HEADER OXIDOREDUCTASE 20-JAN-06 2CD8 TITLE CRYSTAL STRUCTURE OF YC-17-BOUND CYTOCHROME P450 PIKC (CYP107L1) COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450 MONOOXYGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: CYTOCHROME P450 HYDROXYLASE PIKC, CYTOCHROME P450 PIKC COMPND 5 CYP107L1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STREPTOMYCES VENEZUELAE; SOURCE 3 ORGANISM_TAXID: 54571; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: HMS174(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PET; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET28A KEYWDS OXIDOREDUCTASE, CYTOCHROME P450, PIKC, YC-17, MACROLIDE KEYWDS 2 MONOOXYGENASE, ANTIBIOTIC BIOSYNTHESIS, HEME, IRON, METAL-BINDING EXPDTA X-RAY DIFFRACTION AUTHOR L.I.YERMALITSKAYA,Y.KIM,D.H.SHERMAN,M.R.WATERMAN,L.M.PODUST REVDAT 3 13-DEC-23 2CD8 1 REMARK LINK REVDAT 2 24-FEB-09 2CD8 1 VERSN REVDAT 1 20-FEB-07 2CD8 0 JRNL AUTH D.H.SHERMAN,S.LI,L.V.YERMALITSKAYA,Y.KIM,J.A.SMITH, JRNL AUTH 2 M.R.WATERMAN,L.M.PODUST JRNL TITL THE STRUCTURAL BASIS FOR SUBSTRATE ANCHORING, ACTIVE SITE JRNL TITL 2 SELECTIVITY, AND PRODUCT FORMATION BY P450 PIKC FROM JRNL TITL 3 STREPTOMYCES VENEZUELAE. JRNL REF J.BIOL.CHEM. V. 281 26289 2006 JRNL REFN ISSN 0021-9258 JRNL PMID 16825192 JRNL DOI 10.1074/JBC.M605478200 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.84 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 153672.180 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 90.6 REMARK 3 NUMBER OF REFLECTIONS : 71229 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 SET) : 0.290 REMARK 3 FREE R VALUE : 0.333 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 7136 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.81 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 71.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 8371 REMARK 3 BIN R VALUE (WORKING SET) : 0.3020 REMARK 3 BIN FREE R VALUE : 0.3640 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 9.80 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 913 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.012 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6051 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 150 REMARK 3 SOLVENT ATOMS : 255 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 19.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 23.