HEADER OXIDOREDUCTASE 13-AUG-14 4UBS TITLE THE CRYSTAL STRUCTURE OF CYTOCHROME P450 105D7 FROM STREPTOMYCES TITLE 2 AVERMITILIS IN COMPLEX WITH DICLOFENAC COMPND MOL_ID: 1; COMPND 2 MOLECULE: PENTALENIC ACID SYNTHASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 10-402; COMPND 5 SYNONYM: CYP105D7; COMPND 6 EC: 1.14.15.11; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES AVERMITILIS MA-4680 = NBRC 14893; SOURCE 3 ORGANISM_TAXID: 227882; SOURCE 4 GENE: CYP105D7, CYP28, SAV_7469; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET17B KEYWDS CYTOCHROME P450, DICLOFENAC, HYDROXYLATION, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR L.H.XU,H.IKEDA,T.ARAKAWA,T.WAKAGI,H.SHOUN,S.FUSHINOBU REVDAT 4 20-MAR-24 4UBS 1 REMARK REVDAT 3 29-JAN-20 4UBS 1 SOURCE JRNL REMARK REVDAT 2 01-APR-15 4UBS 1 JRNL REVDAT 1 05-NOV-14 4UBS 0 JRNL AUTH L.H.XU,H.IKEDA,L.LIU,T.ARAKAWA,T.WAKAGI,H.SHOUN,S.FUSHINOBU JRNL TITL STRUCTURAL BASIS FOR THE 4'-HYDROXYLATION OF DICLOFENAC BY A JRNL TITL 2 MICROBIAL CYTOCHROME P450 MONOOXYGENASE. JRNL REF APPL.MICROBIOL.BIOTECHNOL. V. 99 3081 2015 JRNL REFN ESSN 1432-0614 JRNL PMID 25341403 JRNL DOI 10.1007/S00253-014-6148-Y REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0032 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) : 44.40 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 37259 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.177 REMARK 3 FREE R VALUE : 0.228 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1860 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) : 2605 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.85 REMARK 3 BIN R VALUE (WORKING SET) : 0.2210 REMARK 3 BIN FREE R VALUE SET COUNT : 149 REMARK 3 BIN FREE R VALUE : 0.2640 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3044 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 234 REMARK 3 SOLVENT ATOMS : 304 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.99 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.01000 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): 0.164 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.163 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.104 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.108 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.961 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.931 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3330 ; 0.019 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 3255 ; 0.004 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4481 ; 2.134 ; 2.042 REMARK 3 BOND ANGLES OTHERS (DEGREES): 7459 ; 1.090 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 392 ; 6.206 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 144 ;33.104 ;22.431 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 502 ;16.398 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 38 ;22.258 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 485 ; 0.142 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3639 ; 0.012 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 745 ; 0.012 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1571 ; 3.414 ; 3.748 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1570 ; 3.413 ; 3.748 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1962 ; 4.323 ; 5.603 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 4UBS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 19-AUG-14. REMARK 100 THE DEPOSITION ID IS D_1000203142. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-17A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.980 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37612 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 44.400 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 10.80 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 32.9000 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) : 2.24 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 11.10 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 71.13 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM CHLORIDE, NA/K PHOSPHATE, REMARK 280 PEG200, 40% TERT-BUTANOL, PH 5.5, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -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 21.75600 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 43.51200 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 43.51200 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 21.75600 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 TOTAL BURIED SURFACE AREA: 5470 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17860 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL 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 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 A 643 LIES ON A SPECIAL POSITION. 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 OE2 GLU A 280 NH2 ARG A 336 2.17 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 46 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES REMARK 500 VAL A 50 CB - CA - C ANGL. DEV. = -13.3 DEGREES REMARK 500 ASP A 63 CB - CG - OD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ARG A 81 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 81 NE - CZ - NH2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG A 86 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG A 104 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES REMARK 500 ARG A 104 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 175 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 175 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP A 227 CB - CG - OD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 ARG A 228 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG A 228 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 ASP A 298 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 ARG A 336 NE - CZ - NH1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG A 336 NE - CZ - NH2 ANGL. DEV. = -6.7 DEGREES REMARK 500 ASP A 390 CB - CG - OD1 ANGL. DEV. = 5.8 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 LEU A 92 -72.70 66.68 REMARK 500 PHE A 147 -61.59 -154.21 REMARK 500 GLN A 220 -68.91 -136.43 REMARK 500 THR A 304 -167.97 -125.81 REMARK 500 SER A 337 132.65 -38.12 REMARK 500 HIS A 340 1.33 82.74 REMARK 500 PHE A 346 152.23 179.77 REMARK 500 LEU A 398 82.01 -158.13 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 HEM A 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 351 SG REMARK 620 2 HEM A 501 NA 97.5 REMARK 620 3 HEM A 501 NB 88.9 89.1 REMARK 620 4 HEM A 501 NC 85.4 177.1 90.9 REMARK 620 5 HEM A 501 ND 93.3 91.0 177.8 88.9 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 HEM A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DIF A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DIF A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 507 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE A 508 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 509 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 510 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 511 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 