HEADER OXIDOREDUCTASE 04-SEP-07 2VAU TITLE ISOPENICILLIN N SYNTHASE WITH SUBSTRATE ANALOGUE ACOMP (UNEXPOSED) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ISOPENICILLIN N SYNTHETASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: IPNS, ISOPENICILLIN N SYNTHASE; COMPND 5 EC: 1.21.3.1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: EMERICELLA NIDULANS; SOURCE 3 ORGANISM_TAXID: 162425; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: NM554; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PJB703 KEYWDS OXIDOREDUCTASE, ANTIBIOTIC BIOSYNTHESIS, PENICILLIN BIOSYNTHESIS, KEYWDS 2 IRON, OXYGENASE, VITAMIN C, METAL-BINDING, MONOCYCLIC INTERMEDIATE, KEYWDS 3 B-LACTAM ANTIBIOTIC EXPDTA X-RAY DIFFRACTION AUTHOR W.GE,I.J.CLIFTON,R.M.ADLINGTON,J.E.BALDWIN,P.J.RUTLEDGE REVDAT 4 13-DEC-23 2VAU 1 LINK REVDAT 3 24-FEB-09 2VAU 1 VERSN REVDAT 2 12-AUG-08 2VAU 1 JRNL REMARK REVDAT 1 29-JUL-08 2VAU 0 JRNL AUTH W.GE,I.J.CLIFTON,J.E.STOK,R.M.ADLINGTON,J.E.BALDWIN, JRNL AUTH 2 P.J.RUTLEDGE JRNL TITL ISOPENICILLIN N SYNTHASE MEDIATES THIOLATE OXIDATION TO JRNL TITL 2 SULFENATE IN A DEPSIPEPTIDE SUBSTRATE ANALOGUE: IMPLICATIONS JRNL TITL 3 FOR OXYGEN BINDING AND A LINK TO NITRILE HYDRATASE? JRNL REF J.AM.CHEM.SOC. V. 130 10096 2008 JRNL REFN ISSN 0002-7863 JRNL PMID 18620394 JRNL DOI 10.1021/JA8005397 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) : 30.41 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 30604 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) : 0.152 REMARK 3 R VALUE (WORKING SET) : 0.151 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1245 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) : 2184 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1740 REMARK 3 BIN FREE R VALUE SET COUNT : 81 REMARK 3 BIN FREE R VALUE : 0.2080 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2645 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 25 REMARK 3 SOLVENT ATOMS : 345 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 13.47 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 5.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.04000 REMARK 3 B22 (A**2) : 0.03000 REMARK 3 B33 (A**2) : -0.07000 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): 0.111 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.109 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.067 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.867 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.937 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2743 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1831 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3732 ; 1.722 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4460 ; 2.235 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 328 ; 6.422 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 141 ;33.828 ;24.681 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 428 ;12.530 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ; 9.133 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 391 ; 0.114 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3091 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 561 ; 0.007 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 541 ; 0.218 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1818 ; 0.221 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1364 ; 0.185 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1344 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 231 ; 0.159 ; 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): 11 ; 0.169 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 52 ; 0.288 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.184 ; 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): 2102 ; 1.240 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2668 ; 1.446 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1314 ; 2.785 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1064 ; 3.861 ; 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 : 5 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 46 REMARK 3 ORIGIN FOR THE GROUP (A): 4.3679 33.4784 -16.2796 REMARK 3 T TENSOR REMARK 3 T11: 0.0333 T22: 0.0438 REMARK 3 T33: 0.0377 T12: -0.0038 REMARK 3 T13: -0.0204 T23: 0.0022 REMARK 3 L TENSOR REMARK 3 L11: 1.2645 L22: 1.6109 REMARK 3 L33: 1.9737 L12: 0.0434 REMARK 3 L13: -0.4101 L23: -0.0449 REMARK 3 S TENSOR REMARK 3 S11: -0.0417 S12: 0.0356 S13: 0.0119 REMARK 3 S21: -0.0118 S22: 0.0306 S23: 0.0599 REMARK 3 S31: 0.0110 S32: -0.0977 S33: 0.0112 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 47 A 79 REMARK 3 ORIGIN FOR THE GROUP (A): 9.7946 25.3123 12.4500 REMARK 3 T TENSOR REMARK 3 T11: 0.0226 T22: 0.0260 REMARK 3 T33: 0.0342 T12: 0.0110 REMARK 3 T13: 0.0008 T23: 0.0010 REMARK 3 L TENSOR REMARK 3 L11: 0.3670 L22: 0.8255 REMARK 3 L33: 2.5231 L12: 0.3696 REMARK 3 L13: 0.6957 L23: 1.1621 REMARK 3 S TENSOR REMARK 3 S11: 0.0181 S12: -0.0440 S13: -0.0061 REMARK 3 S21: 0.0748 S22: -0.0160 S23: -0.0023 REMARK 3 S31: 0.1205 S32: -0.0441 S33: -0.0021 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 80 A 143 REMARK 3 ORIGIN FOR THE GROUP (A): 19.8730 28.8032 11.4538 REMARK 3 T TENSOR REMARK 3 T11: 0.0276 T22: 0.0340 REMARK 3 T33: 0.0249 T12: 0.0054 REMARK 3 T13: -0.0111 T23: 0.0006 REMARK 3 L TENSOR REMARK 3 L11: 0.8046 L22: 0.4923 REMARK 3 L33: 0.6340 L12: -0.2388 REMARK 3 L13: -0.3903 L23: 0.2525 REMARK 3 S TENSOR REMARK 3 S11: -0.0005 S12: -0.1017 S13: 0.0281 REMARK 3 S21: 0.0547 S22: 0.0142 S23: -0.0460 REMARK 3 S31: 0.0142 S32: 0.0557 S33: -0.0137 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 144 A 201 REMARK 3 ORIGIN FOR THE GROUP (A): 12.9169 32.2929 -2.5983 REMARK 3 T TENSOR REMARK 3 T11: 0.0343 T22: 0.0239 REMARK 3 T33: 0.0444 T12: -0.0052 REMARK 3 T13: -0.0128 T23: 0.0043 REMARK 3 L TENSOR REMARK 3 L11: 0.2963 L22: 0.5125 REMARK 3 L33: 0.6305 L12: 0.0857 REMARK 3 L13: 0.1639 L23: -0.1616 REMARK 3 S TENSOR REMARK 3 S11: 0.0069 S12: 0.0269 S13: 0.0338 REMARK 3 S21: -0.0157 S22: -0.0117 S23: -0.0204 REMARK 3 S31: -0.0295 S32: 0.0226 S33: 0.0048 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 202 A 331 REMARK 3 ORIGIN FOR THE GROUP (A): 9.7748 42.1954 -3.0036 REMARK 3 T TENSOR REMARK 3 T11: 0.0276 T22: 0.0087 REMARK 3 T33: 0.0287 T12: 0.0044 REMARK 3 T13: -0.0053 T23: 0.0033 REMARK 3 L TENSOR REMARK 3 L11: 0.6252 L22: 0.5349 REMARK 3 L33: 0.5961 L12: -0.0478 REMARK 3 L13: -0.1289 L23: 0.0953 REMARK 3 S TENSOR REMARK 3 S11: 0.0260 S12: 0.0476 S13: 0.0957 REMARK 3 S21: -0.0651 S22: -0.0181 S23: -0.0109 REMARK 3 S31: -0.0965 S32: 0.0054 S33: -0.0080 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 : 1.20 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. ANISOTROPIC U FACTORS CALCULATED FROM TLS MODEL BY REMARK 3 TLSANL. REMARK 4 REMARK 4 2VAU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 04-SEP-07. REMARK 100 THE DEPOSITION ID IS D_1290033685. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-APR-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 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 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31926 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 34.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 200 DATA REDUNDANCY : 9.000 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.79 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.89 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.50 REMARK 200 R MERGE FOR SHELL (I) : 0.27000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 7.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: REFMAC REMARK 200 STARTING MODEL: PDB ENTRY 1BK0 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.0M LITHIUM SULPHATE, 76MM TRIS/HCL, REMARK 280 PH 8.5, 2.0MM FERROUS SULPHATE, 2.6MG/ML TRIPEPTIDE, 25MG/ML IPNS REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 23.34850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.45600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.58050 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.45600 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.34850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 35.58050 REMARK 290 SMTRY3 4 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 MET A 1 REMARK 465 GLY A 2 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 A 2256 O HOH A 2298 2.05 REMARK 500 OD1 ASP A 131 O HOH A 2161 2.08 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 173 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 LEU A 324 CB - CG - CD2 ANGL. DEV. = 11.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ASP A 38 -112.89 -92.49 REMARK 500 HIS A 82 58.06 -107.45 REMARK 500 LYS A 97 -37.48 -134.93 REMARK 500 LEU A 106 -167.41 -106.47 REMARK 500 THR A 123 -5.31 78.58 REMARK 500 ASN A 230 -26.28 -151.09 REMARK 500 PRO A 299 0.65 -65.20 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 FE2 A1332 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 214 NE2 REMARK 620 2 ASP A 216 OD1 95.9 REMARK 620 3 HIS A 270 NE2 84.5 84.9 REMARK 620 4 V20 A1333 SAI 90.2 85.5 168.5 REMARK 620 5 HOH A2247 O 172.2 90.6 91.8 94.6 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 A1332 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE V20 A1333 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1HB4 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (OXYGEN EXPOSED REMARK 900 PRODUCT FROM ANAEROBIC ACOV FE COMPLEX) REMARK 900 RELATED ID: 1BLZ RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (ACV-FE-NO REMARK 900 COMPLEX) REMARK 900 RELATED ID: 1OC1 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL -AMINOBUTYRATE-FE REMARK 900 COMPLEX REMARK 900 RELATED ID: 1W3V RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE D-(L-A-AMINOADIPOYL )-(3R)-METHYL-L- REMARK 900 CYSTEINE D-A- HYDROXYISOVALERYL ESTER COMPLEX (ANAEROBIC) REMARK 900 RELATED ID: 1UZW RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE WITH L-D-(A- AMINOADIPOYL)-L-CYSTEINYL-D- REMARK 900 ISODEHYDROVALINE REMARK 900 RELATED ID: 1IPS RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (MANGANESE REMARK 900 COMPLEX) REMARK 900 RELATED ID: 1BK0 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (ACV-FE COMPLEX) REMARK 900 RELATED ID: 1W3X RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE D-(L-A-AMINOADIPOYL )-(3R)-METHYL-L- REMARK 900 CYSTEINE D-A- HYDROXYISOVALERYL ESTER COMPLEX (OXYGEN EXPOSED 5 REMARK 900 MINUTES 20 BAR) REMARK 900 RELATED ID: 2VBP RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE WITH SUBSTRATE ANALOGUE L,L,L-ACAB REMARK 900 (UNEXPOSED) REMARK 900 RELATED ID: 1HB3 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (OXYGEN EXPOSED REMARK 900 PRODUCT FROM ANAEROBIC ACOV FE COMPLEX) REMARK 900 RELATED ID: 1W04 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL -GLYCINE-FE-NO REMARK 900 COMPLEX REMARK 900 RELATED ID: 1QIQ RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (ACMC FE COMPLEX) REMARK 900 RELATED ID: 1QJF RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (MONOCYCLIC REMARK 900 SULFOXIDE - FE COMPLEX) REMARK 900 RELATED ID: 2BU9 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE COMPLEXED WITH L- AMINOADIPOYL-L-CYSTEINYL- REMARK 900 L-HEXAFLUOROVALINE REMARK 900 RELATED ID: 1OBN RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL -AMINOBUTYRATE-FE- REMARK 900 NO COMPLEX REMARK 900 RELATED ID: 1ODM RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (ANAEROBIC AC- REMARK 900 VINYLGLYCINE FE COMPLEX ) REMARK 900 RELATED ID: 2VBD RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE WITH SUBSTRATE ANALOGUE L,L,L-ACOMP REMARK 900 (UNEXPOSED) REMARK 900 RELATED ID: 2VCM RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE WITH SUBSTRATE ANALOGUE ASMCOV REMARK 900 RELATED ID: 1ODN RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (OXYGEN-EXPOSED REMARK 900 PRODUCT FROM ANAEROBIC AC-VINYLGLYCINE FE COMPLEX) REMARK 900 RELATED ID: 1HB2 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (OXYGEN EXPOSED REMARK 900 PRODUCT FROM ANAEROBIC ACOV FE COMPLEX) REMARK 900 RELATED ID: 1QJE RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (IPN - FE REMARK 900 COMPLEX) REMARK 900 RELATED ID: 2VE1 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE WITH SUBSTRATE ANALOGUE ASMCOV (OXYGEN REMARK 900 EXPOSED 1MIN 20BAR) REMARK 900 RELATED ID: 1W03 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL -GLYCINE-FE COMPLEX REMARK 900 RELATED ID: 2VBB RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE WITH SUBSTRATE ANALOGUE ACOMP (35MINUTES REMARK 900 OXYGEN EXPOSURE) REMARK 900 RELATED ID: 1W06 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL -ALANINE-FE NO REMARK 900 COMPLEX REMARK 900 RELATED ID: 1HB1 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (ANAEROBIC ACOV REMARK 900 FE COMPLEX) REMARK 900 RELATED ID: 2IVJ RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (ANAEROBIC AC- REMARK 900 CYCLOPROPYLGLYCINE FE COMPLEX) REMARK 900 RELATED ID: 1W05 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL -ALANINE-FE COMPLEX REMARK 900 RELATED ID: 2JB4 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE WITH A 2- THIABICYCLOHEPTAN-6-ONE PRODUCT REMARK 900 ANALOGUE REMARK 900 RELATED ID: 2IVI RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (ANAEROBIC AC- REMARK 900 METHYL-CYCLOPROPYLGLYCINE FE COMPLEX) REMARK 900 RELATED ID: 2BJS RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE C-TERMINAL TRUNCATION MUTANT REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUES 1-2 NOT SEEN DBREF 2VAU A 1 331 UNP P05326 IPNS_EMENI 1 331 SEQRES 1 A 331 MET GLY SER VAL SER LYS ALA ASN VAL PRO LYS ILE ASP SEQRES 2 A 331 VAL SER PRO LEU PHE GLY ASP ASP GLN ALA ALA LYS MET SEQRES 3 A 331 ARG VAL ALA GLN GLN ILE ASP ALA ALA SER ARG ASP THR SEQRES 4 A 331 GLY PHE PHE TYR ALA VAL ASN HIS GLY ILE ASN VAL GLN SEQRES 5 A 331 ARG LEU SER GLN LYS THR LYS GLU PHE HIS MET SER ILE SEQRES 6 A 331 THR PRO GLU GLU LYS TRP ASP LEU ALA ILE ARG ALA TYR SEQRES 7 A 331 ASN LYS