HEADER OXIDOREDUCTASE 20-JUL-17 5Y1I TITLE THE CRYSTAL STRUCTURE OF GFSF COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 16-414; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES GRAMINOFACIENS; SOURCE 3 ORGANISM_TAXID: 68212; SOURCE 4 GENE: GFSF; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28B KEYWDS MONOOXYGENASE, HEME, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR A.MIYANAGA,F.KUDO,T.EGUCHI REVDAT 3 22-NOV-23 5Y1I 1 LINK REVDAT 2 15-NOV-17 5Y1I 1 JRNL REVDAT 1 13-SEP-17 5Y1I 0 JRNL AUTH A.MIYANAGA,R.TAKAYANAGI,T.FURUYA,A.KAWAMATA,T.ITAGAKI, JRNL AUTH 2 Y.IWABUCHI,N.KANOH,F.KUDO,T.EGUCHI JRNL TITL SUBSTRATE RECOGNITION BY A DUAL-FUNCTION P450 MONOOXYGENASE JRNL TITL 2 GFSF INVOLVED IN FD-891 BIOSYNTHESIS JRNL REF CHEMBIOCHEM V. 18 2179 2017 JRNL REFN ESSN 1439-7633 JRNL PMID 28869713 JRNL DOI 10.1002/CBIC.201700429 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.7.0029 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.49 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.5 REMARK 3 NUMBER OF REFLECTIONS : 48129 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) : 0.196 REMARK 3 R VALUE (WORKING SET) : 0.194 REMARK 3 FREE R VALUE : 0.236 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2589 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3269 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.93 REMARK 3 BIN R VALUE (WORKING SET) : 0.2870 REMARK 3 BIN FREE R VALUE SET COUNT : 169 REMARK 3 BIN FREE R VALUE : 0.3490 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6059 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 110 REMARK 3 SOLVENT ATOMS : 392 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.61 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.89000 REMARK 3 B22 (A**2) : 2.77000 REMARK 3 B33 (A**2) : -0.88000 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): 0.221 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.181 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.130 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.828 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.955 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.936 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6304 ; 0.017 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 6095 ; 0.005 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8595 ; 1.819 ; 1.998 REMARK 3 BOND ANGLES OTHERS (DEGREES): 13989 ; 1.093 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 775 ; 5.580 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 282 ;33.899 ;23.759 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1019 ;14.738 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 55 ;15.966 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 961 ; 0.100 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7112 ; 0.010 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1379 ; 0.006 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 NCS TYPE: LOCAL REMARK 3 NUMBER OF DIFFERENT NCS PAIRS : 1 REMARK 3 GROUP CHAIN1 RANGE CHAIN2 RANGE COUNT RMS WEIGHT REMARK 3 1 A 16 413 B 16 413 24485 0.09 0.05 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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 REMARK 4 REMARK 4 5Y1I COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 24-JUL-17. REMARK 100 THE DEPOSITION ID IS D_1300003962. