HEADER HYDROLASE 10-AUG-07 2Z71 TITLE STRUCTURE OF TRUNCATED MUTANT CYS1GLY OF PENICILLIN V ACYLASE FROM TITLE 2 BACILLUS SPHAERICUS CO-CRYSTALLIZED WITH PENICILLIN V COMPND MOL_ID: 1; COMPND 2 MOLECULE: PENICILLIN ACYLASE; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: PENICILLIN V AMIDASE, PVA; COMPND 5 EC: 3.5.1.11; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS SPHAERICUS; SOURCE 3 STRAIN: NCIM 2478; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ZYMOGEN, HYDROLASE, PRECURSOR, PENICILLIN, AUTOPROTEOLYSIS, KEYWDS 2 ANTIBIOTIC RESISTANCE, CATALYSIS, PENICILLIN V ACYLASE EXPDTA X-RAY DIFFRACTION AUTHOR M.C.PATHAK,J.BRANNIGAN,G.G.DODSON,C.G.SURESH REVDAT 4 01-NOV-23 2Z71 1 REMARK REVDAT 3 10-NOV-21 2Z71 1 REMARK SEQADV REVDAT 2 24-FEB-09 2Z71 1 VERSN REVDAT 1 26-AUG-08 2Z71 0 JRNL AUTH M.C.PATHAK,J.BRANNIGAN,G.G.DODSON,C.G.SURESH JRNL TITL STUDIES ON THE CATALYSIS AND POST TRANSLATIONAL PROCESSING JRNL TITL 2 OF PENICILLIN V ACYLASE JRNL REF TO BE PUBLISHED JRNL REFN REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.C.PATHAK,J.BRANNIGAN,G.G.DODSON,C.G.SURESH REMARK 1 TITL AUTO-PROTEOLYTIC PROCESSING OF PENICILLIN V ACYLASE IS REMARK 1 TITL 2 SIMPLER THAN OF OTHER RELATED NTN HYDROLASES REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 1 REFERENCE 2 REMARK 1 AUTH M.C.PATHAK,J.BRANNIGAN,G.G.DODSON,C.G.SURESH REMARK 1 TITL CO-CRYSTAL STRUCTURE OF PENICILLIN V ACYLASE WITH SUBSTRATE REMARK 1 TITL 2 PENICILLIN V: INSIGHT IN TO CATALYTIC SPECIFICITY REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 1 REFERENCE 3 REMARK 1 AUTH M.C.PATHAK,J.BRANNIGAN,G.G.DODSON,C.G.SURESH REMARK 1 TITL POLYMORPHISM SHOWN BY THE CRYSTALS OF PENICILLIN V ACYALSE REMARK 1 TITL 2 FROM BACILLUS SPHAERICUS REMARK 1 REF TO BE PUBLISHED REMARK 1 REFN REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 89.7 REMARK 3 NUMBER OF REFLECTIONS : 24808 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) : 0.240 REMARK 3 R VALUE (WORKING SET) : 0.239 REMARK 3 FREE R VALUE : 0.270 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1320 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1362 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3100 REMARK 3 BIN FREE R VALUE SET COUNT : 76 REMARK 3 BIN FREE R VALUE : 0.3680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5161 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 51 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.58000 REMARK 3 B22 (A**2) : -9.21000 REMARK 3 B33 (A**2) : 11.79000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.743 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.339 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.280 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 13.545 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.936 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.914 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5251 ; 0.054 