HEADER OXIDOREDUCTASE 21-FEB-08 3CBD TITLE DIRECTED EVOLUTION OF CYTOCHROME P450 BM3, TO OCTANE MONOXYGENASE 139- TITLE 2 3 COMPND MOL_ID: 1; COMPND 2 MOLECULE: BIFUNCTIONAL P-450/NADPH-P450 REDUCTASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: CYTOCHROME P450 HEME DOMAIN, RESIDUES 2-456; COMPND 5 SYNONYM: CYTOCHROME P450(BM-3), P450BM-3; COMPND 6 EC: 1.14.14.1; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: BACILLUS MEGATERIUM; SOURCE 3 ORGANISM_TAXID: 1404; SOURCE 4 GENE: CYP102; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: DH5ALPHA; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PPROEX-1 KEYWDS CYTOCHROME P450, HEMEPROTEIN 139-3, ELECTRON TRANSPORT, FAD, KEYWDS 2 FLAVOPROTEIN, FMN, IRON, MEMBRANE, METAL-BINDING, MONOOXYGENASE, KEYWDS 3 MULTIFUNCTIONAL ENZYME, NADP, OXIDOREDUCTASE, TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR Y.T.MEHARENNA,H.LI,T.L.POULOS REVDAT 5 30-AUG-23 3CBD 1 REMARK REVDAT 4 20-OCT-21 3CBD 1 REMARK SEQADV REVDAT 3 24-FEB-09 3CBD 1 VERSN REVDAT 2 04-NOV-08 3CBD 1 JRNL REVDAT 1 01-JUL-08 3CBD 0 JRNL AUTH R.FASAN,Y.T.MEHARENNA,H.LI,C.D.SNOW,T.L.POULOS,F.H.ARNOLD JRNL TITL DIRECTED EVOLUTION OF CYTOCHROME P450 BM3, TO OCTANE JRNL TITL 2 MONOXYGENASE 139-3 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. 2.65 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 47.53 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 1623681.860 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 97.7 REMARK 3 NUMBER OF REFLECTIONS : 41994 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) : 0.211 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 4241 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 : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.74 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 94.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3532 REMARK 3 BIN R VALUE (WORKING SET) : 0.3430 REMARK 3 BIN FREE R VALUE : 0.3840 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.40 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 412 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.019 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7334 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 130 REMARK 3 SOLVENT ATOMS : 281 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 66.80 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 5.57000 REMARK 3 B22 (A**2) : 10.44000 REMARK 3 B33 (A**2) : -16.02000 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) : 0.35 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) : 0.42 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.45 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 20.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 1.040 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) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.30 REMARK 3 BSOL : 34.08 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 : HETERO. REMARK 3 PARAMETER FILE 4 : PAT.PAR REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN_REP.PARAM REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : HETERO. REMARK 3 TOPOLOGY FILE 4 : PAT.TOP REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3CBD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-MAR-08. REMARK 100 THE DEPOSITION ID IS D_1000046571. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 19-DEC-03 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 2 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ALS REMARK 200 BEAMLINE : 5.0.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 41994 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.650 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.9 REMARK 200 DATA REDUNDANCY : 3.600 REMARK 200 R MERGE (I) : 0.20000 REMARK 200 R SYM (I) : 0.20000 REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.9 REMARK 200 DATA REDUNDANCY IN SHELL : 1.60 REMARK 200 R MERGE FOR SHELL (I) : 0.12400 REMARK 200 R SYM FOR SHELL (I) : 0.12400 REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: 1FAG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.45 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.46 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 20,000, 50MM LIBR,100MM MOPS, REMARK 280 PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298.0K 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 30.89050 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 91.67100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 63.67300 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 91.67100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.89050 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 63.67300 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 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 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 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 PRO A 193 C - N - CA ANGL. DEV. = 12.2 DEGREES REMARK 500 PRO A 284 C - N - CA ANGL. DEV. = 9.6 DEGREES REMARK 500 PRO A 329 C - N - CA ANGL. DEV. = 11.1 DEGREES REMARK 500 PRO B 329 C - N - CA ANGL. DEV. = 10.8 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 LYS A 9 128.11 -29.93 REMARK 500 LYS A 15 -150.37 70.16 REMARK 500 LEU A 20 -90.54 -89.98 REMARK 500 PRO A 45 102.82 -54.95 REMARK 500 ASP A 84 30.52 -83.56 REMARK 500 LEU A 86 -37.82 -26.00 REMARK 500 TRP A 96 -71.01 -56.71 REMARK 500 PHE A 158 -1.89 -146.94 REMARK 500 PRO A 170 130.71 -36.09 REMARK 500 ARG A 190 118.18 -30.97 REMARK 500 PRO A 193 -19.29 -43.54 REMARK 500 PRO A 196 -59.86 -24.02 REMARK 500 ALA A 197 -42.91 -28.20 REMARK 500 LYS A 224 -37.89 -35.24 REMARK 500 ALA A 225 57.94 -149.16 REMARK 500 GLU A 228 25.94 -75.21 REMARK 500 ASP A 232 -169.93 -114.57 REMARK 500 GLN A 236 11.15 -68.27 REMARK 500 PRO A 243 7.58 -54.62 REMARK 500 THR A 245 -18.80 -153.95 REMARK 500 HIS A 266 -48.84 -150.57 REMARK 500 THR A 327 -6.48 -56.73 REMARK 500 PRO A 329 -36.56 -36.81 REMARK 500 GLU A 344 -35.10 -155.38 REMARK 500 ASP A 370 35.14 -82.46 REMARK 500 HIS A 426 -8.33 -57.06 REMARK 500 TYR A 429 132.11 -30.09 REMARK 500 THR A 436 55.97 -153.16 REMARK 500 LEU A 437 -59.67 79.55 REMARK 500 LYS B 9 142.29 -27.83 REMARK 500 THR