HEADER HYDROLASE 31-MAY-06 2H6A TITLE CRYSTAL STRUCTURE OF THE ZINC-BETA-LACTAMASE L1 FROM STENOTROPHOMONAS TITLE 2 MALTOPHILIA (MONO ZINC FORM) COMPND MOL_ID: 1; COMPND 2 MOLECULE: METALLO-BETA-LACTAMASE L1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: BETA-LACTAMASE TYPE II, PENICILLINASE; COMPND 5 EC: 3.5.2.6; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STENOTROPHOMONAS MALTOPHILIA; SOURCE 3 ORGANISM_TAXID: 40324; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE, METALLO, ZN, LACTAMASE EXPDTA X-RAY DIFFRACTION AUTHOR L.NAUTON,G.GARAU,R.KAHN,O.DIDEBERG REVDAT 4 30-AUG-23 2H6A 1 REMARK REVDAT 3 24-FEB-09 2H6A 1 VERSN REVDAT 2 17-JUN-08 2H6A 1 JRNL REVDAT 1 17-APR-07 2H6A 0 JRNL AUTH L.NAUTON,R.KAHN,G.GARAU,J.F.HERNANDEZ,O.DIDEBERG JRNL TITL STRUCTURAL INSIGHTS INTO THE DESIGN OF INHIBITORS FOR THE L1 JRNL TITL 2 METALLO-BETA-LACTAMASE FROM STENOTROPHOMONAS MALTOPHILIA. JRNL REF J.MOL.BIOL. V. 375 257 2008 JRNL REFN ISSN 0022-2836 JRNL PMID 17999929 JRNL DOI 10.1016/J.JMB.2007.10.036 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.CARFI,S.PARES,E.DUEE,M.GALLENI,C.DUEZ,J.M.FRERE,O.DIDEBERG REMARK 1 TITL THE 3-D STRUCTURE OF A ZINC METALLO-BETA-LACTAMASE FROM REMARK 1 TITL 2 BACILLUS CEREUS REVEALS A NEW TYPE OF PROTEIN FOLD REMARK 1 REF EMBO J. V. 14 4914 1995 REMARK 1 REFN ISSN 0261-4189 REMARK 1 REFERENCE 2 REMARK 1 AUTH G.GARAU,C.BEBRONE,C.ANNE,M.GALLENI,J.M.FRERE,O.DIDEBERG REMARK 1 TITL A METALLO-BETA-LACTAMASE ENZYME IN ACTION: CRYSTAL REMARK 1 TITL 2 STRUCTURES OF THE MONOZINC CARBAPENEMASE CPHA AND ITS REMARK 1 TITL 3 COMPLEX WITH BIAPENEM REMARK 1 REF J.MOL.BIOL. V. 345 785 2005 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 1.80 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.74 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 54307 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2909 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3796 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.67 REMARK 3 BIN R VALUE (WORKING SET) : 0.2230 REMARK 3 BIN FREE R VALUE SET COUNT : 202 REMARK 3 BIN FREE R VALUE : 0.2780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4002 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 32 REMARK 3 SOLVENT ATOMS : 674 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.15 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.08000 REMARK 3 B22 (A**2) : 0.08000 REMARK 3 B33 (A**2) : -0.12000 REMARK 3 B12 (A**2) : 0.04000 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): 0.116 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.115 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.071 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.254 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.943 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4163 ; 0.012 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5666 ; 1.404 ; 1.959 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 523 ; 7.605 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 179 ;37.396 ;23.408 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 617 ;13.650 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 31 ;15.221 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 629 ; 0.091 