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 7139 ; 0.979 ; 1.957 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 659 ; 9.591 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 814 ; 0.178 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3953 ; 0.019 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2565 ; 0.286 ; 0.200 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): 206 ; 0.196 ; 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): 64 ; 0.231 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 5 ; 0.134 ; 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): 3278 ; 1.717 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 5328 ; 2.682 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1973 ; 4.019 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1811 ; 5.547 ; 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 : BABINET MODEL WITH 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: NULL REMARK 4 REMARK 4 2Z71 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-AUG-07. REMARK 100 THE DEPOSITION ID IS D_1000027601. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-MAR-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.933 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 28157 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 89.6 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL 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: AMORE REMARK 200 STARTING MODEL: 2PVA REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 60.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.4, VAPOR DIFFUSION, HANGING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 45.37100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.37100 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 1.000000 0.000000 0.000000 64.86500 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 79.44500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 64.86500 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 79.44500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 45.37100 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 64.86500 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 79.44500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 45.37100 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 64.86500 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 79.44500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 21580 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 44970 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -122.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C 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 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 45.37100 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 VAL A 331 REMARK 465 ASN A 332 REMARK 465 VAL A 333 REMARK 465 MET A 334 REMARK 465 SER A 335 REMARK 465 ASN C 332 REMARK 465 VAL C 333 REMARK 465 MET C 334 REMARK 465 SER C 335 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 ARG A 7 CZ ARG A 7 NH1 0.078 REMARK 500 LYS A 12 CE LYS A 12 NZ 0.180 REMARK 500 ARG A 17 CA ARG A 17 CB -0.136 REMARK 500 PHE A 21 CE1 PHE A 21 CZ 0.121 REMARK 500 ARG A 39 NE ARG A 39 CZ 0.081 REMARK 500 SER A 51 CB SER A 51 OG 0.100 REMARK 500 GLU A 73 CD GLU A 73 OE1 0.080 REMARK 500 TYR A 89 CE1 TYR A 89 CZ -0.082 REMARK 500 TYR A 104 CZ TYR A 104 CE2 -0.106 REMARK 500 VAL A 109 CB VAL A 109 CG1 -0.138 REMARK 500 GLU A 121 CD GLU A 121 OE2 0.083 REMARK 500 ALA A 139 CA ALA A 139 CB 0.138 REMARK 500 GLU A 180 CD GLU A 180 OE2 0.072 REMARK 500 PHE A 210 CB PHE A 210 CG -0.125 REMARK 500 GLY A 216 C GLY A 216 O -0.105 REMARK 500 LYS A 243 CD LYS A 243 CE 0.191 REMARK 500 GLU A 245 CD GLU A 245 OE2 0.104 REMARK 500 ALA A 284 CA ALA A 284 CB -0.225 REMARK 500 ASP A 295 CB ASP A 295 CG 0.131 REMARK 500 ILE C 6 C ILE C 6 O 0.143 REMARK 500 VAL C 29 CB VAL C 29 CG2 -0.150 REMARK 500 GLU C 73 CD GLU C 73 OE1 0.074 REMARK 500 LEU C 76 C LEU C 76 O 0.115 REMARK 500 ALA C 79 CA ALA C 79 CB -0.166 REMARK 500 GLU C 92 CD GLU C 92 OE2 0.076 REMARK 500 TYR C 104 CZ TYR C 104 CE2 -0.098 REMARK 500 VAL C 105 CB VAL C 105 CG1 0.145 REMARK 500 GLY C 111 CA GLY C 111 C 0.105 REMARK 500 TYR C 126 CE2 TYR C 126 CD2 0.094 REMARK 500 LYS C 160 CG LYS C 160 CD 0.210 REMARK 500 GLU C 180 CG GLU C 180 CD 0.125 REMARK 500 GLU C 180 CD GLU C 180 OE1 0.070 REMARK 500 TRP C 181 CB TRP C 181 CG 0.150 REMARK 500 LEU C 186 C LEU C 186 O -0.137 REMARK 500 TYR C 189 CZ TYR C 189 CE2 -0.082 REMARK 500 SER C 226 CB SER C 226 OG -0.091 REMARK 500 ARG C 228 CD ARG C 228 NE 0.114 REMARK 500 PHE C 229 CZ PHE C 229 CE2 -0.122 REMARK 500 GLU C 247 CD GLU C 247 OE1 0.127 REMARK 500 MET C 282 CG MET C 282 SD 0.196 REMARK 500 TYR C 290 CG TYR C 290 CD1 -0.094 REMARK 500 LYS C 292 CB LYS C 292 CG -0.204 REMARK 500 GLU C 318 CD GLU C 318 OE2 0.121 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 ARG A 98 C - N - CA ANGL. DEV. = -24.3 DEGREES REMARK 500 ARG A 98 CD - NE - CZ ANGL. DEV. = -9.3 DEGREES REMARK 500 ARG A 98 CA - C - N ANGL. DEV. = -13.7 DEGREES REMARK 500 MET A 305 CB - CA - C ANGL. DEV. = 27.1 DEGREES REMARK 500 ASN A 310 O - C - N ANGL. DEV. = -9.7 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 A 10 41.65 -103.67 REMARK 500 THR A 22 45.63 -101.12 REMARK 500 MET A 23 116.19 110.53 REMARK 500 ASP A 26 -175.54 62.56 REMARK 500 SER A 27 103.90 106.02 REMARK 500 ARG A 39 170.52 -58.71 REMARK 500 THR A 60 34.69 -163.26 REMARK 500 ILE A 62 -86.71 -91.87 REMARK 500 THR A 63 -27.19 -162.95 REMARK 500 TYR A 82 172.83 -54.13 REMARK 500 TYR A 83 60.92 -177.65 REMARK 500 THR A 85 -8.12 64.42 REMARK 500 PRO A 93 164.06 -45.71 REMARK 500 VAL A 114 -51.44 -121.23 REMARK 500 ASN A 130 59.38 -94.59 REMARK 500 LEU A 136 -50.40 -121.71 REMARK 500 PRO A 141 108.64 -49.72 REMARK 500 THR A 174 -99.13 -116.97 REMARK 500 ASN A 175 -155.72 -138.70 REMARK 500 PRO A 