GLU HIS GLN ASP GLN VAL ARG ALA GLY TYR TYR SEQRES 8 A 331 LEU SER ILE PRO GLY LYS LYS ALA VAL GLU SER PHE CYS SEQRES 9 A 331 TYR LEU ASN PRO ASN PHE THR PRO ASP HIS PRO ARG ILE SEQRES 10 A 331 GLN ALA LYS THR PRO THR HIS GLU VAL ASN VAL TRP PRO SEQRES 11 A 331 ASP GLU THR LYS HIS PRO GLY PHE GLN ASP PHE ALA GLU SEQRES 12 A 331 GLN TYR TYR TRP ASP VAL PHE GLY LEU SER SER ALA LEU SEQRES 13 A 331 LEU LYS GLY TYR ALA LEU ALA LEU GLY LYS GLU GLU ASN SEQRES 14 A 331 PHE PHE ALA ARG HIS PHE LYS PRO ASP ASP THR LEU ALA SEQRES 15 A 331 SER VAL VAL LEU ILE ARG TYR PRO TYR LEU ASP PRO TYR SEQRES 16 A 331 PRO GLU ALA ALA ILE LYS THR ALA ALA ASP GLY THR LYS SEQRES 17 A 331 LEU SER PHE GLU TRP HIS GLU ASP VAL SER LEU ILE THR SEQRES 18 A 331 VAL LEU TYR GLN SER ASN VAL GLN ASN LEU GLN VAL GLU SEQRES 19 A 331 THR ALA ALA GLY TYR GLN ASP ILE GLU ALA ASP ASP THR SEQRES 20 A 331 GLY TYR LEU ILE ASN CYS GLY SER TYR MET ALA HIS LEU SEQRES 21 A 331 THR ASN ASN TYR TYR LYS ALA PRO ILE HIS ARG VAL LYS SEQRES 22 A 331 TRP VAL ASN ALA GLU ARG GLN SER LEU PRO PHE PHE VAL SEQRES 23 A 331 ASN LEU GLY TYR ASP SER VAL ILE ASP PRO PHE ASP PRO SEQRES 24 A 331 ARG GLU PRO ASN GLY LYS SER ASP ARG GLU PRO LEU SER SEQRES 25 A 331 TYR GLY ASP TYR LEU GLN ASN GLY LEU VAL SER LEU ILE SEQRES 26 A 331 ASN LYS ASN GLY GLN THR HET FE2 A1332 1 HET V20 A1333 24 HETNAM FE2 FE (II) ION HETNAM V20 N6^-[(1R)-2-[(1S)-1-CARBOXY-2-(METHYLSULFANYL)ETHOXY]- HETNAM 2 V20 2-OXO-1-(SULFANYLMETHYL)ETHYL]-6-OXO-L-LYSINE FORMUL 2 FE2 FE 2+ FORMUL 3 V20 C13 H22 N2 O7 S2 FORMUL 4 HOH *345(H2 O) HELIX 1 1 SER A 15 GLY A 19 5 5 HELIX 2 2 ASP A 21 ASP A 38 1 18 HELIX 3 3 ASN A 50 ILE A 65 1 16 HELIX 4 4 THR A 66 ALA A 74 1 9 HELIX 5 5 HIS A 114 ALA A 119 1 6 HELIX 6 6 GLY A 137 LEU A 164 1 28 HELIX 7 7 PHE A 171 PHE A 175 5 5 HELIX 8 8 PRO A 196 ILE A 200 5 5 HELIX 9 9 GLY A 254 THR A 261 1 8 HELIX 10 10 SER A 312 GLY A 329 1 18 SHEET 1 AA 8 LYS A 11 ASP A 13 0 SHEET 2 AA 8 PHE A 41 VAL A 45 1 O TYR A 43 N ILE A 12 SHEET 3 AA 8 TYR A 249 CYS A 253 -1 O TYR A 249 N ALA A 44 SHEET 4 AA 8 ILE A 220 GLN A 225 -1 O THR A 221 N ASN A 252 SHEET 5 AA 8 ARG A 279 VAL A 286 -1 O LEU A 282 N TYR A 224 SHEET 6 AA 8 SER A 183 TYR A 189 -1 O SER A 183 N PHE A 285 SHEET 7 AA 8 GLU A 101 TYR A 105 -1 O GLU A 101 N ARG A 188 SHEET 8 AA 8 GLY A 89 TYR A 91 -1 O GLY A 89 N CYS A 104 SHEET 1 AB 5 LYS A 201 THR A 202 0 SHEET 2 AB 5 LYS A 208 HIS A 214 -1 O LEU A 209 N LYS A 201 SHEET 3 AB 5 HIS A 270 LYS A 273 -1 O HIS A 270 N HIS A 214 SHEET 4 AB 5 LEU A 231 THR A 235 -1 O GLN A 232 N ARG A 271 SHEET 5 AB 5 GLY A 238 ASP A 241 -1 O GLY A 238 N THR A 235 LINK NE2 HIS A 214 FE FE2 A1332 1555 1555 2.22 LINK OD1 ASP A 216 FE FE2 A1332 1555 1555 2.18 LINK NE2 HIS A 270 FE FE2 A1332 1555 1555 2.32 LINK FE FE2 A1332 SAI V20 A1333 1555 1555 2.45 LINK FE FE2 A1332 O HOH A2247 1555 1555 2.21 CISPEP 1 ASP A 193 PRO A 194 0 3.59 SITE 1 AC1 5 HIS A 214 ASP A 216 HIS A 270 V20 A1333 SITE 2 AC1 5 HOH A2247 SITE 1 AC2 21 ARG A 87 TYR A 91 SER A 183 ILE A 187 SITE 2 AC2 21 TYR A 189 PHE A 211 HIS A 214 ASP A 216 SITE 3 AC2 21 LEU A 231 HIS A 270 SER A 281 PHE A 285 SITE 4 AC2 21 LEU A 324 FE2 A1332 HOH A2339 HOH A2340 SITE 5 AC2 21 HOH A2341 HOH A2342 HOH A2343 HOH A2344 SITE 6 AC2 21 HOH A2345 CRYST1 46.697 71.161 100.912 90.00 90.00 90.00 P 21 21 21 4 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.021415 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014053 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009910 0.00000