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.20000 REMARK 3 B22 (A**2) : -4.13000 REMARK 3 B33 (A**2) : 4.33000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.29 REMARK 3 ESD FROM SIGMAA (A) : 0.15 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.36 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.26 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 21.80 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.100 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.340 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.860 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.920 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.350 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.37 REMARK 3 BSOL : 66.42 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 3 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER_REP.TOP REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: DISORDERED REGIONS WERE OMITTED FROM REMARK 3 THE STRUCTURE REMARK 4 REMARK 4 2CD8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 20-JAN-06. REMARK 100 THE DEPOSITION ID IS D_1290027375. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-DEC-05 REMARK 200 TEMPERATURE (KELVIN) : 110.0 REMARK 200 PH : 7.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 19-BM REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97872 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL SI111 REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 78149 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 200 DATA REDUNDANCY : 3.800 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 22.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.7 REMARK 200 DATA REDUNDANCY IN SHELL : 3.70 REMARK 200 R MERGE FOR SHELL (I) : 0.42000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 2BVJ REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.93 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.2 M MGCL2, 0.5 MM DTT, REMARK 280 1 MM YC-17, PH 7.50 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 46.05100 REMARK 290 SMTRY3 2 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: 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 MET A -19 REMARK 465 GLY A -18 REMARK 465 SER A -17 REMARK 465 SER A -16 REMARK 465 HIS A -15 REMARK 465 HIS A -14 REMARK 465 HIS A -13 REMARK 465 HIS A -12 REMARK 465 HIS A -11 REMARK 465 HIS A -10 REMARK 465 SER A -9 REMARK 465 SER A -8 REMARK 465 GLY A -7 REMARK 465 LEU A -6 REMARK 465 VAL A -5 REMARK 465 PRO A -4 REMARK 465 ARG A -3 REMARK 465 GLY A -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ARG A 2 REMARK 465 ARG A 3 REMARK 465 THR A 4 REMARK 465 GLN A 5 REMARK 465 GLN A 6 REMARK 465 GLY A 7 REMARK 465 THR A 8 REMARK 465 THR A 9 REMARK 465 ALA A 10 REMARK 465 SER A 11 REMARK 465 PRO A 12 REMARK 465 PRO A 13 REMARK 465 ARG A 406 REMARK 465 ARG A 407 REMARK 465 GLY A 408 REMARK 465 ARG A 409 REMARK 465 GLU A 410 REMARK 465 ALA A 411 REMARK 465 GLY A 412 REMARK 465 ARG A 413 REMARK 465 ARG A 414 REMARK 465 THR A 415 REMARK 465 GLY A 416 REMARK 465 MET B -19 REMARK 465 GLY