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-OCT-13 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 : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NUMERICAL LINK TYPE SI(111) REMARK 200 DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 50746 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 56.190 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.2 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.10900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 8.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.00 REMARK 200 R MERGE FOR SHELL (I) : 0.57800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2Z36 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.22 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.2 M KCL, 0.1 M TRIS-HCL (PH 8.5) AND REMARK 280 27.5% PEG3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 299K 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 33.54000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 57.21500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 51.43500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 57.21500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 33.54000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 51.43500 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1170 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16810 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 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 350 REMARK 350 BIOMOLECULE: 2 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: 1180 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 GLY A 12 REMARK 465 SER A 13 REMARK 465 HIS A 14 REMARK 465 MET A 15 REMARK 465 LYS A 22 REMARK 465 ARG A 23 REMARK 465 ASP A 24 REMARK 465 MET A 94 REMARK 465 ALA A 95 REMARK 465 GLN A 96 REMARK 465 PRO A 97 REMARK 465 SER A 98 REMARK 465 GLY A 214 REMARK 465 ASP A 215 REMARK 465 ARG A 216 REMARK 465 GLY B 12 REMARK 465 SER B 13 REMARK 465 HIS B 14 REMARK 465 MET B 15 REMARK 465 MET B 94 REMARK 465 ALA B 95 REMARK 465 GLN B 96 REMARK 465 ASP B 215 REMARK 465 ARG B 216 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 B 730 O HOH B 763 2.04 REMARK 500 O HOH B 697 O HOH B 769 2.05 REMARK 500 O HOH A 639 O HOH A 674 2.15 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 65 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ARG A 111 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 112 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ASP A 139 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG A 174 CG - CD - NE ANGL. DEV. = 13.7 DEGREES REMARK 500 ARG B 65 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 ARG B 112 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG B 292 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG B 292 NE - CZ - NH2 ANGL. DEV. = -3.0 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 154 -48.06 -144.95 REMARK 500 HIS A 250 -70.14 -97.72 REMARK 500 THR A 295 66.95 25.66 REMARK 500 GLN A 298 -122.62 41.70 REMARK 500 CYS A 363 109.77 -35.75 REMARK 500 THR B 25 -41.03 -135.88 REMARK 500 SER B 98 153.56 167.32 REMARK 500 LEU B 154 -50.60 -142.15 REMARK 500 HIS B 250 -70.33 -96.71 REMARK 500 THR B 295 66.17 24.59 REMARK 500 GLN B 298 -125.06 40.90 REMARK 500 ASP B 299 33.11 -99.63 REMARK 500 CYS B 363 109.44 -34.85 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 363 SG REMARK 620 2 HEM A 501 NA 97.7 REMARK 620 3 HEM A 501 NB 87.2 91.8 REMARK 620 4 HEM A 501 NC 85.3 177.0 88.1 REMARK 620 5 HEM A 501 ND 95.7 87.9 177.1 92.0 REMARK 620 6 HOH A 654 O 175.3 84.3 88.5 92.7 88.