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3169 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2315 ; 0.291 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2803 ; 0.309 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 613 ; 0.151 ; 0.200 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): 99 ; 0.211 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 82 ; 0.185 ; 0.200 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): 2706 ; 0.753 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4220 ; 1.211 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1632 ; 2.091 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1446 ; 3.343 ; 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: REMARK 3 HYDROGENS HAVE BEEN ADDED IN THE RIDING POSITIONS. REMARK 3 RESIDUE B THR 57 AND RESIDUE B GLU 67 ARE NOT LINKED. THE REMARK 3 BOND LENGTH OF THE C-N(B) BOND IS 1.77. ALSO, RESIDUE B ARG 276 REMARK 3 AND RESIDUE B ALA 289 ARE NOT LINKED. THE C(A)-N BOND IS 2.42. REMARK 4 REMARK 4 2H6A COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-JUN-06. REMARK 100 THE DEPOSITION ID IS D_1000037982. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 05-MAY-06 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54179 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : XENOCS MULTILAYERS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM, XDS REMARK 200 DATA SCALING SOFTWARE : SCALA, CCP4 (SCALA) REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 57235 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 19.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.7 REMARK 200 DATA REDUNDANCY : 6.600 REMARK 200 R MERGE (I) : 0.09600 REMARK 200 R SYM (I) : 0.09600 REMARK 200 FOR THE DATA SET : 5.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.7 REMARK 200 DATA REDUNDANCY IN SHELL : 5.80 REMARK 200 R MERGE FOR SHELL (I) : 0.46800 REMARK 200 R SYM FOR SHELL (I) : 0.37200 REMARK 200 FOR SHELL : 1.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CCP4 REMARK 200 STARTING MODEL: PDB ENTRY 1SML REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.50 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: AS, SOAKED CRYSTAL IN 5 ML DROP WITH REMARK 280 CRYSTALLIZATION CONDITIONS AND 0.005 M EDTA FOR 30 MINUTES, PH REMARK 280 7.50, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 280K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 62 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z REMARK 290 5555 Y,-X+Y,Z+2/3 REMARK 290 6555 X-Y,X,Z+1/3 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+2/3 REMARK 290 11555 -X+Y,Y,-Z REMARK 290 12555 X,X-Y,-Z+1/3 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 130.49333 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 65.24667 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 0.00000 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 130.49333 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 65.24667 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 130.49333 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 65.24667 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 130.49333 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 0.00000 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 65.24667 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 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 HOH A1352 LIES ON A SPECIAL POSITION. REMARK 375 HOH B1380 LIES ON A SPECIAL POSITION. 