HEADER OXIDOREDUCTASE 15-OCT-07 2VE1 TITLE ISOPENICILLIN N SYNTHASE WITH SUBSTRATE ANALOGUE ASMCOV (OXYGEN TITLE 2 EXPOSED 1MIN 20BAR) 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 (STRAIN FGSC A4 / ATCC SOURCE 3 38163 / CBS 112.46 / NRRL 194 / M139); SOURCE 4 ORGANISM_COMMON: ASPERGILLUS NIDULANS; SOURCE 5 ORGANISM_TAXID: 227321; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: NM554; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PJB703 KEYWDS ANTIBIOTIC BIOSYNTHESIS, PENICILLIN BIOSYNTHESIS, IRON, OXYGENASE, KEYWDS 2 VITAMIN C, METAL-BINDING, MONOCYCLIC INTERMEDIATE, OXIDOREDUCTASE, 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 6 08-MAY-24 2VE1 1 SOURCE REVDAT 5 13-DEC-23 2VE1 1 REMARK REVDAT 4 14-JUN-17 2VE1 1 ATOM REVDAT 3 10-OCT-12 2VE1 1 JRNL REMARK VERSN FORMUL REVDAT 2 24-FEB-09 2VE1 1 VERSN REVDAT 1 04-NOV-08 2VE1 0 JRNL AUTH W.GE,I.J.CLIFTON,A.R.HOWARD-JONES,J.E.STOK,R.M.ADLINGTON, JRNL AUTH 2 J.E.BALDWIN,P.J.RUTLEDGE JRNL TITL STRUCTURAL STUDIES ON THE REACTION OF ISOPENICILLIN N JRNL TITL 2 SYNTHASE WITH A STERICALLY DEMANDING DEPSIPEPTIDE SUBSTRATE JRNL TITL 3 ANALOGUE. JRNL REF CHEMBIOCHEM V. 10 2025 2009 JRNL REFN ISSN 1439-4227 JRNL PMID 19598184 JRNL DOI 10.1002/CBIC.200900080 REMARK 2 REMARK 2 RESOLUTION. 2.20 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 60.75 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 16043 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.178 REMARK 3 R VALUE (WORKING SET) : 0.175 REMARK 3 FREE R VALUE : 0.246 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 3.900 REMARK 3 FREE R VALUE TEST SET COUNT : 649 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1085 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2010 REMARK 3 BIN FREE R VALUE SET COUNT : 30 REMARK 3 BIN FREE R VALUE : 0.2820 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 : 52 REMARK 3 SOLVENT ATOMS : 168 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.98 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 4.88 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.42000 REMARK 3 B22 (A**2) : 0.27000 REMARK 3 B33 (A**2) : -0.69000 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): 0.314 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.234 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.156 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 11.700 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.943 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.885 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2788 ; 0.020 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1855 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3799 ; 1.729 ; 1.960 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4506 ; 2.289 ; 3.001 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 334 ; 6.626 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 143 ;35.759 ;24.755 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 433 ;14.958 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 12 ;21.159 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 400 ; 0.099 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3141 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 565 ; 0.005 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 559 ; 0.218 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1771 ; 0.220 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1295 ; 0.183 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1365 ; 0.091 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 127 ; 0.173 ; 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): 12 ; 0.239 