B 10 -79.17 -78.92 REMARK 500 PHE B 11 25.16 84.83 REMARK 500 LYS B 15 -147.76 57.65 REMARK 500 ASP B 34 -71.80 -54.66 REMARK 500 GLU B 64 0.32 -57.37 REMARK 500 ASP B 84 42.58 -92.15 REMARK 500 VAL B 141 -74.92 -47.66 REMARK 500 PRO B 193 -38.26 -35.48 REMARK 500 LYS B 224 35.46 -69.75 REMARK 500 ALA B 225 62.58 -166.41 REMARK 500 GLN B 229 51.95 -99.78 REMARK 500 HIS B 266 -46.49 -147.35 REMARK 500 ASP B 370 31.27 -69.32 REMARK 500 ASN B 381 77.63 -119.41 REMARK 500 THR B 436 44.32 -148.63 REMARK 500 LEU B 437 -58.77 85.63 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 460 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 400 SG REMARK 620 2 HEM A 460 NA 100.5 REMARK 620 3 HEM A 460 NB 95.5 90.6 REMARK 620 4 HEM A 460 NC 85.9 173.6 88.8 REMARK 620 5 HEM A 460 ND 96.2 88.5 168.3 90.9 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 460 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 400 SG REMARK 620 2 HEM B 460 NA 97.6 REMARK 620 3 HEM B 460 NB 94.5 88.9 REMARK 620 4 HEM B 460 NC 85.0 177.0 89.5 REMARK 620 5 HEM B 460 ND 93.6 89.3 171.9 91.9 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 460 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 140 A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM B 460 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 140 B 500 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JPZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A COMPLEX OF THE HEME DOMAIN OF P450BM-3 WITH REMARK 900 N-PALMITOYLGLYCINE REMARK 900 RELATED ID: 1ZOA RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A328V MUTANT OF THE HEME DOMAIN OF P450BM-3 REMARK 900 WITH N-PALMITOYLGLYCINE REMARK 900 RELATED ID: 1ZO9 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE WILD TYPE HEME DOMAIN OF P450BM-3 WITH N- REMARK 900 PALMITOYLMETHIONINE REMARK 900 RELATED ID: 1FAG RELATED DB: PDB REMARK 900 P450 BM3 COMPLEXED TO PALMITOLEIC ACID DBREF 3CBD A 1 455 UNP P14779 CPXB_BACME 2 456 DBREF 3CBD B 1 455 UNP P14779 CPXB_BACME 2 456 SEQADV 3CBD ALA A 78 UNP P14779 VAL 79 ENGINEERED MUTATION SEQADV 3CBD TYR A 138 UNP P14779 HIS 139 ENGINEERED MUTATION SEQADV 3CBD ILE A 175 UNP P14779 THR 176 ENGINEERED MUTATION SEQADV 3CBD ILE A 178 UNP P14779 VAL 179 ENGINEERED MUTATION SEQADV 3CBD VAL A 184 UNP P14779 ALA 185 ENGINEERED MUTATION SEQADV 3CBD GLN A 236 UNP P14779 HIS 237 ENGINEERED MUTATION SEQADV 3CBD GLY A 252 UNP P14779 GLU 253 ENGINEERED MUTATION SEQADV 3CBD SER A 255 UNP P14779 ARG 256 ENGINEERED MUTATION SEQADV 3CBD VAL A 290 UNP P14779 ALA 291 ENGINEERED MUTATION SEQADV 3CBD THR A 295 UNP P14779 ALA 296 ENGINEERED MUTATION SEQADV 3CBD VAL A 353 UNP P14779 LEU 354 ENGINEERED MUTATION SEQADV 3CBD ALA B 78 UNP P14779 VAL 79 ENGINEERED MUTATION SEQADV 3CBD TYR B 138 UNP P14779 HIS 139 ENGINEERED MUTATION SEQADV 3CBD ILE B 175 UNP P14779 THR 176 ENGINEERED MUTATION SEQADV 3CBD ILE B 178 UNP P14779 VAL 179 ENGINEERED MUTATION SEQADV 3CBD VAL B 184 UNP P14779 ALA 185 ENGINEERED MUTATION SEQADV 3CBD GLN B 236 UNP P14779 HIS 237 ENGINEERED MUTATION SEQADV 3CBD GLY B 252 UNP P14779 GLU 253 ENGINEERED