B -18 REMARK 465 SER B -17 REMARK 465 SER B -16 REMARK 465 HIS B -15 REMARK 465 HIS B -14 REMARK 465 HIS B -13 REMARK 465 HIS B -12 REMARK 465 HIS B -11 REMARK 465 HIS B -10 REMARK 465 SER B -9 REMARK 465 SER B -8 REMARK 465 GLY B -7 REMARK 465 LEU B -6 REMARK 465 VAL B -5 REMARK 465 PRO B -4 REMARK 465 ARG B -3 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 ARG B 2 REMARK 465 ARG B 3 REMARK 465 THR B 4 REMARK 465 GLN B 5 REMARK 465 GLN B 6 REMARK 465 GLY B 7 REMARK 465 THR B 8 REMARK 465 THR B 9 REMARK 465 ALA B 10 REMARK 465 SER B 11 REMARK 465 PRO B 12 REMARK 465 PRO B 13 REMARK 465 ARG B 407 REMARK 465 GLY B 408 REMARK 465 ARG B 409 REMARK 465 GLU B 410 REMARK 465 ALA B 411 REMARK 465 GLY B 412 REMARK 465 ARG B 413 REMARK 465 ARG B 414 REMARK 465 THR B 415 REMARK 465 GLY B 416 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 109 CG CD NE CZ NH1 NH2 REMARK 470 PHE A 180 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU A 300 CG CD OE1 OE2 REMARK 470 TRP A 405 CA C O CB CG CD1 CD2 REMARK 470 TRP A 405 NE1 CE2 CE3 CZ2 CZ3 CH2 REMARK 470 GLU B 51 CG CD OE1 OE2 REMARK 470 GLU B 83 CG CD OE1 OE2 REMARK 470 ARG B 109 CG CD NE CZ NH1 NH2 REMARK 470 PHE B 180 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU B 300 CG CD OE1 OE2 REMARK 470 ASP B 377 CG OD1 OD2 REMARK 470 ARG B 406 CA C O CB CG CD NE REMARK 470 ARG B 406 CZ NH1 NH2 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 GLU A 38 -63.30 -92.99 REMARK 500 TYR A 58 -70.72 -32.93 REMARK 500 GLU A 94 52.87 -111.72 REMARK 500 ALA A 137 105.48 -51.80 REMARK 500 PRO A 138 25.60 -67.24 REMARK 500 LEU A 148 -53.95 -139.08 REMARK 500 ASP A 183 152.15 172.43 REMARK 500 PRO A 184 3.25 -57.89 REMARK 500 HIS A 245 -83.51 -76.09 REMARK 500 GLU A 287 52.12 -149.22 REMARK 500 ALA A 342 124.12 -28.83 REMARK 500 CYS A 354 115.00 -37.60 REMARK 500 ARG A 374 -81.36 -55.74 REMARK 500 CYS A 375 92.73 -35.57 REMARK 500 ASP A 377 52.03 -99.93 REMARK 500 ASP A 381 42.82 -106.46 REMARK 500 GLU B 117 1.60 -69.09 REMARK 500 LEU B 135 42.69 -74.91 REMARK 500 LEU B 148 -60.19 -145.00 REMARK 500 LEU B 160 36.53 -86.53 REMARK 500 LEU B 161 -37.58 -159.35 REMARK 500 ASP B 182 -8.71 -58.95 REMARK 500 ASP B 183 145.74 -178.70 REMARK 500 ASP B 224 107.66 -163.10 REMARK 500 SER B 226 -48.61 -134.62 REMARK 500 LEU B 228 108.96 -160.68 REMARK 500 HIS B 245 -78.36 -93.26 REMARK 500 ASP B 272 49.17 -147.35 REMARK 500 MET B 273 -12.65 -47.62 REMARK 500 LEU B 276 -72.79 -42.52 REMARK 500 ASP B 305 -8.07 59.86 REMARK 500 ALA B 342 75.07 -66.44 REMARK 500 HIS B 349 142.10 -171.17 REMARK 500 CYS B 354 113.88 -39.06 REMARK 500 ASP B 381 35.81 -96.34 REMARK 500 VAL B 382 -171.93 -178.08 REMARK 500 ASN B 392 122.30 -26.95 