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 ALA A 23 REMARK 465 ALA A 318 REMARK 465 ARG A 319 REMARK 465 ALA B 23 REMARK 465 ALA B 318 REMARK 465 ARG B 319 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 THR A 57 C GLU A 67 N 0.185 REMARK 500 MET A 87 C PRO A 89 N 0.189 REMARK 500 PHE A 191 C MET A 193 N 0.144 REMARK 500 LEU A 222 C SER A 225 N 0.148 REMARK 500 ARG A 276 C ALA A 289 N 0.258 REMARK 500 MET B 87 C PRO B 89 N 0.208 REMARK 500 GLY B 157 C ASP B 160 N 0.198 REMARK 500 PRO B 166 C ALA B 168 N 0.203 REMARK 500 LEU B 222 C SER B 225 N 0.166 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 GLY B 157 O - C - N ANGL. DEV. = -12.2 DEGREES REMARK 500 PRO B 166 O - C - N ANGL. DEV. = 9.8 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 VAL A 25 85.27 176.31 REMARK 500 ASP A 84 157.57 69.66 REMARK 500 ALA A 117 51.36 -93.89 REMARK 500 ASP A 207 -165.34 -112.07 REMARK 500 CYS A 256 70.66 -157.71 REMARK 500 ASP B 84 153.52 69.84 REMARK 500 ALA B 117 49.04 -88.34 REMARK 500 ASP B 207 -163.85 -108.46 REMARK 500 TYR B 237 69.50 -151.55 REMARK 500 CYS B 256 70.98 -154.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 24 VAL A 25 -97.99 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 LEU A 222 -15.46 REMARK 500 GLY B 157 -12.78 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 ZN A 320 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 116 NE2 REMARK 620 2 HIS A 118 ND1 94.0 REMARK 620 3 HIS A 196 NE2 97.2 108.4 REMARK 620 4 HOH A1308 O 172.6 92.4 84.3 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN B 321 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 116 NE2 REMARK 620 2 HIS B 118 ND1 97.1 REMARK 620 3 HIS B 196 NE2 98.7 109.2 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 320 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN B 321 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1106 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2FM6 RELATED DB: PDB REMARK 900 NATIVE FORM REMARK 900 RELATED ID: 2FU7 RELATED DB: PDB REMARK 900 CU-SUBSTITUTED FORM REMARK 900 RELATED ID: 2FU8 RELATED DB: PDB REMARK 900 D-CAPTOPRIL COMPLEX REMARK 900 RELATED ID: 2FU9 RELATED DB: PDB REMARK 900 MP2 INHIBITOR COMPLEX REMARK 900 RELATED ID: 2GFJ RELATED DB: PDB REMARK 900 INHIBITOR 1 COMPLEX REMARK 900 RELATED ID: 2GFK RELATED DB: PDB REMARK 900 INHIBITOR 2 COMPLEX REMARK 999 REMARK 999 SEQUENCE REMARK 999 THESE COORDINATES CONTAIN NON-SEQUENTIAL RESIDUE NUMBERING. REMARK 999 MANY NUMBERS WERE SIMPLY SKIPPED IN THE NUMBERING REMARK 999 AND HAVE NOTHING TO DO WITH LACK OF ELECTRON DENSITY (SEE REMARK 999 REFERENCE 1). REMARK 999 RESIDUE B THR 57 AND RESIDUE B GLU 67 ARE NOT LINKED. THE REMARK 999 LENGTH OF THE C-N(B) BOND IS 1.77A. ALSO, RESIDUE B ARG 276 REMARK 999 AND RESIDUE B ALA 289 ARE NOT LINKED. THE C(A)-N BOND IS REMARK 999 2.42A. DBREF 2H6A A 23 319 UNP P52700 BLA1_XANMA 22 290 DBREF 2H6A B 23 319 UNP P52700 BLA1_XANMA 22 290 SEQRES 1 A 269 ALA GLU VAL PRO LEU PRO GLN LEU ARG ALA TYR THR VAL SEQRES 2 A 269 ASP ALA SER TRP LEU GLN