MUTATION SEQADV 3CBD SER B 255 UNP P14779 ARG 256 ENGINEERED MUTATION SEQADV 3CBD VAL B 290 UNP P14779 ALA 291 ENGINEERED MUTATION SEQADV 3CBD THR B 295 UNP P14779 ALA 296 ENGINEERED MUTATION SEQADV 3CBD VAL B 353 UNP P14779 LEU 354 ENGINEERED MUTATION SEQRES 1 A 455 THR ILE LYS GLU MET PRO GLN PRO LYS THR PHE GLY GLU SEQRES 2 A 455 LEU LYS ASN LEU PRO LEU LEU ASN THR ASP LYS PRO VAL SEQRES 3 A 455 GLN ALA LEU MET LYS ILE ALA ASP GLU LEU GLY GLU ILE SEQRES 4 A 455 PHE LYS PHE GLU ALA PRO GLY ARG VAL THR ARG TYR LEU SEQRES 5 A 455 SER SER GLN ARG LEU ILE LYS GLU ALA CYS ASP GLU SER SEQRES 6 A 455 ARG PHE ASP LYS ASN LEU SER GLN ALA LEU LYS PHE ALA SEQRES 7 A 455 ARG ASP PHE ALA GLY ASP GLY LEU PHE THR SER TRP THR SEQRES 8 A 455 HIS GLU LYS ASN TRP LYS LYS ALA HIS ASN ILE LEU LEU SEQRES 9 A 455 PRO SER PHE SER GLN GLN ALA MET LYS GLY TYR HIS ALA SEQRES 10 A 455 MET MET VAL ASP ILE ALA VAL GLN LEU VAL GLN LYS TRP SEQRES 11 A 455 GLU ARG LEU ASN ALA ASP GLU TYR ILE GLU VAL PRO GLU SEQRES 12 A 455 ASP MET THR ARG LEU THR LEU ASP THR ILE GLY LEU CYS SEQRES 13 A 455 GLY PHE ASN TYR ARG PHE ASN SER PHE TYR ARG ASP GLN SEQRES 14 A 455 PRO HIS PRO PHE ILE ILE SER MET ILE ARG ALA LEU ASP SEQRES 15 A 455 GLU VAL MET ASN LYS LEU GLN ARG ALA ASN PRO ASP ASP SEQRES 16 A 455 PRO ALA TYR ASP GLU ASN LYS ARG GLN PHE GLN GLU ASP SEQRES 17 A 455 ILE LYS VAL MET ASN ASP LEU VAL ASP LYS ILE ILE ALA SEQRES 18 A 455 ASP ARG LYS ALA SER GLY GLU GLN SER ASP ASP LEU LEU SEQRES 19 A 455 THR GLN MET LEU ASN GLY LYS ASP PRO GLU THR GLY GLU SEQRES 20 A 455 PRO LEU ASP ASP GLY ASN ILE SER TYR GLN ILE ILE THR SEQRES 21 A 455 PHE LEU ILE ALA GLY HIS GLU THR THR SER GLY LEU LEU SEQRES 22 A 455 SER PHE ALA LEU TYR PHE LEU VAL LYS ASN PRO HIS VAL SEQRES 23 A 455 LEU GLN LYS VAL ALA GLU GLU ALA THR ARG VAL LEU VAL SEQRES 24 A 455 ASP PRO VAL PRO SER TYR LYS GLN VAL LYS GLN LEU LYS SEQRES 25 A 455 TYR VAL GLY MET VAL LEU ASN GLU ALA LEU ARG LEU TRP SEQRES 26 A 455 PRO THR ALA PRO ALA PHE SER LEU TYR ALA LYS GLU ASP SEQRES 27 A 455 THR VAL LEU GLY GLY GLU TYR PRO LEU GLU LYS GLY ASP SEQRES 28 A 455 GLU VAL MET VAL LEU ILE PRO GLN LEU HIS ARG ASP LYS SEQRES 29 A 455 THR ILE TRP GLY ASP ASP VAL GLU GLU PHE ARG PRO GLU SEQRES 30 A 455 ARG PHE GLU ASN PRO SER ALA ILE PRO GLN HIS ALA PHE SEQRES 31 A 455 LYS PRO PHE GLY ASN GLY GLN ARG ALA CYS ILE GLY GLN SEQRES 32 A 455 GLN PHE ALA LEU HIS GLU ALA THR LEU VAL LEU GLY MET SEQRES 33 A 455 MET LEU LYS HIS PHE ASP PHE GLU ASP HIS THR ASN TYR SEQRES 34 A 455 GLU LEU ASP ILE LYS GLU THR LEU THR LEU LYS PRO GLU SEQRES 35 A 455 GLY PHE VAL VAL LYS ALA LYS SER LYS LYS ILE PRO LEU SEQRES 1 B 455 THR ILE LYS GLU MET PRO GLN PRO LYS THR PHE GLY GLU SEQRES 2 B 455 LEU LYS ASN LEU PRO LEU LEU ASN THR ASP LYS PRO VAL SEQRES 3 B 455 GLN ALA LEU MET LYS ILE ALA ASP GLU LEU GLY GLU ILE SEQRES 4 B 455 PHE LYS PHE GLU ALA PRO GLY ARG VAL THR ARG TYR LEU SEQRES 5 B 455 SER SER GLN ARG LEU ILE LYS GLU ALA CYS ASP GLU SER SEQRES 6 B 455 ARG PHE ASP LYS ASN LEU SER GLN ALA LEU LYS PHE ALA SEQRES 7 B 455 ARG ASP PHE ALA GLY ASP GLY LEU PHE THR SER TRP THR SEQRES 8 