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 363 SG REMARK 620 2 HEM B 501 NA 97.0 REMARK 620 3 HEM B 501 NB 85.1 90.3 REMARK 620 4 HEM B 501 NC 85.0 178.0 90.2 REMARK 620 5 HEM B 501 ND 96.6 89.9 178.2 89.5 REMARK 620 6 HOH B 638 O 174.9 82.2 89.8 95.8 88.4 REMARK 620 N 1 2 3 4 5 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 PEG A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEM B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PEG B 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PGE B 503 DBREF 5Y1I A 16 414 UNP E0D207 E0D207_9ACTN 16 414 DBREF 5Y1I B 16 414 UNP E0D207 E0D207_9ACTN 16 414 SEQADV 5Y1I GLY A 12 UNP E0D207 EXPRESSION TAG SEQADV 5Y1I SER A 13 UNP E0D207 EXPRESSION TAG SEQADV 5Y1I HIS A 14 UNP E0D207 EXPRESSION TAG SEQADV 5Y1I MET A 15 UNP E0D207 EXPRESSION TAG SEQADV 5Y1I GLY B 12 UNP E0D207 EXPRESSION TAG SEQADV 5Y1I SER B 13 UNP E0D207 EXPRESSION TAG SEQADV 5Y1I HIS B 14 UNP E0D207 EXPRESSION TAG SEQADV 5Y1I MET B 15 UNP E0D207 EXPRESSION TAG SEQRES 1 A 403 GLY SER HIS MET ALA PRO GLU TRP PRO MET LYS ARG ASP SEQRES 2 A 403 THR GLY CYS PRO PHE ASP PRO PRO PRO GLY VAL ARG LYS SEQRES 3 A 403 LEU LEU ALA GLU LYS PRO LEU SER ARG ALA ARG ILE TRP SEQRES 4 A 403 ASP GLY SER THR PRO TRP VAL VAL THR ARG HIS ALA ASP SEQRES 5 A 403 GLN ARG ALA LEU LEU SER ASP PRO ARG VAL SER HIS ASP SEQRES 6 A 403 GLY LEU ARG ASP GLY TYR PRO HIS ILE SER ALA ASP PHE SEQRES 7 A 403 LYS PHE LEU SER MET ALA GLN PRO SER PHE ALA GLY GLN SEQRES 8 A 403 ASP ASP PRO GLU HIS GLY ARG ILE ARG ARG MET VAL THR SEQRES 9 A 403 LEU PRO PHE THR ALA ARG ARG ILE GLU ALA MET ARG PRO SEQRES 10 A 403 ALA ILE GLN LYS ILE THR ASP GLU LEU ILE ASP GLY MET SEQRES 11 A 403 LEU ALA GLY PRO LYS PRO VAL ASP LEU VAL GLU ALA LEU SEQRES 12 A 403 ALA LEU PRO VAL PRO VAL ARG VAL ILE CYS GLU MET LEU SEQRES 13 A 403 GLY VAL PRO TYR GLU ASP ARG GLU PHE LEU GLN GLN ASN SEQRES 14 A 403 ASN ASN ALA MET ILE TYR ARG ASP THR ALA GLN GLY ASP SEQRES 15 A 403 ALA GLN LYS ALA ALA ILE ALA GLN ALA MET TYR LEU LYS SEQRES 16 A 403 GLU LEU VAL GLY THR LYS LEU GLY ASP ARG GLY ASP ASP SEQRES 17 A 403 ILE LEU SER ASP LEU ALA VAL GLN VAL GLU ALA GLY GLU SEQRES 18 A 403 ILE THR GLN ASP ASP ALA ALA GLY ILE GLY MET MET LEU SEQRES 19 A 403 LEU GLY ALA GLY HIS GLU THR THR ALA ASN MET ILE ALA SEQRES 20 A 403 LEU GLY THR LEU ALA LEU LEU GLU ASN PRO GLU GLN LEU SEQRES 21 A 403 ALA GLU VAL ARG ASP SER ASP ASP PRO LYS VAL ILE VAL SEQRES 22 A 403 ASN THR VAL GLU GLU LEU LEU ARG TYR LEU THR ILE ALA SEQRES 23 A 403 GLN ASP THR VAL ARG ARG ILE ALA ALA GLU ASP ILE GLU SEQRES 24 A 403 ILE GLY GLY VAL VAL ILE LYS ALA GLY GLU GLY ILE VAL SEQRES 25 A 403 PHE PRO LEU ASN ALA ALA ASN TRP ASP PRO ASP LEU TYR SEQRES 26 A 403 PRO GLU ALA PRO ASP ARG LEU ASP ILE HIS ARG ALA ASN SEQRES 27 A 403 ALA ARG ARG HIS LEU ALA PHE GLY TYR GLY VAL HIS GLN SEQRES 28 A 403 CYS LEU GLY ALA THR LEU ALA ARG VAL GLU LEU GLN ILE SEQRES 29 A 403 VAL TYR SER THR LEU LEU ARG ARG ILE PRO THR LEU ALA SEQRES 30 A 403 LEU ALA GLY THR LEU ASP GLU ILE