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 419 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 354 SG REMARK 620 2 HEM A 419 NA 97.7 REMARK 620 3 HEM A 419 NB 86.8 91.3 REMARK 620 4 HEM A 419 NC 87.3 174.6 90.9 REMARK 620 5 HEM A 419 ND 102.8 88.4 170.3 88.7 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 419 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 354 SG REMARK 620 2 HEM B 419 NA 99.2 REMARK 620 3 HEM B 419 NB 81.0 90.5 REMARK 620 4 HEM B 419 NC 85.5 175.3 89.5 REMARK 620 5 HEM B 419 ND 109.7 90.1 169.1 89.1 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 419 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PXI A 420 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM B 419 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PXI B 420 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2BVJ RELATED DB: PDB REMARK 900 LIGAND-FREE STRUCTURE OF CYTOCHROME P450 PIKC (CYP107L1) REMARK 900 RELATED ID: 2C6H RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF YC-17-BOUND CYTOCHROME P450 PIKC (CYP107L1) REMARK 900 RELATED ID: 2C7X RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF NARBOMYCIN-BOUND CYTOCHROME P450 PIKC REMARK 900 (CYP107L1) REMARK 900 RELATED ID: 2CA0 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF YC-17-BOUND CYTOCHROME P450 PIKC (CYP107L1) REMARK 999 REMARK 999 SEQUENCE REMARK 999 FIRST 20 RESIDUES INCLUDING 6X HIS-TAG AND THROMBIN REMARK 999 CLEAVAGE SITE ARE FROM THE CLONING VECTOR PET28A DBREF 2CD8 A -19 0 PDB 2CD8 2CD8 -19 0 DBREF 2CD8 A 1 416 UNP O87605 O87605_9ACTO 1 416 DBREF 2CD8 B -19 0 PDB 2CD8 2CD8 -19 0 DBREF 2CD8 B 1 416 UNP O87605 O87605_9ACTO 1 416 SEQRES 1 A 436 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 A 436 LEU VAL PRO ARG GLY SER HIS MET ARG ARG THR GLN GLN SEQRES 3 A 436 GLY THR THR ALA SER PRO PRO VAL LEU ASP LEU GLY ALA SEQRES 4 A 436 LEU GLY GLN ASP PHE ALA ALA ASP PRO TYR PRO THR TYR SEQRES 5 A 436 ALA ARG LEU ARG ALA GLU GLY PRO ALA HIS ARG VAL ARG SEQRES 6 A 436 THR PRO GLU GLY ASP GLU VAL TRP LEU VAL VAL GLY TYR SEQRES 7 A 436 ASP ARG ALA ARG ALA VAL LEU ALA ASP PRO ARG PHE SER SEQRES 8 A 436 LYS ASP TRP ARG ASN SER THR THR PRO LEU THR GLU ALA SEQRES 9 A 436 GLU ALA ALA LEU ASN HIS ASN MET LEU GLU SER ASP PRO SEQRES 10 A 436 PRO ARG HIS THR ARG LEU ARG LYS LEU VAL ALA ARG GLU SEQRES 11 A 436 PHE THR MET ARG ARG VAL GLU LEU LEU ARG PRO ARG VAL SEQRES 12 A 436 GLN GLU ILE VAL ASP GLY LEU VAL ASP ALA MET LEU ALA SEQRES 13 A 436 ALA PRO ASP GLY ARG ALA ASP LEU MET GLU SER LEU ALA SEQRES 14 A 436 TRP PRO LEU PRO ILE THR VAL ILE SER GLU LEU LEU GLY SEQRES 15 A 436 VAL PRO GLU PRO ASP ARG ALA ALA PHE ARG VAL TRP THR SEQRES 16 A 436 ASP ALA PHE VAL PHE PRO ASP ASP PRO ALA GLN ALA GLN SEQRES 