B 455 HIS GLU LYS ASN TRP LYS LYS ALA HIS ASN ILE LEU LEU SEQRES 9 B 455 PRO SER PHE SER GLN GLN ALA MET LYS GLY TYR HIS ALA SEQRES 10 B 455 MET MET VAL ASP ILE ALA VAL GLN LEU VAL GLN LYS TRP SEQRES 11 B 455 GLU ARG LEU ASN ALA ASP GLU TYR ILE GLU VAL PRO GLU SEQRES 12 B 455 ASP MET THR ARG LEU THR LEU ASP THR ILE GLY LEU CYS SEQRES 13 B 455 GLY PHE ASN TYR ARG PHE ASN SER PHE TYR ARG ASP GLN SEQRES 14 B 455 PRO HIS PRO PHE ILE ILE SER MET ILE ARG ALA LEU ASP SEQRES 15 B 455 GLU VAL MET ASN LYS LEU GLN ARG ALA ASN PRO ASP ASP SEQRES 16 B 455 PRO ALA TYR ASP GLU ASN LYS ARG GLN PHE GLN GLU ASP SEQRES 17 B 455 ILE LYS VAL MET ASN ASP LEU VAL ASP LYS ILE ILE ALA SEQRES 18 B 455 ASP ARG LYS ALA SER GLY GLU GLN SER ASP ASP LEU LEU SEQRES 19 B 455 THR GLN MET LEU ASN GLY LYS ASP PRO GLU THR GLY GLU SEQRES 20 B 455 PRO LEU ASP ASP GLY ASN ILE SER TYR GLN ILE ILE THR SEQRES 21 B 455 PHE LEU ILE ALA GLY HIS GLU THR THR SER GLY LEU LEU SEQRES 22 B 455 SER PHE ALA LEU TYR PHE LEU VAL LYS ASN PRO HIS VAL SEQRES 23 B 455 LEU GLN LYS VAL ALA GLU GLU ALA THR ARG VAL LEU VAL SEQRES 24 B 455 ASP PRO VAL PRO SER TYR LYS GLN VAL LYS GLN LEU LYS SEQRES 25 B 455 TYR VAL GLY MET VAL LEU ASN GLU ALA LEU ARG LEU TRP SEQRES 26 B 455 PRO THR ALA PRO ALA PHE SER LEU TYR ALA LYS GLU ASP SEQRES 27 B 455 THR VAL LEU GLY GLY GLU TYR PRO LEU GLU LYS GLY ASP SEQRES 28 B 455 GLU VAL MET VAL LEU ILE PRO GLN LEU HIS ARG ASP LYS SEQRES 29 B 455 THR ILE TRP GLY ASP ASP VAL GLU GLU PHE ARG PRO GLU SEQRES 30 B 455 ARG PHE GLU ASN PRO SER ALA ILE PRO GLN HIS ALA PHE SEQRES 31 B 455 LYS PRO PHE GLY ASN GLY GLN ARG ALA CYS ILE GLY GLN SEQRES 32 B 455 GLN PHE ALA LEU HIS GLU ALA THR LEU VAL LEU GLY MET SEQRES 33 B 455 MET LEU LYS HIS PHE ASP PHE GLU ASP HIS THR ASN TYR SEQRES 34 B 455 GLU LEU ASP ILE LYS GLU THR LEU THR LEU LYS PRO GLU SEQRES 35 B 455 GLY PHE VAL VAL LYS ALA LYS SER LYS LYS ILE PRO LEU HET HEM A 460 43 HET 140 A 500 22 HET HEM B 460 43 HET 140 B 500 22 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM 140 N-PALMITOYLGLYCINE HETSYN HEM HEME HETSYN 140 N-HEXADECANOYLGLYCINE FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 4 140 2(C18 H35 N O3) FORMUL 7 HOH *281(H2 O) HELIX 1 1 ASN A 16 LEU A 20 5 5 HELIX 2 2 LYS A 24 GLY A 37 1 14 HELIX 3 3 SER A 54 CYS A 62 1 9 HELIX 4 4 SER A 72 GLY A 83 1 12 HELIX 5 5 GLU A 93 LEU A 104 1 12 HELIX 6 6 PRO A 105 PHE A 107 5 3 HELIX 7 7 SER A 108 ARG A 132 1 25 HELIX 8 8 VAL A 141 ASN A 159 1 19 HELIX 9 9 ASN A 163 ARG A 167 5 5 HELIX 10 10 HIS A 171 LEU A 188 1 18 HELIX 11 11 ASP A 195 ALA A 197 5 3 HELIX 12 12 TYR A 198 ARG A 223 1 26 HELIX 13 13 LYS A 224 SER A 226 5 3 HELIX 14 14 LEU A 234 ASN A 239 1 6 HELIX 15 15 ASP A 250 GLY A 265 1 16 HELIX 16 16 HIS A 266 ASN A 283 1 18 HELIX 17 17 ASN A 283 LEU A 298 1 16 HELIX 18 18 SER A 304 GLN A 310 1 7 HELIX 19 19 LEU A 311 TRP A 325 1 15 HELIX 20 20 ILE A 357 HIS A 361 1 5 HELIX 21 21 ASP A 363 GLY A 368 1 6 HELIX 22 22 ARG A 375 GLU A 380 5 6 HELIX 23 23 ASN A 381 ILE A 385 5 5 HELIX 24 24 ASN A 395 ALA A 399 5 5 HELIX 25 25 GLY A 402 HIS A 420 1 19 HELIX 26 26 PHE B 11 LYS B 