PRO PHE LYS HIS ASP SEQRES 31 A 403 GLN ILE ALA HIS GLY VAL TYR GLU LEU PRO VAL THR TRP SEQRES 1 B 403 GLY SER HIS MET ALA PRO GLU TRP PRO MET LYS ARG ASP SEQRES 2 B 403 THR GLY CYS PRO PHE ASP PRO PRO PRO GLY VAL ARG LYS SEQRES 3 B 403 LEU LEU ALA GLU LYS PRO LEU SER ARG ALA ARG ILE TRP SEQRES 4 B 403 ASP GLY SER THR PRO TRP VAL VAL THR ARG HIS ALA ASP SEQRES 5 B 403 GLN ARG ALA LEU LEU SER ASP PRO ARG VAL SER HIS ASP SEQRES 6 B 403 GLY LEU ARG ASP GLY TYR PRO HIS ILE SER ALA ASP PHE SEQRES 7 B 403 LYS PHE LEU SER MET ALA GLN PRO SER PHE ALA GLY GLN SEQRES 8 B 403 ASP ASP PRO GLU HIS GLY ARG ILE ARG ARG MET VAL THR SEQRES 9 B 403 LEU PRO PHE THR ALA ARG ARG ILE GLU ALA MET ARG PRO SEQRES 10 B 403 ALA ILE GLN LYS ILE THR ASP GLU LEU ILE ASP GLY MET SEQRES 11 B 403 LEU ALA GLY PRO LYS PRO VAL ASP LEU VAL GLU ALA LEU SEQRES 12 B 403 ALA LEU PRO VAL PRO VAL ARG VAL ILE CYS GLU MET LEU SEQRES 13 B 403 GLY VAL PRO TYR GLU ASP ARG GLU PHE LEU GLN GLN ASN SEQRES 14 B 403 ASN ASN ALA MET ILE TYR ARG ASP THR ALA GLN GLY ASP SEQRES 15 B 403 ALA GLN LYS ALA ALA ILE ALA GLN ALA MET TYR LEU LYS SEQRES 16 B 403 GLU LEU VAL GLY THR LYS LEU GLY ASP ARG GLY ASP ASP SEQRES 17 B 403 ILE LEU SER ASP LEU ALA VAL GLN VAL GLU ALA GLY GLU SEQRES 18 B 403 ILE THR GLN ASP ASP ALA ALA GLY ILE GLY MET MET LEU SEQRES 19 B 403 LEU GLY ALA GLY HIS GLU THR THR ALA ASN MET ILE ALA SEQRES 20 B 403 LEU GLY THR LEU ALA LEU LEU GLU ASN PRO GLU GLN LEU SEQRES 21 B 403 ALA GLU VAL ARG ASP SER ASP ASP PRO LYS VAL ILE VAL SEQRES 22 B 403 ASN THR VAL GLU GLU LEU LEU ARG TYR LEU THR ILE ALA SEQRES 23 B 403 GLN ASP THR VAL ARG ARG ILE ALA ALA GLU ASP ILE GLU SEQRES 24 B 403 ILE GLY GLY VAL VAL ILE LYS ALA GLY GLU GLY ILE VAL SEQRES 25 B 403 PHE PRO LEU ASN ALA ALA ASN TRP ASP PRO ASP LEU TYR SEQRES 26 B 403 PRO GLU ALA PRO ASP ARG LEU ASP ILE HIS ARG ALA ASN SEQRES 27 B 403 ALA ARG ARG HIS LEU ALA PHE GLY TYR GLY VAL HIS GLN SEQRES 28 B 403 CYS LEU GLY ALA THR LEU ALA ARG VAL GLU LEU GLN ILE SEQRES 29 B 403 VAL TYR SER THR LEU LEU ARG ARG ILE PRO THR LEU ALA SEQRES 30 B 403 LEU ALA GLY THR LEU ASP GLU ILE PRO PHE LYS HIS ASP SEQRES 31 B 403 GLN ILE ALA HIS GLY VAL TYR GLU LEU PRO VAL THR TRP HET HEM A 501 43 HET PEG A 502 7 HET HEM B 501 43 HET PEG B 502 7 HET PGE B 503 10 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM PGE TRIETHYLENE GLYCOL HETSYN HEM HEME FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 4 PEG 2(C4 H10 O3) FORMUL 7 PGE C6 H14 O4 FORMUL 8 HOH *392(H2 O) HELIX 1 AA1 PRO A 32 LYS A 42 1 11 HELIX 2 AA2 ARG A 60 SER A 69 1 10 HELIX 3 AA3 SER A 86 SER A 93 1 8 HELIX 4 AA4 PRO A 105 MET A 113 1 9 HELIX 5 AA5 VAL A 114 PHE A 118 5 5 HELIX 6 AA6 THR A 119 MET A 126 1 8 HELIX 7 AA7 MET A 126 GLY A 144 1 19 HELIX 8 AA8 LEU A 150 LEU A 154 1 5 HELIX 9 AA9 LEU A 156 GLY A 168 1 13 HELIX 10 AB1 PRO A 170 GLU A 172 5 3 HELIX 11 AB2 ASP A 173 TYR A 186 1 14 HELIX 12 AB3 ALA A 190 LEU A 213 1 24 HELIX 13 AB4 ASP A 219 ALA A 230 1 12 HELIX 14 AB5 THR A 234 GLY A 249 1 16 HELIX 15 AB6 HIS A 250 ASN A 267 1 18 HELIX 16 AB7 ASN A 267 SER A 277 1 11 HELIX 17 AB8 PRO A 280 THR A 295 1 16 HELIX 18 AB9 PRO A 325 ASN A 330 1 6 HELIX 19 AC1 ASN A 349 HIS A 353 5 5 HELIX 20 AC2 TYR A 358 GLN A 362 5 5 HELIX 21 AC3 GLY A 365 ILE A 384 1 20 HELIX 22 AC4 THR A 392 ILE A 396 5 5 HELIX 23 AC5 PRO B 32 LYS