512 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 513 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 514 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 515 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 516 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 517 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 518 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 519 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 520 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 521 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG A 522 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 523 DBREF 4UBS A 10 402 UNP Q825I8 CYP28_STRAW 10 402 SEQRES 1 A 393 ALA PRO VAL ALA PHE PRO GLN ASP ARG THR CYS PRO TYR SEQRES 2 A 393 ASP PRO PRO THR ALA TYR ASP PRO LEU ARG GLU GLY ARG SEQRES 3 A 393 PRO LEU SER ARG VAL SER LEU TYR ASP GLY ARG SER VAL SEQRES 4 A 393 TRP VAL VAL THR GLY HIS ALA ALA ALA ARG ALA LEU LEU SEQRES 5 A 393 SER ASP GLN ARG LEU SER SER ASP ARG THR LEU PRO ARG SEQRES 6 A 393 PHE PRO ALA THR THR GLU ARG PHE GLU ALA VAL ARG THR SEQRES 7 A 393 ARG ARG VAL ALA LEU LEU GLY VAL ASP ASP PRO GLU HIS SEQRES 8 A 393 ARG THR GLN ARG ARG MET LEU VAL PRO SER PHE THR LEU SEQRES 9 A 393 LYS ARG ALA ALA ALA LEU ARG PRO ARG ILE GLN GLU THR SEQRES 10 A 393 VAL ASP GLY LEU LEU ASP ALA MET GLU ALA GLN GLY PRO SEQRES 11 A 393 PRO ALA GLU LEU VAL SER ALA PHE ALA LEU PRO LEU PRO SEQRES 12 A 393 SER MET VAL ILE CYS ALA LEU LEU GLY VAL PRO TYR ALA SEQRES 13 A 393 ASP HIS ASP PHE PHE GLU SER GLN SER ARG ARG LEU LEU SEQRES 14 A 393 ARG GLY PRO GLY ILE ALA GLU VAL GLN ASP ALA ARG ALA SEQRES 15 A 393 GLN LEU ASP ASP TYR LEU TYR ALA LEU ILE ASP ARG LYS SEQRES 16 A 393 ARG LYS GLU PRO GLY ASP GLY LEU LEU ASP ASP LEU ILE SEQRES 17 A 393 GLN GLU GLN LEU ASN ARG GLY THR VAL ASP ARG ALA GLU SEQRES 18 A 393 LEU VAL SER LEU ALA THR LEU LEU LEU ILE ALA GLY HIS SEQRES 19 A 393 GLU THR THR ALA ASN MET ILE SER LEU GLY THR PHE THR SEQRES 20 A 393 LEU LEU ARG HIS PRO GLU GLN LEU ALA GLU LEU ARG ALA SEQRES 21 A 393 GLU PRO GLY LEU MET PRO ALA ALA VAL GLU GLU LEU LEU SEQRES 22 A 393 ARG PHE LEU SER ILE ALA ASP GLY LEU LEU ARG VAL ALA SEQRES 23 A 393 THR GLU ASP ILE GLU VAL ALA GLY THR THR ILE ARG ALA SEQRES 24 A 393 ASP GLU GLY VAL VAL PHE ALA THR SER VAL ILE ASN ARG SEQRES 25 A 393 ASP ALA ALA GLY PHE ALA GLU PRO ASP ALA LEU ASP TRP SEQRES 26 A 393 HIS ARG SER ALA ARG HIS HIS VAL ALA PHE GLY PHE GLY SEQRES 27 A 393 ILE HIS GLN CYS LEU GLY GLN ASN LEU ALA ARG ALA GLU SEQRES 28 A 393 MET GLU ILE ALA LEU GLY THR LEU PHE GLU ARG LEU PRO SEQRES 29 A 393 GLY LEU ARG LEU ALA ALA PRO ALA ASP GLU ILE PRO PHE SEQRES 30 A 393 LYS PRO GLY ASP THR ILE GLN GLY MET LEU GLU LEU PRO SEQRES 31 A 393 VAL THR TRP HET HEM A 501 43 HET DIF A 502 19 HET DIF A 503 19 HET PGE A 504 10 HET PGE A 505 10 HET PGE A 506 10 HET PGE A 507 10 HET PGE A 508 10 HET PEG A 509 7 HET PEG A 510 7 HET PEG A 511 7 HET PEG A 512 7 HET PEG A 513 7 HET PEG A 514 7 HET PEG A 515 7 HET PEG A 516 7 HET PEG A 517 7 HET PEG A 518 7 HET PEG A 519 7 HET PEG A 520 7 HET PEG A 521 7 HET PEG A 522 7 HET PO4 A 523 5 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM DIF 2-[2,6-DICHLOROPHENYL)AMINO]BENZENEACETIC ACID HETNAM PGE TRIETHYLENE GLYCOL HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM PO4 PHOSPHATE ION HETSYN HEM HEME HETSYN DIF DICLOFENAC FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 DIF 2(C14 H11 CL2 N O2) FORMUL 5 PGE 5(C6 H14 O4) FORMUL 10 PEG 14(C4 H10 O3) FORMUL 24 PO4 O4 P 3- FORMUL 25 HOH *304(H2 O) HELIX 1 AA1 PRO A 25 ALA A 27 5 3 HELIX 2 AA2 TYR A 28 GLY A 34 1 7 HELIX 3 AA3 GLY A 53 SER A 62 1 10 HELIX 4 AA4 THR A 79 ARG A 86 1 8 HELIX 5 AA5 PRO A 98 VAL A 108 1 11 HELIX 6 AA6 PRO A 109 PHE A 111 5 3 HELIX 7 AA7 THR A 112 GLY A 138 1 27 HELIX 8 AA8 LEU A 143 PHE A 147 1 5 HELIX 9 AA9 LEU A 149 GLY A 161 1 13 HELIX 10 AB1 PRO A 163 ALA A 165 5 3 HELIX 11 AB2 ASP A 166 GLY A 180 1 15 HELIX 12 AB3 GLY A 182 GLU A 207 1 26 HELIX 13 AB4 GLY A 211 GLN A 220 1 10 HELIX 14 AB5 LEU A 221 GLY A 224 5 4 HELIX 15 AB6 ASP A 227 ARG A 259 1 33 HELIX 16 AB7 HIS A 260 GLU A 270 1 11 HELIX 17 AB8 LEU A 273 SER A 286 1 14 HELIX 18 AB9 ALA A 315 ASN A 320 1 6 HELIX 19 AC1 PHE A 346 GLN A 350 5 5 HELIX 20 AC2 GLY A 353 LEU A 372 1 20 HELIX 21 AC3 PRO A 380 ILE A 384 5 5 SHEET 1 AA1 6 VAL A 12 ALA A 13 0 SHEET 2 AA1 6 LEU A 37 SER A 41 1 O SER A 41 N VAL A 12 SHEET 3 AA1 6 SER A 47 VAL A 51 -1 O VAL A 48 N VAL A 40 SHEET 4 AA1 6 GLY A 311 PHE A 314 1 O VAL A 313 N VAL A 51 SHEET 5 AA1 6 ARG A 293 ALA A 295 -1 N ARG A 293 O VAL A 312 SHEET 6 AA1 6 LEU A 66 SER A 67 -1 N SER A 67 O VAL A 294 SHEET 1 AA2 3 ALA A 141 GLU A 142 0 SHEET 2 AA2 3 PRO A 399 THR A 401 -1 O VAL A 400 N ALA A 141 SHEET 3 AA2 3 ARG A 376 LEU A 377 -1 N ARG A 376 O THR A 401 SHEET 1 AA3 2 ILE A 299 VAL A 301 0 SHEET 2 AA3 2 THR A 304 ILE A 306 -1 O ILE A 306 N ILE A 299 LINK SG CYS A 351 FE HEM A 501 1555 1555 2.40 CISPEP 1 PHE A 14 PRO A 15 0 0.86 CISPEP 2 ARG A 35 PRO A 36 0 5.94 CISPEP 3 ASP A 97 PRO A 98 0 4.16 CISPEP 4 PRO A 139 PRO A 140 0 1.47 CISPEP 5 GLY A 180 PRO A 181 0 9.56 SITE 1 AC1 17 LEU A 92 LEU A 93 HIS A 100 ARG A 104 SITE 2 AC1 17 LEU A 238 GLY A 242 THR A 245 MET A 249 SITE 3 AC1 17 ARG A 293 ALA A 343 PHE A 344 GLY A 345 SITE 4 AC1 17 HIS A 349 CYS A 351 GLY A 353 DIF A 503 SITE 5 AC1 17 HOH A 681 SITE 1 AC2 11 ARG A 70 VAL A 85 LEU A 93 LEU A 177 SITE 2 AC2 11 SER A 233 THR A 236 LEU A 237 ILE A 240 SITE 3 AC2 11 DIF A 503 PGE A 504 PO4 A 523 SITE 1 AC3 8 THR A 245 ASP A 289 GLY A 290 LEU A 291 SITE 2 AC3 8 LEU A 292 HEM A 501 DIF A 502 PGE A 504 SITE 1 AC4 6 ARG A 81 LEU A 177 LEU A 178 ASP A 390 SITE 2 AC4 6 DIF A 502 DIF A 503 SITE 1 AC5 6 ARG A 88 ARG A 89 ASP A 194 TYR A 198 SITE 2 AC5 6 ARG A 228 HOH A 639 SITE 1 AC6 3 SER A 172 ARG A 175 GLY A 180 SITE 1 AC7 9 ASP A 128 GLU A 135 ASN A 355 ARG A 358 SITE 2 AC7 9 ARG A 371 PEG A 511 HOH A 607 HOH A 616 SITE 3 AC7 9 HOH A 903 SITE 1 AC8 9 MET A 134 GLN A 137 SER A 145 ALA A 146 SITE 2 AC8 9 MET A 154 TYR A 164 HOH A 678 HOH A 704 SITE 3 AC8 9 HOH A 858 SITE 1 AC9 2 THR A 126 GLY A 129 SITE 1 AD1 5 ALA A 55 ALA A 56 ALA A 269 GLU A 270 SITE 2 AD1 5 HOH A 634 SITE 1 AD2 2 PGE A 507 HOH A 616 SITE 1 AD3 5 GLN A 192 TYR A 196 PEG A 521 HOH A 619 SITE 2 AD3 5 HOH A 637 SITE 1 AD4 2 ARG A 176 GLU A 185 SITE 1 AD5 4 ARG A 259 ALA A 379 PRO A 380 ALA A 381 SITE 1 AD6 6 ARG A 339 HIS A 340 GLY A 366 THR A 367 SITE 2 AD6 6 HOH A 630 HOH A 731 SITE 1 AD7 6 THR A 71 GLU A 83 ARG A 86 THR A 87 SITE 2 AD7 6 HOH A 619 HOH A 854 SITE 1 AD8 2 ALA A 165 ASP A 166 SITE 1 AD9 4 GLN A 137 PRO A 140 ALA A 141 HOH A 686 SITE 1 AE1 4 GLU A 99 ARG A 205 ASP A 227 ARG A 228 SITE 1 AE2 3 GLU A 270 PRO A 271 GLY A 272 SITE 1 AE3 2 PEG A 512 HOH A 761 SITE 1 AE4 2 PRO A 181 GLY A 182 SITE 1 AE5 5 SER A 68 ARG A 70 PHE A 82 VAL A 90 SITE 2 AE5 5 DIF A 502 CRYST1 139.897 139.897 65.268 90.00 90.00 120.00 P 31 2 1 6 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 0.007148 0.004127 0.000000 0.00000 SCALE2 0.000000 0.008254 0.000000 0.00000 SCALE3 0.000000 0.000000 0.015321 0.00000