PRO MET ALA PRO LEU GLN ILE SEQRES 3 A 269 ALA ASP HIS THR TRP GLN ILE GLY THR GLU ASP LEU THR SEQRES 4 A 269 ALA LEU LEU VAL GLN THR PRO ASP GLY ALA VAL LEU LEU SEQRES 5 A 269 ASP GLY GLY MET PRO GLN MET ALA SER HIS LEU LEU ASP SEQRES 6 A 269 ASN MET LYS ALA ARG GLY VAL THR PRO ARG ASP LEU ARG SEQRES 7 A 269 LEU ILE LEU LEU SER HIS ALA HIS ALA ASP HIS ALA GLY SEQRES 8 A 269 PRO VAL ALA GLU LEU LYS ARG ARG THR GLY ALA LYS VAL SEQRES 9 A 269 ALA ALA ASN ALA GLU SER ALA VAL LEU LEU ALA ARG GLY SEQRES 10 A 269 GLY SER ASP ASP LEU HIS PHE GLY ASP GLY ILE THR TYR SEQRES 11 A 269 PRO PRO ALA ASN ALA ASP ARG ILE VAL MET ASP GLY GLU SEQRES 12 A 269 VAL ILE THR VAL GLY GLY ILE VAL PHE THR ALA HIS PHE SEQRES 13 A 269 MET ALA GLY HIS THR PRO GLY SER THR ALA TRP THR TRP SEQRES 14 A 269 THR ASP THR ARG ASN GLY LYS PRO VAL ARG ILE ALA TYR SEQRES 15 A 269 ALA ASP SER LEU SER ALA PRO GLY TYR GLN LEU GLN GLY SEQRES 16 A 269 ASN PRO ARG TYR PRO HIS LEU ILE GLU ASP TYR ARG ARG SEQRES 17 A 269 SER PHE ALA THR VAL ARG ALA LEU PRO CYS ASP VAL LEU SEQRES 18 A 269 LEU THR PRO HIS PRO GLY ALA SER ASN TRP ASP TYR ALA SEQRES 19 A 269 ALA GLY ALA ARG ALA GLY ALA LYS ALA LEU THR CYS LYS SEQRES 20 A 269 ALA TYR ALA ASP ALA ALA GLU GLN LYS PHE ASP GLY GLN SEQRES 21 A 269 LEU ALA LYS GLU THR ALA GLY ALA ARG SEQRES 1 B 269 ALA GLU VAL PRO LEU PRO GLN LEU ARG ALA TYR THR VAL SEQRES 2 B 269 ASP ALA SER TRP LEU GLN PRO MET ALA PRO LEU GLN ILE SEQRES 3 B 269 ALA ASP HIS THR TRP GLN ILE GLY THR GLU ASP LEU THR SEQRES 4 B 269 ALA LEU LEU VAL GLN THR PRO ASP GLY ALA VAL LEU LEU SEQRES 5 B 269 ASP GLY GLY MET PRO GLN MET ALA SER HIS LEU LEU ASP SEQRES 6 B 269 ASN MET LYS ALA ARG GLY VAL THR PRO ARG ASP LEU ARG SEQRES 7 B 269 LEU ILE LEU LEU SER HIS ALA HIS ALA ASP HIS ALA GLY SEQRES 8 B 269 PRO VAL ALA GLU LEU LYS ARG ARG THR GLY ALA LYS VAL SEQRES 9 B 269 ALA ALA ASN ALA GLU SER ALA VAL LEU LEU ALA ARG GLY SEQRES 10 B 269 GLY SER ASP ASP LEU HIS PHE GLY ASP GLY ILE THR TYR SEQRES 11 B 269 PRO PRO ALA ASN ALA ASP ARG ILE VAL MET ASP GLY GLU SEQRES 12 B 269 VAL ILE THR VAL GLY GLY ILE VAL PHE THR ALA HIS PHE SEQRES 13 B 269 MET ALA GLY HIS THR PRO GLY SER THR ALA TRP THR TRP SEQRES 14 B 269 THR ASP THR ARG ASN GLY LYS PRO VAL ARG ILE ALA TYR SEQRES 15 B 269 ALA ASP SER LEU SER ALA PRO GLY TYR GLN LEU GLN GLY SEQRES 16 B 269 ASN PRO ARG TYR PRO HIS LEU ILE GLU ASP TYR ARG ARG SEQRES 17 B 269 SER PHE ALA THR VAL ARG ALA LEU PRO CYS ASP VAL LEU SEQRES 18 B 269 LEU THR PRO HIS PRO GLY ALA SER ASN TRP ASP TYR ALA SEQRES 19 B 269 ALA GLY ALA ARG ALA GLY ALA LYS ALA LEU THR CYS LYS SEQRES 20 B 269 ALA TYR ALA ASP ALA ALA GLU GLN LYS PHE ASP GLY GLN SEQRES 21 B 269 LEU ALA LYS GLU THR ALA GLY ALA ARG HET ZN A 320 1 HET SO4 A1102 5 HET SO4 A1103 5 HET SO4 A1104 5 HET SO4 A1106 5 HET ZN B 321 1 HET SO4 B1101 5 HET SO4 B1105 5 HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION FORMUL 3 ZN 2(ZN 2+) FORMUL 4 SO4 6(O4 S 2-) FORMUL 11 HOH *674(H2 O) HELIX 1 1 ASP A 36 GLN A 41 5 6 HELIX 2 2 MET A 87 GLN A 90 5 3 HELIX 3 3 MET A 91 ARG A 102 1 12 HELIX 4 4 THR A 105 ARG A 107 5 3 HELIX 5 5 HIS A 118 GLY A 123 1 6 HELIX 6 6 PRO A 124 THR A 132 1 9 HELIX 7 7 ASN A 139 ARG A 148 1 10 HELIX 8 8 HIS A 239 ALA A 253 1 15 HELIX 9 9 HIS A 263 ASN