HEADER OXIDOREDUCTASE 30-JUL-08 2VZ7 TITLE CRYSTAL STRUCTURE OF THE YC-17-BOUND PIKC D50N MUTANT COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450 MONOOXYGENASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: PIKC, CYTOCHROME P450 HYDROXYLASE PIKC; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: 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, ANTIBIOTIC BIOSYNTHESIS, PIKC, IRON, HEME, CYP107L1, KEYWDS 2 MONOOXYGENASE, MACROLIDE MONOOXYGENASE, METAL-BINDING, CYTOCHROME KEYWDS 3 P450 EXPDTA X-RAY DIFFRACTION AUTHOR S.LI,D.H.SHERMAN,L.M.PODUST REVDAT 6 13-DEC-23 2VZ7 1 REMARK LINK REVDAT 5 08-MAY-19 2VZ7 1 REMARK REVDAT 4 03-MAR-09 2VZ7 1 JRNL REMARK REVDAT 3 20-JAN-09 2VZ7 1 JRNL REVDAT 2 13-JAN-09 2VZ7 1 VERSN JRNL REMARK REVDAT 1 12-AUG-08 2VZ7 0 SPRSDE 12-AUG-08 2VZ7 2VSJ JRNL AUTH S.LI,H.OUELLET,D.H.SHERMAN,L.M.PODUST JRNL TITL ANALYSIS OF TRANSIENT AND CATALYTIC DESOSAMINE BINDING JRNL TITL 2 POCKETS IN CYTOCHROME P450 PIKC FROM STREPTOMYCES JRNL TITL 3 VENEZUELAE. JRNL REF J.BIOL.CHEM. V. 284 5723 2009 JRNL REFN ISSN 0021-9258 JRNL PMID 19124459 JRNL DOI 10.1074/JBC.M807592200 REMARK 2 REMARK 2 RESOLUTION. 3.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 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 : MLF REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 49.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 46156.970 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 94.5 REMARK 3 NUMBER OF REFLECTIONS : 16262 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) : 0.179 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1628 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.006 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) : 3.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.40 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.60 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2208 REMARK 3 BIN R VALUE (WORKING SET) : 0.2580 REMARK 3 BIN FREE R VALUE : 0.3500 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.90 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 269 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.021 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6116 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 150 REMARK 3 SOLVENT ATOMS : 175 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 50.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -4.36000 REMARK 3 B22 (A**2) : 14.80000 REMARK 3 B33 (A**2) : -10.44000 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) : 0.42 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) : 0.43 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.55 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) : 21.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.110 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) : 1.110 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.930 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.550 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.500 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 34.44 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED, DISORDERED REMARK 3 REGIONS WERE OMITTED FROM THE STRUCTURE REMARK 4 REMARK 4 2VZ7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-JUL-08. REMARK 100 THE DEPOSITION ID IS D_1290037084. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 26-AUG-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 8.