17 A 436 THR ALA MET ALA GLU MET SER GLY TYR LEU SER ARG LEU SEQRES 18 A 436 ILE ASP SER LYS ARG GLY GLN ASP GLY GLU ASP LEU LEU SEQRES 19 A 436 SER ALA LEU VAL ARG THR SER ASP GLU ASP GLY SER ARG SEQRES 20 A 436 LEU THR SER GLU GLU LEU LEU GLY MET ALA HIS ILE LEU SEQRES 21 A 436 LEU VAL ALA GLY HIS GLU THR THR VAL ASN LEU ILE ALA SEQRES 22 A 436 ASN GLY MET TYR ALA LEU LEU SER HIS PRO ASP GLN LEU SEQRES 23 A 436 ALA ALA LEU ARG ALA ASP MET THR LEU LEU ASP GLY ALA SEQRES 24 A 436 VAL GLU GLU MET LEU ARG TYR GLU GLY PRO VAL GLU SER SEQRES 25 A 436 ALA THR TYR ARG PHE PRO VAL GLU PRO VAL ASP LEU ASP SEQRES 26 A 436 GLY THR VAL ILE PRO ALA GLY ASP THR VAL LEU VAL VAL SEQRES 27 A 436 LEU ALA ASP ALA HIS ARG THR PRO GLU ARG PHE PRO ASP SEQRES 28 A 436 PRO HIS ARG PHE ASP ILE ARG ARG ASP THR ALA GLY HIS SEQRES 29 A 436 LEU ALA PHE GLY HIS GLY ILE HIS PHE CYS ILE GLY ALA SEQRES 30 A 436 PRO LEU ALA ARG LEU GLU ALA ARG ILE ALA VAL ARG ALA SEQRES 31 A 436 LEU LEU GLU ARG CYS PRO ASP LEU ALA LEU ASP VAL SER SEQRES 32 A 436 PRO GLY GLU LEU VAL TRP TYR PRO ASN PRO MET ILE ARG SEQRES 33 A 436 GLY LEU LYS ALA LEU PRO ILE ARG TRP ARG ARG GLY ARG SEQRES 34 A 436 GLU ALA GLY ARG ARG THR GLY SEQRES 1 B 436 MET GLY SER SER HIS HIS HIS HIS HIS HIS SER SER GLY SEQRES 2 B 436 LEU VAL PRO ARG GLY SER HIS MET ARG ARG THR GLN GLN SEQRES 3 B 436 GLY THR THR ALA SER PRO PRO VAL LEU ASP LEU GLY ALA SEQRES 4 B 436 LEU GLY GLN ASP PHE ALA ALA ASP PRO TYR PRO THR TYR SEQRES 5 B 436 ALA ARG LEU ARG ALA GLU GLY PRO ALA HIS ARG VAL ARG SEQRES 6 B 436 THR PRO GLU GLY ASP GLU VAL TRP LEU VAL VAL GLY TYR SEQRES 7 B 436 ASP ARG ALA ARG ALA VAL LEU ALA ASP PRO ARG PHE SER SEQRES 8 B 436 LYS ASP TRP ARG ASN SER THR THR PRO LEU THR GLU ALA SEQRES 9 B 436 GLU ALA ALA LEU ASN HIS ASN MET LEU GLU SER ASP PRO SEQRES 10 B 436 PRO ARG HIS THR ARG LEU ARG LYS LEU VAL ALA ARG GLU SEQRES 11 B 436 PHE THR MET ARG ARG VAL GLU LEU LEU ARG PRO ARG VAL SEQRES 12 B 436 GLN GLU ILE VAL ASP GLY LEU VAL ASP ALA MET LEU ALA SEQRES 13 B 436 ALA PRO ASP GLY ARG ALA ASP LEU MET GLU SER LEU ALA SEQRES 14 B 436 TRP PRO LEU PRO ILE THR VAL ILE SER GLU LEU LEU GLY SEQRES 15 B 436 VAL PRO GLU PRO ASP ARG ALA ALA PHE ARG VAL TRP THR SEQRES 16 B 436 ASP ALA PHE VAL PHE PRO ASP ASP PRO ALA GLN ALA GLN SEQRES 17 B 436 THR ALA MET ALA GLU MET SER GLY TYR LEU SER ARG LEU SEQRES 18 B 436 ILE ASP SER LYS ARG GLY GLN ASP GLY GLU ASP LEU LEU SEQRES 19 B 436 SER ALA LEU VAL ARG THR SER ASP GLU ASP GLY SER ARG SEQRES 20 B 436 LEU THR SER GLU GLU LEU LEU GLY MET ALA HIS ILE LEU SEQRES 21 B 436 LEU VAL ALA GLY HIS GLU THR THR VAL ASN LEU ILE ALA SEQRES 22 B 436 ASN GLY MET TYR ALA LEU LEU SER HIS PRO ASP GLN LEU SEQRES 23 B 436 ALA ALA LEU ARG ALA ASP