A 268 5 6 HELIX 10 10 ALA A 273 ALA A 289 5 5 HELIX 11 11 THR A 295 GLY A 317 1 23 HELIX 12 12 ASP B 36 GLN B 41 5 6 HELIX 13 13 MET B 87 GLN B 90 5 3 HELIX 14 14 MET B 91 ARG B 102 1 12 HELIX 15 15 THR B 105 ARG B 107 5 3 HELIX 16 16 HIS B 118 GLY B 123 1 6 HELIX 17 17 PRO B 124 THR B 132 1 9 HELIX 18 18 ASN B 139 ARG B 148 1 10 HELIX 19 19 HIS B 239 ALA B 253 1 15 HELIX 20 20 HIS B 263 ASN B 268 5 6 HELIX 21 21 ALA B 273 ALA B 289 5 5 HELIX 22 22 THR B 295 ALA B 316 1 22 SHEET 1 A 7 LEU A 46 ALA A 49 0 SHEET 2 A 7 THR A 52 GLN A 54 -1 O GLN A 54 N LEU A 46 SHEET 3 A 7 LEU A 72 THR A 76 -1 O LEU A 73 N TRP A 53 SHEET 4 A 7 GLY A 79 LEU A 83 -1 O VAL A 81 N VAL A 74 SHEET 5 A 7 LEU A 109 LEU A 113 1 O LEU A 113 N LEU A 82 SHEET 6 A 7 LYS A 135 ALA A 138 1 O LYS A 135 N ILE A 112 SHEET 7 A 7 ARG A 172 ILE A 173 1 O ARG A 172 N ALA A 138 SHEET 1 B 5 VAL A 179 VAL A 182 0 SHEET 2 B 5 ILE A 185 PHE A 191 -1 O PHE A 187 N ILE A 180 SHEET 3 B 5 THR A 201 ARG A 209 -1 O ALA A 202 N HIS A 190 SHEET 4 B 5 LYS A 212 TYR A 218 -1 O VAL A 214 N ASP A 207 SHEET 5 B 5 VAL A 258 LEU A 260 1 O VAL A 258 N ALA A 217 SHEET 1 C 7 LEU B 46 GLN B 47 0 SHEET 2 C 7 THR B 52 GLN B 54 -1 O GLN B 54 N LEU B 46 SHEET 3 C 7 LEU B 72 THR B 76 -1 O LEU B 73 N TRP B 53 SHEET 4 C 7 GLY B 79 LEU B 83 -1 O VAL B 81 N VAL B 74 SHEET 5 C 7 LEU B 109 LEU B 113 1 O LEU B 113 N LEU B 82 SHEET 6 C 7 LYS B 135 ALA B 138 1 O LYS B 135 N ILE B 112 SHEET 7 C 7 ARG B 172 ILE B 173 1 O ARG B 172 N ALA B 138 SHEET 1 D 5 VAL B 179 VAL B 182 0 SHEET 2 D 5 ILE B 185 PHE B 191 -1 O PHE B 187 N ILE B 180 SHEET 3 D 5 THR B 201 ARG B 209 -1 O ALA B 202 N HIS B 190 SHEET 4 D 5 LYS B 212 TYR B 218 -1 O TYR B 218 N TRP B 203 SHEET 5 D 5 VAL B 258 LEU B 260 1 O LEU B 260 N ALA B 217 SSBOND 1 CYS A 256 CYS A 296 1555 1555 2.06 SSBOND 2 CYS B 256 CYS B 296 1555 1555 2.06 LINK NE2 HIS A 116 ZN ZN A 320 1555 1555 2.17 LINK ND1 HIS A 118 ZN ZN A 320 1555 1555 2.10 LINK NE2 HIS A 196 ZN ZN A 320 1555 1555 2.07 LINK ZN ZN A 320 O HOH A1308 1555 1555 2.35 LINK NE2 HIS B 116 ZN ZN B 321 1555 1555 2.10 LINK ND1 HIS B 118 ZN ZN B 321 1555 1555 2.14 LINK NE2 HIS B 196 ZN ZN B 321 1555 1555 2.11 SITE 1 AC1 6 HIS A 116 HIS A 118 HIS A 196 SO4 A1106 SITE 2 AC1 6 HOH A1308 HOH A1311 SITE 1 AC2 6 HIS B 116 HIS B 118 HIS B 196 SO4 B1105 SITE 2 AC2 6 HOH B1296 HOH B1313 SITE 1 AC3 7 ARG B 172 VAL B 179 ILE B 180 THR B 181 SITE 2 AC3 7 HOH B1171 HOH B1307 HOH B1319 SITE 1 AC4 5 ARG A 172 VAL A 179 ILE A 180 THR A 181 SITE 2 AC4 5 HOH A1316 SITE 1 AC5 3 ARG A 102 HOH A1158 HOH A1212 SITE 1 AC6 10 ARG A 209 ALA A 275 ARG A 276 ALA A 289 SITE 2 AC6 10 GLY A 290 ALA A 291 HOH A1274 HOH A1288 SITE 3 AC6 10 HOH A1298 HOH B1419 SITE 1 AC7 11 HIS B 196 SER B 221 SER B 225 PRO B 227 SITE 2 AC7 11 HIS B 263 ZN B 321 HOH B1296 HOH B1298 SITE 3 AC7 11 HOH B1313 HOH B1347 HOH B1355 SITE 1 AC8 12 HIS A 196 SER A 221 SER A 225 PRO A 227 SITE 2 AC8 12 HIS A 263 ZN A 320 HOH A1194 HOH A1308 SITE 3 AC8 12 HOH A1310 HOH A1311 HOH A1389 HOH A1424 CRYST1 104.220 104.220 195.740 90.00 90.00 120.00 P 62 2 2 24 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 0.009595 0.005540 0.000000 0.00000 SCALE2 0.000000 0.011079 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005109 0.00000