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.11587 REMARK 200 MONOCHROMATOR : SI (111) DOUBLE CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17318 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.200 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 (%) : 100.0 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.13000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.9000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.31 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.46000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 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: PDB ENTRY 2C6H REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 4000; 0.1 M BIS-TRIS, PH 6.5; REMARK 280 0.2 M LITHIUM SULFATE; T=23 C, TEMPERATURE 296K 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 29.93100 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 76.52000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 54.66150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 76.52000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 29.93100 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 54.66150 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: 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, ASP 50 TO ASN REMARK 400 ENGINEERED RESIDUE IN CHAIN B, ASP 50 TO ASN 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 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 PRO A 12 CG CD REMARK 470 GLU A 83 CG CD OE1 OE2 REMARK 470 ASP A 182 CG OD1 OD2 REMARK 470 ARG A 406 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 407 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 386 CG CD OE1 OE2 REMARK 470 ARG B 404 CG CD NE CZ NH1 NH2 REMARK 470 ARG B 406 CG CD NE 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 VAL A 14 99.77 94.17 REMARK 500 ASN A 50 145.46 -8.95 REMARK 500 TYR A 58 -72.58 -34.50 REMARK 500 ALA A 86 -28.03 -39.35 REMARK 500 HIS A 90 57.21 -117.90 REMARK 500 LEU A 144 -5.29 -56.71 REMARK 500 LEU A 148 -53.82 -146.24 REMARK 500 VAL A 179 -176.42 -69.65 REMARK 500 ASP A 183 115.12 177.36 REMARK 500 LEU A 241 -61.14 -90.24 REMARK 500 HIS A 245 -101.94 -86.99 REMARK 500 ALA A 268 -70.44 -46.06 REMARK 500 ASP A 305 96.91 53.57 REMARK 500 PRO A 332 -70.67 -40.36 REMARK 500 HIS A 333 9.35 -61.30 REMARK 500 CYS A 354 126.06 -32.65 REMARK 500 GLU A 373 -76.92 -74.80 REMARK 500 ARG A 374 18.05 -62.82 REMARK 500 ASP A 377 40.44 37.34 REMARK 500 ARG A 406 101.89 -41.71 REMARK 500 TRP B 74 -8.43 -53.33 REMARK 500 THR B 82 -166.43 -75.59 REMARK 500 ALA B 86 -9.44 -56.67 REMARK 500 ASN B 89 37.29 -89.49 REMARK 500 LEU B 148 -57.63 -149.00 REMARK 500 PHE B 180 67.10 -117.44 REMARK 500 LEU B 228 99.04 -166.84 REMARK 500 HIS B 245 -84.88 -60.20 REMARK 500 THR B 294 -172.03 -61.04 REMARK 500 ASP B 305 61.84 14.22 REMARK 500 LEU B 345 22.32 -79.57 REMARK 500 ARG B 369 -76.00 -45.67 REMARK 500 ALA B 370 -34.92 -38.86 REMARK 500 ASP B 381 51.52 -105.83 REMARK 500 VAL B 382 167.23 174.59 REMARK 500 PRO B 384 -17.16 -43.78 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH B2010 DISTANCE = 6.71 ANGSTROMS REMARK 525 HOH B2034 DISTANCE = 5.96 ANGSTROMS 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 A1407 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 354 SG REMARK 620 2 HEM A1407 NA 99.0 REMARK 620 3 HEM A1407 NB 87.7 89.5 REMARK 620 4 HEM A1407 NC 83.1 177.9 90.4 REMARK 620 5 HEM A1407 ND 104.1 90.4 168.1 89.3 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 1407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PXI A 1408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM B 1407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE PXI B 1408 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2CD8 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF YC-17-BOUND CYTOCHROME P450 PIKC (CYP107L1) REMARK 900 RELATED ID: 2CA0 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF YC-17-BOUND 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: 2BVJ RELATED DB: PDB REMARK 900 LIGAND-FREE STRUCTURE OF 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 999 