O HOH B2149 1555 1555 2.00 LINK ZN ZN B3229 O HOH B2150 1555 1555 2.34 LINK CA CA B3230 O HOH B2409 1555 1555 2.89 LINK MG MG B3231 O HOH B2025 1555 1555 2.92 LINK MG MG B3231 O HOH B2027 1555 1555 2.48 LINK MG MG B3232 O HOH B2370 1555 1555 2.72 LINK MG MG B3232 O HOH B2347 1555 1555 2.80 LINK CA CA B3234 O HOH B2275 1555 1555 2.48 LINK CA CA B3234 O HOH B2277 1555 1555 2.52 LINK CA CA B3234 O HOH B2339 1555 1555 2.42 LINK CA CA B3234 O HOH B2343 1555 1555 2.41 LINK CA CA B3234 O HOH B2339 1555 12575 2.41 LINK CA CA B3234 O HOH B2275 1555 12575 2.49 LINK CA CA B3234 O HOH B2277 1555 12575 2.53 LINK CA CA B3234 O HOH B2343 1555 12575 2.41 SITE 1 AC1 6 HIS B 116 HIS B 118 HIS B 196 HOH B2149 SITE 2 AC1 6 HOH B2150 ZN B3229 SITE 1 AC2 6 ASP B 120 HIS B 121 HIS B 263 HOH B2149 SITE 2 AC2 6 HOH B2150 ZN B3228 SITE 1 AC3 4 SER B 221 PRO B 262 HIS B 263 HOH B2409 SITE 1 AC4 5 ALA B 42 ASN B 98 HOH B2025 HOH B2027 SITE 2 AC4 5 HOH B2410 SITE 1 AC5 3 ALA B 266 HOH B2347 HOH B2370 SITE 1 AC6 3 GLY B 37 TRP B 38 HOH B2411 SITE 1 AC7 4 HOH B2275 HOH B2277 HOH B2339 HOH B2343 CRYST1 77.992 77.992 239.766 90.00 90.00 120.00 P 61 2 2 12 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 0.012822 0.007403 0.000000 0.00000 SCALE2 0.000000 0.014805 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004171 0.00000