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 39 ; 0.269 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.244 ; 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): 2131 ; 1.002 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2693 ; 1.060 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1352 ; 2.163 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1103 ; 2.944 ; 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 : 6 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 50 REMARK 3 ORIGIN FOR THE GROUP (A): 16.9540 -3.5950 -12.8010 REMARK 3 T TENSOR REMARK 3 T11: 0.0102 T22: 0.0561 REMARK 3 T33: -0.0084 T12: 0.0042 REMARK 3 T13: 0.0160 T23: -0.0170 REMARK 3 L TENSOR REMARK 3 L11: 1.0589 L22: 0.6649 REMARK 3 L33: 1.9318 L12: -0.1979 REMARK 3 L13: 0.5284 L23: -0.5292 REMARK 3 S TENSOR REMARK 3 S11: 0.0036 S12: 0.0437 S13: -0.1158 REMARK 3 S21: -0.0726 S22: 0.0270 S23: -0.0360 REMARK 3 S31: 0.0706 S32: 0.1550 S33: -0.0306 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 51 A 62 REMARK 3 ORIGIN FOR THE GROUP (A): 26.1990 4.6630 9.4550 REMARK 3 T TENSOR REMARK 3 T11: -0.1778 T22: 0.3043 REMARK 3 T33: 0.2074 T12: -0.0087 REMARK 3 T13: -0.1161 T23: -0.2677 REMARK 3 L TENSOR REMARK 3 L11: 6.6757 L22: 2.0651 REMARK 3 L33: 52.8486 L12: -3.1186 REMARK 3 L13: -15.5862 L23: 4.1172 REMARK 3 S TENSOR REMARK 3 S11: 0.3373 S12: -1.1285 S13: 0.5390 REMARK 3 S21: -0.0068 S22: 0.8240 S23: -0.6117 REMARK 3 S31: 0.0525 S32: 2.8257 S33: -1.1613 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 63 A 114 REMARK 3 ORIGIN FOR THE GROUP (A): 10.5540 6.6300 18.5870 REMARK 3 T TENSOR REMARK 3 T11: 0.0266 T22: 0.0141 REMARK 3 T33: 0.0028 T12: 0.0036 REMARK 3 T13: 0.0001 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 0.1502 L22: 1.0259 REMARK 3 L33: 2.6216 L12: 0.3697 REMARK 3 L13: -0.2716 L23: -0.1710 REMARK 3 S TENSOR REMARK 3 S11: -0.0031 S12: -0.0841 S13: -0.0155 REMARK 3 S21: 0.1006 S22: 0.0548 S23: -0.0618 REMARK 3 S31: -0.2853 S32: -0.0468 S33: -0.0517 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 115 A 198 REMARK 3 ORIGIN FOR THE GROUP (A): 11.9250 7.7970 3.9600 REMARK 3 T TENSOR REMARK 3 T11: 0.0383 T22: 0.0196 REMARK 3 T33: -0.0058 T12: -0.0139 REMARK 3 T13: 0.0080 T23: -0.0011 REMARK 3 L TENSOR REMARK 3 L11: 0.5553 L22: 0.3195 REMARK 3 L33: 1.7468 L12: -0.0115 REMARK 3 L13: 0.3018 L23: 0.1426 REMARK 3 S TENSOR REMARK 3 S11: -0.0154 S12: -0.0185 S13: 0.0112 REMARK 3 S21: 0.0159 S22: 0.0375 S23: 0.0008 REMARK 3 S31: -0.2294 S32: 0.0470 S33: -0.0221 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 199 A 289 REMARK 3 ORIGIN FOR THE GROUP (A): 11.1800 -8.7160 1.7860 REMARK 3 T TENSOR REMARK 3 T11: 0.0109 T22: 0.0180 REMARK 3 T33: 0.0007 T12: 0.0066 REMARK 3 T13: 0.0030 T23: -0.0136 REMARK 3 L TENSOR REMARK 3 L11: 0.5238 L22: 0.9205 REMARK 3 L33: 1.3061 L12: 0.0680 REMARK 3 L13: 0.2966 L23: -0.2915 REMARK 3 S TENSOR REMARK 3 S11: 0.0075 S12: -0.0368 S13: -0.0833 REMARK 3 S21: 0.0619 S22: 0.0401 S23: -0.0054 REMARK 3 S31: 0.0796 S32: -0.0170 S33: -0.0476 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 290 A 331 REMARK 3 ORIGIN FOR THE GROUP (A): -4.0910 0.1170 -2.8450 REMARK 3 T TENSOR REMARK 3 T11: -0.0568 T22: 0.0689 REMARK 3 T33: 0.0078 T12: 0.0017 REMARK 3 T13: 0.0248 T23: -0.0161 REMARK 3 L TENSOR REMARK 3 L11: 0.6959 L22: 1.6690 REMARK 3 L33: 5.7022 L12: -0.3178 REMARK 3 L13: 0.6145 L23: -0.0477 REMARK 3 S TENSOR REMARK 3 S11: -0.0006 S12: -0.0378 S13: -0.0636 REMARK 3 S21: 0.1430 S22: -0.0222 S23: 0.0927 REMARK 3 S31: 0.0884 S32: -0.4555 S33: 0.0229 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 BY TLSANL FROM REMARK 3 REFMAC TLS MODEL REMARK 4 REMARK 4 2VE1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-OCT-07. REMARK 100 THE DEPOSITION ID IS D_1290034028. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-MAY-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) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97950 REMARK 200 MONOCHROMATOR : SI (1 1 1) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16731 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 60.750 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 200 DATA REDUNDANCY : 5.900 REMARK 200 R MERGE (I) : 0.15000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.32 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.4 REMARK 200 DATA REDUNDANCY IN SHELL : 5.30 REMARK 200 R MERGE FOR SHELL (I) : 0.43000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.800 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 (%): 43.06 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.16 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 20.83600 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 50.95500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.85850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 50.95500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 20.83600 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.85850 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: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 MET A 1 REMARK 465 GLY A 2 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 GLU A 243 CG GLU A 243 CD 0.126 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 300 NE - CZ - NH2 ANGL. DEV. = -3.3 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 -112.48 -92.37 REMARK 500 LYS A 59 -72.66 -45.72 REMARK 500 HIS A 82 52.31 -109.86 REMARK 500 LYS A 97 -42.00 -132.52 REMARK 500 THR A 123 -3.56 82.18 REMARK 500 ASN A 230 -25.93 -151.07 REMARK 500 LEU A 282 79.26 -113.94 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 D-L-A-AMINOADIPOYL-(3S-METHYL)-L-CYSTEINE D-A-HYDROXYL REMARK 600 ISOVALERYL ESTER (M11): SAME, EXCEPT FOR NUMBERING, AS REMARK 600 LIGAND MDZ FROM DEPOSITION 2VCM 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 A 401 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 214 NE2 REMARK 620 2 ASP A 216 OD1 102.9 REMARK 620 3 HIS A 270 NE2 89.2 88.2 REMARK 620 4 W2X A 402 O31 93.4 162.1 84.4 REMARK 620 5 W2X A 402 S17 92.8 83.9 172.1 103.1 REMARK 620 6 M11 A 403 S17 86.0 85.3 170.9 103.6 6.7 REMARK 620 7 HOH A 555 O 171.8 85.2 89.8 78.5 89.4 96.0 REMARK 620 N 1 2 3 4 5 6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FE2 A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue W2X A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue M11 A 403 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: 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: 1OC1 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL -AMINOBUTYRATE-FE REMARK 900 COMPLEX 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: 2VAU RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE WITH SUBSTRATE ANALOGUE ACOMP (UNEXPOSED) 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: 1QJE RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (IPN - FE REMARK 900 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: 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: 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: 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: 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: 2JB4 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE WITH A 2- THIABICYCLOHEPTAN-6-ONE PRODUCT REMARK 900 ANALOGUE REMARK 900 RELATED