MET THR LEU LEU ASP GLY ALA SEQRES 24 B 436 VAL GLU GLU MET LEU ARG TYR GLU GLY PRO VAL GLU SER SEQRES 25 B 436 ALA THR TYR ARG PHE PRO VAL GLU PRO VAL ASP LEU ASP SEQRES 26 B 436 GLY THR VAL ILE PRO ALA GLY ASP THR VAL LEU VAL VAL SEQRES 27 B 436 LEU ALA ASP ALA HIS ARG THR PRO GLU ARG PHE PRO ASP SEQRES 28 B 436 PRO HIS ARG PHE ASP ILE ARG ARG ASP THR ALA GLY HIS SEQRES 29 B 436 LEU ALA PHE GLY HIS GLY ILE HIS PHE CYS ILE GLY ALA SEQRES 30 B 436 PRO LEU ALA ARG LEU GLU ALA ARG ILE ALA VAL ARG ALA SEQRES 31 B 436 LEU LEU GLU ARG CYS PRO ASP LEU ALA LEU ASP VAL SER SEQRES 32 B 436 PRO GLY GLU LEU VAL TRP TYR PRO ASN PRO MET ILE ARG SEQRES 33 B 436 GLY LEU LYS ALA LEU PRO ILE ARG TRP ARG ARG GLY ARG SEQRES 34 B 436 GLU ALA GLY ARG ARG THR GLY HET HEM A 419 43 HET PXI A 420 32 HET HEM B 419 43 HET PXI B 420 32 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM PXI 4-{[4-(DIMETHYLAMINO)-3-HYDROXY-6-METHYLTETRAHYDRO-2H- HETNAM 2 PXI PYRAN-2-YL]OXY}-12-ETHYL-3,5,7,11- HETNAM 3 PXI TETRAMETHYLOXACYCLODODEC-9-ENE-2,8-DIONE HETSYN HEM HEME FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 4 PXI 2(C25 H43 N O6) FORMUL 7 HOH *255(H2 O) HELIX 1 1 ASP A 16 ASP A 27 1 12 HELIX 2 2 PRO A 28 ALA A 37 1 10 HELIX 3 3 GLY A 57 ASP A 67 1 11 HELIX 4 4 ASP A 73 SER A 77 5 5 HELIX 5 5 ALA A 84 LEU A 88 5 5 HELIX 6 6 ASN A 91 SER A 95 5 5 HELIX 7 7 PRO A 98 ALA A 108 1 11 HELIX 8 8 ARG A 109 PHE A 111 5 3 HELIX 9 9 THR A 112 LEU A 118 1 7 HELIX 10 10 LEU A 119 ALA A 136 1 18 HELIX 11 11 LEU A 144 LEU A 148 1 5 HELIX 12 12 TRP A 150 GLY A 162 1 13 HELIX 13 13 PRO A 164 PRO A 166 5 3 HELIX 14 14 ASP A 167 PHE A 180 1 14 HELIX 15 15 ALA A 185 ARG A 206 1 22 HELIX 16 16 ASP A 212 ASP A 224 1 13 HELIX 17 17 THR A 229 ALA A 243 1 15 HELIX 18 18 GLY A 244 SER A 261 1 18 HELIX 19 19 HIS A 262 ASP A 272 1 11 HELIX 20 20 LEU A 275 GLY A 288 1 14 HELIX 21 21 VAL A 318 HIS A 323 1 6 HELIX 22 22 GLY A 356 ARG A 374 1 19 HELIX 23 23 SER A 383 LEU A 387 5 5 HELIX 24 24 LEU B 20 ASP B 27 1 8 HELIX 25 25 PRO B 28 GLY B 39 1 12 HELIX 26 26 GLY B 57 ASP B 67 1 11 HELIX 27 27 ASP B 73 SER B 77 5 5 HELIX 28 28 THR B 82 ALA B 87 1 6 HELIX 29 29 ASN B 91 SER B 95 5 5 HELIX 30 30 PRO B 98 ALA B 108 1 11 HELIX 31 31 ARG B 109 PHE B 111 5 3 HELIX 32 32 THR B 112 GLU B 117 1 6 HELIX 33 33 LEU B 119 LEU B 135 1 17 HELIX 34 34 LEU B 144 LEU B 148 1 5 HELIX 35 35 TRP B 150 LEU B 160 1 11 HELIX 36 36 PRO B 164 PRO B 166 5 3 HELIX 37 37 ASP B 167 PHE B 180 1 14 HELIX 38 38 ASP B 183 ARG B 206 1 24 HELIX 39 39 ASP B 212 ASP B 224 1 13 HELIX 40 40 THR B 229 ALA B 243 1 15 HELIX 41 41 HIS B 245 HIS B 262 1 18 HELIX 42 42 HIS B 262 ALA B 271 1 10 HELIX 43 43 ASP B 272 THR B 274 5 3 HELIX 44 44 LEU B 275 GLY B 288 1 14 HELIX 