177 -153.59 -96.77 REMARK 500 LEU A 186 -39.19 -29.84 REMARK 500 ASP A 222 -177.08 -60.54 REMARK 500 THR A 224 138.15 -35.35 REMARK 500 SER A 258 -18.72 -47.48 REMARK 500 ALA A 306 55.26 -90.40 REMARK 500 ASN A 308 94.67 -69.66 REMARK 500 GLU A 318 90.02 87.61 REMARK 500 ASP C 10 37.67 -85.02 REMARK 500 MET C 23 142.11 165.03 REMARK 500 ASP C 69 158.50 176.11 REMARK 500 VAL C 71 118.77 -160.28 REMARK 500 TYR C 83 64.78 -154.98 REMARK 500 THR C 85 -16.23 65.16 REMARK 500 LEU C 123 53.31 -91.20 REMARK 500 ASN C 130 47.39 -84.39 REMARK 500 THR C 169 161.51 -48.51 REMARK 500 THR C 174 -123.28 -124.46 REMARK 500 ASN C 175 -153.59 -116.36 REMARK 500 PRO C 177 -151.50 -87.15 REMARK 500 THR C 239 154.87 -44.86 REMARK 500 MET C 305 13.12 -67.51 REMARK 500 ARG C 321 42.59 -81.66 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 44 ASN A 45 -145.10 REMARK 500 ARG A 98 GLY A 99 -143.28 REMARK 500 ASN A 310 SER A 311 -62.25 REMARK 500 PHE A 317 GLU A 318 42.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG A 98 0.10 SIDE CHAIN 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 ARG A 98 12.56 REMARK 500 ASN A 310 -11.92 REMARK 500 SER A 311 10.64 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 PNV A 903 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PNV C 904 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2PVA RELATED DB: PDB REMARK 900 RELATED ID: 3PVA RELATED DB: PDB REMARK 900 RELATED ID: 2IWM RELATED DB: PDB REMARK 900 RELATED ID: 2QUY RELATED DB: PDB DBREF 2Z71 A 1 335 UNP P12256 PAC_BACSH 4 338 DBREF 2Z71 C 1 335 UNP P12256 PAC_BACSH 4 338 SEQADV 2Z71 GLY A 1 UNP P12256 CYS 4 ENGINEERED MUTATION SEQADV 2Z71 ARG A 98 UNP P12256 THR 101 CONFLICT SEQADV 2Z71 GLY C 1 UNP P12256 CYS 4 ENGINEERED MUTATION SEQADV 2Z71 ARG C 98 UNP P12256 THR 101 CONFLICT SEQRES 1 A 335 GLY SER SER LEU SER ILE ARG THR THR ASP ASP LYS SER SEQRES 2 A 335 LEU PHE ALA ARG THR MET ASP PHE THR MET GLU PRO ASP SEQRES 3 A 335 SER LYS VAL ILE ILE VAL PRO ARG ASN TYR GLY ILE ARG SEQRES 4 A 335 LEU LEU GLU LYS GLU ASN VAL VAL ILE ASN ASN SER TYR SEQRES 5 A 335 ALA PHE VAL GLY MET GLY SER THR ASP ILE THR SER PRO SEQRES 6 A 335 VAL LEU TYR ASP GLY VAL ASN GLU LYS GLY LEU MET GLY SEQRES 7 A 335 ALA MET LEU TYR TYR ALA THR PHE ALA THR TYR ALA ASP SEQRES 8 A 335 GLU PRO LYS LYS GLY THR ARG GLY ILE ASN PRO VAL TYR SEQRES 9 A 335 VAL ILE SER GLN VAL LEU GLY ASN CYS VAL THR VAL ASP SEQRES 10 A 335 ASP VAL ILE GLU LYS LEU THR SER TYR THR LEU LEU ASN SEQRES 11 A 335 GLU ALA ASN ILE ILE LEU GLY PHE ALA PRO PRO LEU HIS SEQRES 12 A 335 TYR THR PHE THR ASP ALA SER GLY GLU SER ILE VAL ILE SEQRES 13 A 335 GLU PRO ASP LYS THR GLY ILE THR ILE HIS ARG LYS THR SEQRES 14 A 335 ILE GLY VAL MET THR ASN SER PRO GLY TYR GLU TRP HIS SEQRES 15 A 335 GLN THR ASN LEU ARG ALA TYR ILE GLY VAL THR PRO ASN SEQRES 16 A 335 PRO PRO GLN ASP ILE MET MET GLY ASP LEU ASP LEU THR SEQRES 17 A 335 PRO PHE GLY GLN GLY ALA GLY GLY LEU GLY