ID: 1W05 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL -ALANINE-FE COMPLEX 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: 1W04 RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL -GLYCINE-FE-NO REMARK 900 COMPLEX 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: 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: 1OBN RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE AMINOADIPOYL-CYSTEINYL -AMINOBUTYRATE-FE- REMARK 900 NO 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: 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 900 RELATED ID: 1ODM RELATED DB: PDB REMARK 900 ISOPENICILLIN N SYNTHASE FROM ASPERGILLUS NIDULANS (ANAEROBIC AC- REMARK 900 VINYLGLYCINE FE COMPLEX) REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUES 1-2 NOT SEEN DBREF 2VE1 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 A 401 1 HET W2X A 402 26 HET M11 A 403 25 HETNAM FE2 FE (II) ION HETNAM W2X N~6~-[(1R)-1-({[(1R,2R)-1-CARBOXY-3-HYDROXY-2- HETNAM 2 W2X METHYLPROPYL]OXY}CARBONYL)-2-MERCAPTOPROP-2-EN-1-YL]- HETNAM 3 W2X 6-OXO-L-LYSINE HETNAM M11 N^6^-[(1R,2S)-1-({[(1R)-1-CARBOXY-2- HETNAM 2 M11 METHYLPROPYL]OXY}CARBONYL)-2-SULFANYLPROPYL]-6-OXO-L- HETNAM 3 M11 LYSINE FORMUL 2 FE2 FE 2+ FORMUL 3 W2X C15 H24 N2 O8 S FORMUL 4 M11 C15 H26 N2 O7 S FORMUL 5 HOH *168(H2 O) HELIX 1 AA1 SER A 15 GLY A 19 5 5 HELIX 2 AA2 ASP A 21 ASP A 38 1 18 HELIX 3 AA3 VAL A 51 ILE A 65 1 15 HELIX 4 AA4 THR A 66 LEU A 73 1 8 HELIX 5 AA5 HIS A 114 ALA A 119 1 6 HELIX 6 AA6 GLY A 137 LEU A 164 1 28 HELIX 7 AA7 PHE A 171 PHE A 175 5 5 HELIX 8 AA8 PRO A 196 ILE A 200 5 5 HELIX 9 AA9 GLY A 254 THR A 261 1 8 HELIX 10 AB1 TYR A 313 GLY A 329 1 17 SHEET 1 AA1 8 LYS A 11 ASP A 13 0 SHEET 2 AA1 8 PHE A 42 VAL A 45 1 O TYR A 43 N ILE A 12 SHEET 3 AA1 8 TYR A 249 CYS A 253 -1 O ILE A 251 N PHE A 42 SHEET 4 AA1 8 ILE A 220 GLN A 225 -1 N THR A 221 O ASN A 252 SHEET 5 AA1 8 ARG A 279 VAL A 286 -1 O LEU A 282 N TYR A 224 SHEET 6 AA1 8 SER A 183 TYR A 189 -1 N TYR A 189 O ARG A 279 SHEET 7 AA1 8 GLU A 101 TYR A 105 -1 N GLU A 101 O ARG A 188 SHEET 8 AA1 8 GLY A 89 TYR A 91 -1 N TYR A 91 O SER A 102 SHEET 1 AA2 5 LYS A 201 THR A 202 0 SHEET 2 AA2 5 LYS A 208 HIS A 214 -1 O LEU A 209 N LYS A 201 SHEET 3 AA2 5 HIS A 270 LYS A 273 -1 O VAL A 272 N SER A 210 SHEET 4 AA2 5 LEU A 231 THR A 235 -1 N GLN A 232 O ARG A 271 SHEET 5 AA2 5 GLY A 238 ASP A 241 -1 O GLN A 240 N VAL A 233 SHEET 1 AA3 2 VAL A 293 ILE A 294 0 SHEET 2 AA3 2 LEU A 311 SER A 312 -1 O LEU A 311 N ILE A 294 LINK NE2 HIS A 214 FE FE2 A 401 1555 1555 2.28 LINK OD1 ASP A 216 FE FE2 A 401 1555 1555 2.03 LINK NE2 HIS A 270 FE FE2 A 401 1555 1555 2.24 LINK FE FE2 A 401 O31AW2X A 402 1555 1555 2.34 LINK FE FE2 A 401 S17AW2X A 402 1555 1555 2.48 LINK FE FE2 A 401 S17BM11 A 403 1555 1555 2.40 LINK FE FE2 A 401 O HOH A 555 1555 1555 2.20 CISPEP 1 ASP A 193 PRO A 194 0 -1.57 SITE 1 AC1 6 HIS A 214 ASP A 216 HIS A 270 W2X A 402 SITE 2 AC1 6 M11 A 403 HOH A 555 SITE 1 AC2 19 ARG A 87 TYR A 91 SER A 183 TYR A 189 SITE 2 AC2 19 PHE A 211 HIS A 214 ASP A 216 HIS A 270 SITE 3 AC2 19 SER A 281 PHE A 285 LEU A 321 LEU A 324 SITE 4 AC2 19 FE2 A 401 M11 A 403 HOH A 509 HOH A 535 SITE 5 AC2 19 HOH A 555 HOH A 593 HOH A 605 SITE 1 AC3 16 ARG A 87 TYR A 91 SER A 183 TYR A 189 SITE 2 AC3 16 PHE A 211 HIS A 214 ASP A 216 SER A 281 SITE 3 AC3 16 PHE A 285 LEU A 321 FE2 A 401 W2X A 402 SITE 4 AC3 16 HOH A 509 HOH A 535 HOH A 593 HOH A 605 CRYST1 41.672 75.717 101.910 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 0.023997 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013207 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009813 0.00000