45 45 VAL B 318 HIS B 323 1 6 HELIX 46 46 GLY B 356 CYS B 375 1 20 SHEET 1 AA 3 ALA A 41 ARG A 45 0 SHEET 2 AA 3 GLU A 51 VAL A 55 -1 O VAL A 52 N VAL A 44 SHEET 3 AA 3 VAL A 315 VAL A 317 1 O LEU A 316 N VAL A 55 SHEET 1 AB 2 PHE A 70 SER A 71 0 SHEET 2 AB 2 PHE A 297 PRO A 298 -1 O PHE A 297 N SER A 71 SHEET 1 AC 3 ALA A 142 ASP A 143 0 SHEET 2 AC 3 PRO A 402 ARG A 404 -1 O ILE A 403 N ALA A 142 SHEET 3 AC 3 ALA A 379 LEU A 380 -1 O ALA A 379 N ARG A 404 SHEET 1 AD 2 VAL A 302 LEU A 304 0 SHEET 2 AD 2 THR A 307 ILE A 309 -1 O THR A 307 N LEU A 304 SHEET 1 BA 4 LEU B 15 ASP B 16 0 SHEET 2 BA 4 ALA B 41 ARG B 45 1 O ARG B 43 N LEU B 15 SHEET 3 BA 4 GLU B 51 VAL B 55 -1 O VAL B 52 N VAL B 44 SHEET 4 BA 4 VAL B 315 VAL B 317 1 O LEU B 316 N VAL B 55 SHEET 1 BB 2 PHE B 70 SER B 71 0 SHEET 2 BB 2 PHE B 297 PRO B 298 -1 O PHE B 297 N SER B 71 SHEET 1 BC 3 ARG B 141 ASP B 143 0 SHEET 2 BC 3 PRO B 402 ARG B 404 -1 O ILE B 403 N ALA B 142 SHEET 3 BC 3 ALA B 379 LEU B 380 -1 O ALA B 379 N ARG B 404 SHEET 1 BD 2 VAL B 302 LEU B 304 0 SHEET 2 BD 2 THR B 307 ILE B 309 -1 O THR B 307 N LEU B 304 LINK SG CYS A 354 FE HEM A 419 1555 1555 2.73 LINK SG CYS B 354 FE HEM B 419 1555 1555 2.90 CISPEP 1 PRO A 97 PRO A 98 0 0.20 CISPEP 2 PRO B 97 PRO B 98 0 0.03 SITE 1 AC1 25 LYS A 72 MET A 92 LEU A 93 HIS A 100 SITE 2 AC1 25 ARG A 104 PHE A 111 ALA A 243 GLY A 244 SITE 3 AC1 25 THR A 247 THR A 248 LEU A 251 ALA A 293 SITE 4 AC1 25 THR A 294 ARG A 296 ALA A 346 PHE A 347 SITE 5 AC1 25 GLY A 348 ILE A 351 HIS A 352 CYS A 354 SITE 6 AC1 25 ILE A 355 GLY A 356 LEU A 359 PXI A 420 SITE 7 AC1 25 HOH A2138 SITE 1 AC2 15 TRP A 74 GLU A 85 LEU A 88 ASN A 89 SITE 2 AC2 15 LEU A 93 GLU A 94 PHE A 178 VAL A 179 SITE 3 AC2 15 VAL A 242 ALA A 243 VAL A 290 SER A 292 SITE 4 AC2 15 THR A 294 HEM A 419 HOH A2139 SITE 1 AC3 24 MET B 92 LEU B 93 HIS B 100 ARG B 104 SITE 2 AC3 24 PHE B 111 LEU B 240 ALA B 243 GLY B 244 SITE 3 AC3 24 THR B 247 THR B 248 LEU B 251 PRO B 289 SITE 4 AC3 24 ALA B 293 THR B 294 ARG B 296 ALA B 346 SITE 5 AC3 24 ILE B 351 HIS B 352 CYS B 354 ILE B 355 SITE 6 AC3 24 GLY B 356 ALA B 360 PXI B 420 HOH B2102 SITE 1 AC4 16 GLU B 85 LEU B 88 ASN B 89 LEU B 93 SITE 2 AC4 16 GLU B 94 PHE B 178 VAL B 179 MET B 191 SITE 3 AC4 16 HIS B 238 VAL B 242 ALA B 243 GLU B 246 SITE 4 AC4 16 VAL B 290 THR B 294 ILE B 395 HEM B 419 CRYST1 58.401 92.102 67.574 90.00 89.99 90.00 P 1 21 1 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 0.017123 0.000000 -0.000003 0.00000 SCALE2 0.000000 0.010858 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014799 0.00000 MTRIX1 1 -0.997850 0.044820 0.047760 28.02234 1 MTRIX2 1 -0.043440 -0.998620 0.029580 -21.37904 1 MTRIX3 1 0.049020 0.027440 0.998420 -38.80744 1