LEU PRO GLY SEQRES 18 A 335 ASP PHE THR PRO SER ALA ARG PHE LEU ARG VAL ALA TYR SEQRES 19 A 335 TRP LYS LYS TYR THR GLU LYS ALA LYS ASN GLU THR GLU SEQRES 20 A 335 GLY VAL THR ASN LEU PHE HIS ILE LEU SER SER VAL ASN SEQRES 21 A 335 ILE PRO LYS GLY VAL VAL LEU THR ASN GLU GLY LYS THR SEQRES 22 A 335 ASP TYR THR ILE TYR THR SER ALA MET CYS ALA GLN SER SEQRES 23 A 335 LYS ASN TYR TYR PHE LYS LEU TYR ASP ASN SER ARG ILE SEQRES 24 A 335 SER ALA VAL SER LEU MET ALA GLU ASN LEU ASN SER GLN SEQRES 25 A 335 ASP LEU ILE THR PHE GLU TRP ASP ARG LYS GLN ASP ILE SEQRES 26 A 335 LYS GLN LEU ASN GLN VAL ASN VAL MET SER SEQRES 1 C 335 GLY SER SER LEU SER ILE ARG THR THR ASP ASP LYS SER SEQRES 2 C 335 LEU PHE ALA ARG THR MET ASP PHE THR MET GLU PRO ASP SEQRES 3 C 335 SER LYS VAL ILE ILE VAL PRO ARG ASN TYR GLY ILE ARG SEQRES 4 C 335 LEU LEU GLU LYS GLU ASN VAL VAL ILE ASN ASN SER TYR SEQRES 5 C 335 ALA PHE VAL GLY MET GLY SER THR ASP ILE THR SER PRO SEQRES 6 C 335 VAL LEU TYR ASP GLY VAL ASN GLU LYS GLY LEU MET GLY SEQRES 7 C 335 ALA MET LEU TYR TYR ALA THR PHE ALA THR TYR ALA ASP SEQRES 8 C 335 GLU PRO LYS LYS GLY THR ARG GLY ILE ASN PRO VAL TYR SEQRES 9 C 335 VAL ILE SER GLN VAL LEU GLY ASN CYS VAL THR VAL ASP SEQRES 10 C 335 ASP VAL ILE GLU LYS LEU THR SER TYR THR LEU LEU ASN SEQRES 11 C 335 GLU ALA ASN ILE ILE LEU GLY PHE ALA PRO PRO LEU HIS SEQRES 12 C 335 TYR THR PHE THR ASP ALA SER GLY GLU SER ILE VAL ILE SEQRES 13 C 335 GLU PRO ASP LYS THR GLY ILE THR ILE HIS ARG LYS THR SEQRES 14 C 335 ILE GLY VAL MET THR ASN SER PRO GLY TYR GLU TRP HIS SEQRES 15 C 335 GLN THR ASN LEU ARG ALA TYR ILE GLY VAL THR PRO ASN SEQRES 16 C 335 PRO PRO GLN ASP ILE MET MET GLY ASP LEU ASP LEU THR SEQRES 17 C 335 PRO PHE GLY GLN GLY ALA GLY GLY LEU GLY LEU PRO GLY SEQRES 18 C 335 ASP PHE THR PRO SER ALA ARG PHE LEU ARG VAL ALA TYR SEQRES 19 C 335 TRP LYS LYS TYR THR GLU LYS ALA LYS ASN GLU THR GLU SEQRES 20 C 335 GLY VAL THR ASN LEU PHE HIS ILE LEU SER SER VAL ASN SEQRES 21 C 335 ILE PRO LYS GLY VAL VAL LEU THR ASN GLU GLY LYS THR SEQRES 22 C 335 ASP TYR THR ILE TYR THR SER ALA MET CYS ALA GLN SER SEQRES 23 C 335 LYS ASN TYR TYR PHE LYS LEU TYR ASP ASN SER ARG ILE SEQRES 24 C 335 SER ALA VAL SER LEU MET ALA GLU ASN LEU ASN SER GLN SEQRES 25 C 335 ASP LEU ILE THR PHE GLU TRP ASP ARG LYS GLN ASP ILE SEQRES 26 C 335 LYS GLN LEU ASN GLN VAL ASN VAL MET SER HET PNV A 903 24 HET PNV C 904 24 HETNAM PNV (2S,5R,6R)-3,3-DIMETHYL-7-OXO-6-(2-PHENOXYACETAMIDO)-4- HETNAM 2 PNV THIA-1- AZABICYCLO(3.2.0)HEPTANE-2-CARBOXYLIC ACID HETSYN PNV PENICILLIN V FORMUL 3 PNV 2(C16 H18 N2 O5 S) FORMUL 5 HOH *51(H2 O) HELIX 1 1 ASN A 101 VAL A 103 5 3 HELIX 2 2 TYR A 104 CYS A 113 1 10 HELIX 3 3 VAL A 116 LEU A 123 1 8 HELIX 4 4 GLY A 178 LEU A 186 1 9 HELIX 5 5 ARG A 187 ILE A 190 5 4 HELIX 6 6 GLY A 213 LEU A 217 5 5 HELIX 7 7 THR A 224 THR A 239 1 16 HELIX 8 8 ASN A 244 SER A 258 1 15 HELIX 9 9 ASN C 101 VAL C 103 5 3 HELIX 10 10 TYR C 104 CYS