15 5 5 HELIX 27 27 ASN B 16 ASN B 21 5 6 HELIX 28 28 LYS B 24 GLY B 37 1 14 HELIX 29 29 SER B 54 CYS B 62 1 9 HELIX 30 30 SER B 72 GLY B 83 1 12 HELIX 31 31 GLU B 93 LEU B 104 1 12 HELIX 32 32 PRO B 105 PHE B 107 5 3 HELIX 33 33 SER B 108 ARG B 132 1 25 HELIX 34 34 VAL B 141 ASN B 159 1 19 HELIX 35 35 ASN B 163 ARG B 167 5 5 HELIX 36 36 HIS B 171 LEU B 188 1 18 HELIX 37 37 ASP B 195 ALA B 197 5 3 HELIX 38 38 TYR B 198 LYS B 224 1 27 HELIX 39 39 ASP B 232 GLY B 240 1 9 HELIX 40 40 ASP B 250 GLY B 265 1 16 HELIX 41 41 HIS B 266 LYS B 282 1 17 HELIX 42 42 ASN B 283 LEU B 298 1 16 HELIX 43 43 SER B 304 LYS B 309 1 6 HELIX 44 44 LEU B 311 TRP B 325 1 15 HELIX 45 45 GLY B 342 GLU B 344 5 3 HELIX 46 46 ILE B 357 HIS B 361 1 5 HELIX 47 47 ASP B 363 GLY B 368 1 6 HELIX 48 48 ARG B 375 GLU B 380 5 6 HELIX 49 49 ASN B 381 ILE B 385 5 5 HELIX 50 50 ASN B 395 ALA B 399 5 5 HELIX 51 51 GLY B 402 HIS B 420 1 19 SHEET 1 A 5 ILE A 39 ALA A 44 0 SHEET 2 A 5 ARG A 47 LEU A 52 -1 O THR A 49 N PHE A 42 SHEET 3 A 5 GLU A 352 LEU A 356 1 O MET A 354 N ARG A 50 SHEET 4 A 5 ALA A 330 ALA A 335 -1 N LEU A 333 O VAL A 353 SHEET 5 A 5 PHE A 67 ASN A 70 -1 N ASN A 70 O SER A 332 SHEET 1 B 3 ILE A 139 GLU A 140 0 SHEET 2 B 3 VAL A 445 SER A 450 -1 O VAL A 446 N ILE A 139 SHEET 3 B 3 PHE A 421 GLU A 424 -1 N ASP A 422 O LYS A 449 SHEET 1 C 2 THR A 339 LEU A 341 0 SHEET 2 C 2 TYR A 345 LEU A 347 -1 O LEU A 347 N THR A 339 SHEET 1 D 2 ILE A 433 GLU A 435 0 SHEET 2 D 2 LEU A 439 PRO A 441 -1 O LYS A 440 N LYS A 434 SHEET 1 E 5 ILE B 39 ALA B 44 0 SHEET 2 E 5 ARG B 47 LEU B 52 -1 O THR B 49 N PHE B 42 SHEET 3 E 5 GLU B 352 LEU B 356 1 O MET B 354 N ARG B 50 SHEET 4 E 5 ALA B 330 ALA B 335 -1 N LEU B 333 O VAL B 353 SHEET 5 E 5 PHE B 67 ASN B 70 -1 N ASN B 70 O SER B 332 SHEET 1 F 3 ILE B 139 GLU B 140 0 SHEET 2 F 3 VAL B 445 SER B 450 -1 O VAL B 446 N ILE B 139 SHEET 3 F 3 PHE B 421 GLU B 424 -1 N ASP B 422 O LYS B 449 SHEET 1 G 2 THR B 339 LEU B 341 0 SHEET 2 G 2 TYR B 345 LEU B 347 -1 O LEU B 347 N THR B 339 SHEET 1 H 2 ILE B 433 GLU B 435 0 SHEET 2 H 2 LEU B 439 PRO B 441 -1 O LYS B 440 N LYS B 434 LINK SG CYS A 400 FE HEM A 460 1555 1555 2.23 LINK SG CYS B 400 FE HEM B 460 1555 1555 2.21 SITE 1 AC1 20 LYS A 69 LEU A 75 LEU A 86 PHE A 87 SITE 2 AC1 20 TRP A 96 ALA A 264 GLY A 265 THR A 268 SITE 3 AC1 20 THR A 269 THR A 327 PHE A 331 PRO A 392 SITE 4 AC1 20 PHE A 393 GLY A 394 ARG A 398 ALA A 399 SITE 5 AC1 20 CYS A 400 ILE A 401 GLY A 402 PHE A 405 SITE 1 AC2 6 ARG A 47 TYR A 51 LEU A 188 THR A 260 SITE 2 AC2 6 ALA A 330 LEU A 437 SITE 1 AC3 20 LYS B 69 LEU B 75 LEU B 86 PHE B 87 SITE 2 AC3 20 TRP B 96 PHE B 107 ILE B 153 ALA B 264 SITE 3 AC3 20 GLY B 265 THR B 268 THR B 269 THR B 327 SITE 4 AC3 20 PHE B 331 PRO B 392 PHE B 393 GLY B 394 SITE 5 AC3 20 ARG B 398 ALA B 399 CYS B 400 ILE B 401 SITE 1 AC4 5 LEU B 20 ARG B 47 TYR B 51 ALA B 74 SITE 2 AC4 5 PHE B 87 CRYST1 61.781 127.346 183.342 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 0.016186 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007853 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005454 0.00000