B 42 1 11 HELIX 24 AC6 ARG B 60 SER B 69 1 10 HELIX 25 AC7 SER B 86 SER B 93 1 8 HELIX 26 AC8 SER B 98 GLN B 102 5 5 HELIX 27 AC9 PRO B 105 MET B 113 1 9 HELIX 28 AD1 VAL B 114 PHE B 118 5 5 HELIX 29 AD2 THR B 119 MET B 126 1 8 HELIX 30 AD3 MET B 126 GLY B 144 1 19 HELIX 31 AD4 LEU B 150 LEU B 154 1 5 HELIX 32 AD5 LEU B 156 GLY B 168 1 13 HELIX 33 AD6 PRO B 170 GLU B 172 5 3 HELIX 34 AD7 ASP B 173 MET B 184 1 12 HELIX 35 AD8 ALA B 190 GLY B 214 1 25 HELIX 36 AD9 ASP B 219 ALA B 230 1 12 HELIX 37 AE1 THR B 234 GLY B 249 1 16 HELIX 38 AE2 HIS B 250 ASN B 267 1 18 HELIX 39 AE3 ASN B 267 SER B 277 1 11 HELIX 40 AE4 PRO B 280 THR B 295 1 16 HELIX 41 AE5 PRO B 325 ASN B 330 1 6 HELIX 42 AE6 ASN B 349 HIS B 353 5 5 HELIX 43 AE7 TYR B 358 GLN B 362 5 5 HELIX 44 AE8 GLY B 365 ILE B 384 1 20 HELIX 45 AE9 THR B 392 ILE B 396 5 5 SHEET 1 AA1 5 LEU A 44 ARG A 46 0 SHEET 2 AA1 5 TRP A 56 VAL A 58 -1 O VAL A 57 N SER A 45 SHEET 3 AA1 5 GLY A 321 PHE A 324 1 O VAL A 323 N TRP A 56 SHEET 4 AA1 5 VAL A 301 ALA A 305 -1 N ARG A 303 O ILE A 322 SHEET 5 AA1 5 VAL A 73 SER A 74 -1 N SER A 74 O ILE A 304 SHEET 1 AA2 3 VAL A 148 ASP A 149 0 SHEET 2 AA2 3 PRO A 411 THR A 413 -1 O VAL A 412 N VAL A 148 SHEET 3 AA2 3 ALA A 388 LEU A 389 -1 N ALA A 388 O THR A 413 SHEET 1 AA3 2 ILE A 309 ILE A 311 0 SHEET 2 AA3 2 VAL A 314 ILE A 316 -1 O ILE A 316 N ILE A 309 SHEET 1 AA4 5 LEU B 44 ARG B 46 0 SHEET 2 AA4 5 TRP B 56 VAL B 58 -1 O VAL B 57 N SER B 45 SHEET 3 AA4 5 GLY B 321 PHE B 324 1 O VAL B 323 N TRP B 56 SHEET 4 AA4 5 VAL B 301 ALA B 305 -1 N ARG B 303 O ILE B 322 SHEET 5 AA4 5 VAL B 73 SER B 74 -1 N SER B 74 O ILE B 304 SHEET 1 AA5 3 VAL B 148 ASP B 149 0 SHEET 2 AA5 3 PRO B 411 THR B 413 -1 O VAL B 412 N VAL B 148 SHEET 3 AA5 3 ALA B 388 LEU B 389 -1 N ALA B 388 O THR B 413 SHEET 1 AA6 2 ILE B 309 ILE B 311 0 SHEET 2 AA6 2 VAL B 314 ILE B 316 -1 O ILE B 316 N ILE B 309 LINK SG CYS A 363 FE HEM A 501 1555 1555 2.17 LINK FE HEM A 501 O HOH A 654 1555 1555 2.04 LINK SG CYS B 363 FE HEM B 501 1555 1555 2.27 LINK FE HEM B 501 O HOH B 638 1555 1555 2.04 CISPEP 1 TRP A 19 PRO A 20 0 9.23 CISPEP 2 ASP A 104 PRO A 105 0 9.61 CISPEP 3 LYS A 146 PRO A 147 0 -0.39 CISPEP 4 TRP B 19 PRO B 20 0 11.58 CISPEP 5 ASP B 104 PRO B 105 0 7.96 CISPEP 6 LYS B 146 PRO B 147 0 -6.24 SITE 1 AC1 23 HIS A 75 PHE A 99 ALA A 100 HIS A 107 SITE 2 AC1 23 ARG A 111 PHE A 118 ALA A 248 GLY A 249 SITE 3 AC1 23 THR A 252 THR A 253 MET A 256 ARG A 303 SITE 4 AC1 23 ALA A 355 PHE A 356 GLY A 357 HIS A 361 SITE 5 AC1 23 CYS A 363 GLY A 365 ALA A 369 HOH A 652 SITE 6 AC1 23 HOH A 654 HOH A 682 HOH A 725 SITE 1 AC2 3 ALA A 100 THR A 300 HOH A 634 SITE 1 AC3 25 HIS B 75 PHE B 99 ALA B 100 HIS B 107 SITE 2 AC3 25 ARG B 111 PHE B 118 MET B 244 LEU B 245 SITE 3 AC3 25 ALA B 248 GLY B 249 THR B 252 THR B 253 SITE 4 AC3 25 MET B 256 VAL B 301 ARG B 303 ALA B 355 SITE 5 AC3 25 PHE B 356 VAL B 360 HIS B 361 CYS B 363 SITE 6 AC3 25 ALA B 369 HOH B 638 HOH B 658 HOH B 662 SITE 7 AC3 25 HOH B 704 SITE 1 AC4 4 THR B 252 THR B 300 HOH B 638 HOH B 735 SITE 1 AC5 3 ALA B 202 ASP B 236 HOH B 724 CRYST1 67.080 102.870 114.430 90.00 90.00 90.00 P 21 21 21 8 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 0.014908 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009721 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008739 0.00000