REMARK 999 SEQUENCE REMARK 999 ENGINEERED MUTATION D50N ENGINEERED 6XHIS TAG AT THE N- REMARK 999 TERMINUS DBREF 2VZ7 A -19 0 PDB 2VZ7 2VZ7 -19 0 DBREF 2VZ7 A 1 416 UNP O87605 O87605_9ACTO 1 416 DBREF 2VZ7 B -19 0 PDB 2VZ7 2VZ7 -19 0 DBREF 2VZ7 B 1 416 UNP O87605 O87605_9ACTO 1 416 SEQADV 2VZ7 ASN A 50 UNP O87605 ASP 50 ENGINEERED MUTATION SEQADV 2VZ7 ASN B 50 UNP O87605 ASP 50 ENGINEERED MUTATION 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 ASN 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 ASN 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 A1407 43 HET PXI A1408 32 HET HEM B1407 43 HET PXI B1408 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 *175(H2 O) HELIX 1 1 PRO A 28 GLY A 39 1 12 HELIX 2 2 GLY A 57 ASP A 67 1 11 HELIX 3 3 ASP A 73 SER A 77 5 5 HELIX 4 4 THR A 82 ALA A 87 1 6 HELIX 5 5 ASN A 91 SER A 95 5 5 HELIX 6 6 PRO A 98 ARG A 109 1 12 HELIX 7 7 THR A 112 LEU A 118 1 7 HELIX 8 8 LEU A 119 ALA A 137 1 19 HELIX 9 9 LEU A 144 LEU A 148 1 5 HELIX 10 10 TRP A 150 LEU A 161 1 12 HELIX 11 11 PRO A 164 ASP A 167 5 4 HELIX 12 12 ARG A 168 VAL A 179 1 12 HELIX 13 13 ASP A 183 ARG A 206 1 24 HELIX 14 14 ASP A 212 ASP A 224 1 13 HELIX 15 15 THR A 229 ALA A 243 1 15 HELIX 16 16 HIS A 245 SER A 261 1 17 HELIX 17 17 HIS A 262 ASP A 272 1 11 HELIX 18 18 LEU A 275 GLY A 288 1 14 HELIX 19 19 VAL A 318 HIS A 323 1 6 HELIX 20 20 GLY A 356 CYS A 375 1 20 HELIX 21 21 GLY B 21 ASP B 27 1 7 HELIX 22 22 PRO B 28 GLY B 39 1 12 HELIX 23 23 GLY B 57 ASP B 67 1 11 HELIX 24 24 ASP B 73 SER B 77 5 5 HELIX 25 25 ALA B 84 LEU B 88 5 5 HELIX 26 26 ASN B 91 SER B 95 5 5 HELIX 27 27 PRO B 98 ALA B 108 1 11 HELIX 28 28 ARG B 109 PHE B 111 5 3 HELIX 29 29 THR B 112 GLU B 117 1 6 HELIX 30 30 LEU B 119 ALA B 136 1 18 HELIX 31 31 LEU B 144 LEU B 148 1 5 HELIX 32 32 TRP B 150 GLY B 162 1 13 HELIX 33 33 PRO B 164 ASP B 167 5 4 HELIX 34 34 ARG B 168 PHE B 180 1 13 HELIX 35 35 ASP B 183 ARG B 206 1 24 HELIX 36 36 ASP B 212 ASP B 224 1 13 HELIX 37 37 THR B 229 HIS B 262 1 34 HELIX 38 38 HIS B 262 ASP B 272 1 11 HELIX 39 39 LEU B 275 GLU B 287 1 13 HELIX 40 40 VAL B 318 ARG B 324 1 7 HELIX 41 41 HIS B 344 GLY B 348 5 5 HELIX 42 42 GLY B 356 CYS B 375 1 20 HELIX 43 43 SER B 383 LEU B 387 5 5 SHEET 1 AA 4 LEU A 15 ASP A 16 0 SHEET 2 AA 4 ALA A 41 THR A 46 1 O ARG A 43 N LEU A 15 SHEET 3 AA 4 GLY A 49 VAL A 55 -1 O GLY A 49 N THR A 46 SHEET 4 AA 4 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 ARG A 141 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 A1407 1555 1555 2.85 CISPEP 1 PRO A 97 PRO A 98 0 0.24 CISPEP 2 PRO B 97 PRO B 98 0 0.30 SITE 1 AC1 21 MET A 92 LEU A 93 HIS A 100 ARG A 104 SITE 2 AC1 21 PHE A 111 ILE A 239 LEU A 240 ALA A 243 SITE 3 AC1 21 GLY A 244 THR A 247 THR A 248 LEU A 251 SITE 4 AC1 21 ALA A 293 THR A 294 ARG A 296 ALA A 346 SITE 5 AC1 21 ILE A 351 HIS A 352 CYS A 354 ILE A 355 SITE 6 AC1 21 HOH A2055 SITE 1 AC2 10 TRP A 74 GLU A 85 GLU A 94 PHE A 178 SITE 2 AC2 10 HIS A 238 ILE A 239 ALA A 243 THR A 294 SITE 3 AC2 10 MET A 394 ILE A 395 SITE 1 AC3 22 MET B 92 LEU B 93 HIS B 100 ARG B 104 SITE 2 AC3 22 PHE B 111 LEU B 240 ALA B 243 GLY B 244 SITE 3 AC3 22 THR B 247 THR B 248 LEU B 251 PRO B 289 SITE 4 AC3 22 ALA B 293 THR B 294 ARG B 296 ALA B 346 SITE 5 AC3 22 PHE B 347 ILE B 351 HIS B 352 CYS B 354 SITE 6 AC3 22 GLY B 356 ALA B 360 SITE 1 AC4 7 GLU B 85 GLU B 94 PHE B 178 HIS B 238 SITE 2 AC4 7 ILE B 239 ALA B 243 MET B 394 CRYST1 59.862 109.323 153.040 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 0.016705 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009147 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006534 0.00000 MTRIX1 1 -0.999950 -0.009830 0.001350 74.38433 1 MTRIX2 1 -0.009550 0.990230 0.139120 -9.71992 1 MTRIX3 1 -0.002700 0.139100 -0.990270 72.13257 1