C 113 1 10 HELIX 11 11 THR C 115 LEU C 123 1 9 HELIX 12 12 GLY C 178 LEU C 186 1 9 HELIX 13 13 ARG C 187 ILE C 190 5 4 HELIX 14 14 THR C 224 THR C 239 1 16 HELIX 15 15 ASN C 244 SER C 258 1 15 SHEET 1 A 7 VAL A 172 MET A 173 0 SHEET 2 A 7 SER A 2 ARG A 7 -1 N SER A 3 O MET A 173 SHEET 3 A 7 SER A 13 PHE A 21 -1 O THR A 18 N SER A 2 SHEET 4 A 7 TYR A 275 CYS A 283 -1 O MET A 282 N PHE A 15 SHEET 5 A 7 ASN A 288 LEU A 293 -1 O TYR A 290 N ALA A 281 SHEET 6 A 7 ASN A 296 SER A 303 -1 O SER A 300 N PHE A 291 SHEET 7 A 7 LYS C 326 GLN C 327 1 O LYS C 326 N ALA A 301 SHEET 1 B 8 ILE A 163 HIS A 166 0 SHEET 2 B 8 SER A 153 PRO A 158 -1 N GLU A 157 O THR A 164 SHEET 3 B 8 LEU A 142 THR A 147 -1 N TYR A 144 O ILE A 156 SHEET 4 B 8 MET A 77 TYR A 82 -1 N MET A 77 O THR A 147 SHEET 5 B 8 VAL A 66 ASN A 72 -1 N GLY A 70 O GLY A 78 SHEET 6 B 8 PHE A 54 SER A 59 -1 N MET A 57 O TYR A 68 SHEET 7 B 8 LYS A 28 VAL A 32 -1 N LYS A 28 O GLY A 58 SHEET 8 B 8 ILE A 315 PHE A 317 -1 O PHE A 317 N VAL A 29 SHEET 1 C 2 GLY A 37 ARG A 39 0 SHEET 2 C 2 VAL A 47 ASN A 49 -1 O ILE A 48 N ILE A 38 SHEET 1 D 2 ARG A 98 ILE A 100 0 SHEET 2 D 2 TYR A 126 LEU A 128 1 O THR A 127 N ILE A 100 SHEET 1 E 2 ILE A 200 MET A 202 0 SHEET 2 E 2 LEU A 205 LEU A 207 -1 O LEU A 207 N ILE A 200 SHEET 1 F 7 LYS A 326 GLN A 327 0 SHEET 2 F 7 SER C 300 SER C 303 1 O ALA C 301 N LYS A 326 SHEET 3 F 7 ASN C 288 LEU C 293 -1 N PHE C 291 O SER C 300 SHEET 4 F 7 TYR C 275 CYS C 283 -1 N ALA C 281 O TYR C 290 SHEET 5 F 7 SER C 13 PHE C 21 -1 N MET C 19 O TYR C 278 SHEET 6 F 7 SER C 2 ARG C 7 -1 N ILE C 6 O LEU C 14 SHEET 7 F 7 VAL C 172 MET C 173 -1 O MET C 173 N SER C 3 SHEET 1 G 8 ILE C 163 HIS C 166 0 SHEET 2 G 8 SER C 153 PRO C 158 -1 N GLU C 157 O THR C 164 SHEET 3 G 8 LEU C 142 THR C 147 -1 N TYR C 144 O ILE C 156 SHEET 4 G 8 MET C 77 TYR C 82 -1 N MET C 77 O THR C 147 SHEET 5 G 8 VAL C 66 ASN C 72 -1 N TYR C 68 O MET C 80 SHEET 6 G 8 PHE C 54 SER C 59 -1 N MET C 57 O TYR C 68 SHEET 7 G 8 LYS C 28 VAL C 32 -1 N LYS C 28 O GLY C 58 SHEET 8 G 8 ILE C 315 PHE C 317 -1 O ILE C 315 N ILE C 31 SHEET 1 H 2 ILE C 38 ARG C 39 0 SHEET 2 H 2 VAL C 47 ILE C 48 -1 O ILE C 48 N ILE C 38 SHEET 1 I 2 ARG C 98 ILE C 100 0 SHEET 2 I 2 TYR C 126 LEU C 128 1 O THR C 127 N ARG C 98 SHEET 1 J 2 ILE C 200 MET C 202 0 SHEET 2 J 2 LEU C 205 LEU C 207 -1 O LEU C 207 N ILE C 200 CISPEP 1 SER A 176 PRO A 177 0 6.45 CISPEP 2 SER C 176 PRO C 177 0 8.44 SITE 1 AC1 9 ASP A 20 TYR A 82 ASN A 175 PRO A 225 SITE 2 AC1 9 ARG A 228 GLU A 270 ASP A 274 GLY C 211 SITE 3 AC1 9 GLN C 212 SITE 1 AC2 11 GLY A 211 GLN A 212 ASP C 20 TYR C 82 SITE 2 AC2 11 ASN C 175 ARG C 228 THR C 268 ASN C 269 SITE 3 AC2 11 GLU C 270 LYS C 272 ASP C 274 CRYST1 129.730 158.890 90.742 90.00 90.00 90.00 C 2 2 21 16 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 0.007710 0.000000 0.000000 0.00000 SCALE2 0.000000 0.006290 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011020 0.00000