HEADER OXIDOREDUCTASE 30-JUN-09 2WM5 TITLE X-RAY STRUCTURE OF THE SUBSTRATE-FREE MYCOBACTERIUM TUBERCULOSIS TITLE 2 CYTOCHROME P450 CYP124 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE CYTOCHROME P450 124; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CYP124; COMPND 5 EC: 1.14.-.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 STRAIN: H37RV; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI DH5[ALPHA]; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 668369; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PCWORI KEYWDS METAL-BINDING, OXIDOREDUCTASE, OMEGA-HYDROXYLATION, P450, IRON, HEME, KEYWDS 2 FATTY ACID, MONOOXYGENASE EXPDTA X-RAY DIFFRACTION AUTHOR J.B.JOHNSTON,P.M.KELLS,L.M.PODUST,P.R.ORTIZ DE MONTELLANO REVDAT 5 01-MAY-24 2WM5 1 REMARK LINK REVDAT 4 28-FEB-18 2WM5 1 SOURCE JRNL REVDAT 3 07-DEC-11 2WM5 1 JRNL REMARK FORMUL VERSN REVDAT 2 04-AUG-10 2WM5 1 TITLE JRNL REMARK DBREF REVDAT 2 2 1 SEQADV HETSYN REVDAT 1 06-OCT-09 2WM5 0 JRNL AUTH J.B.JOHNSTON,P.M.KELLS,L.M.PODUST,P.R.ORTIZ DE MONTELLANO JRNL TITL BIOCHEMICAL AND STRUCTURAL CHARACTERIZATION OF CYP124: A JRNL TITL 2 METHYL-BRANCHED LIPID OMEGA-HYDROXYLASE FROM MYCOBACTERIUM JRNL TITL 3 TUBERCULOSIS. JRNL REF PROC. NATL. ACAD. SCI. V. 106 20687 2009 JRNL REF 2 U.S.A. JRNL REFN ESSN 1091-6490 JRNL PMID 19933331 JRNL DOI 10.1073/PNAS.0907398106 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 69.34 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.2 REMARK 3 NUMBER OF REFLECTIONS : 88311 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) : 0.153 REMARK 3 R VALUE (WORKING SET) : 0.152 REMARK 3 FREE R VALUE : 0.178 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 4662 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) : 1.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.54 REMARK 3 REFLECTION IN BIN (WORKING SET) : 5599 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 84.31 REMARK 3 BIN R VALUE (WORKING SET) : 0.3620 REMARK 3 BIN FREE R VALUE SET COUNT : 284 REMARK 3 BIN FREE R VALUE : 0.3880 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3334 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 348 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 17.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.76 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.12000 REMARK 3 B22 (A**2) : 0.39000 REMARK 3 B33 (A**2) : -0.40000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.29000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.062 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.057 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.034 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.081 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.973 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.965 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3574 ; 0.029 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4902 ; 1.955 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 448 ; 5.859 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 170 ;31.737 ;23.118 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 546 ;11.129 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 33 ;13.643 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 529 ; 0.165 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2827 ; 0.014 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL 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): 2200 ; 2.474 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3566 ; 3.473 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1374 ; 5.009 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1336 ; 6.930 ; 4.500 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): 3574 ; 3.028 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): 348 ;13.480 ; 3.000 REMARK 3 SPHERICITY; BONDED ATOMS (A**2): 3471 ; 7.937 ; 3.000 REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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. RESIDUES 61-63 ARE DISORDERED REMARK 4 REMARK 4 2WM5 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-JUN-09. REMARK 100 THE DEPOSITION ID IS D_1290040296. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-MAY-09 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 6.8 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 QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 92974 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 REMARK 200 RESOLUTION RANGE LOW (A) : 69.300 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.06000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.54 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.7 REMARK 200 DATA REDUNDANCY IN SHELL : 2.20 REMARK 200 R MERGE FOR SHELL (I) : 0.43000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.700 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: IN-HOUSE STRUCTURE (SEE REMARK BELOW) REMARK 200 REMARK 200 REMARK: UNPUBLISHED COORDINATES OF CYP125 WERE USED AS THE REMARK 200 MOLECULAR REPLACEMENT MODEL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1% PEG MME, 0.1 M SODIUM CACODILATE, REMARK 280 PH 6.8, 0.9 M SUCCINIC ACID REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 71.13850 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.00300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 71.13850 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 37.00300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 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 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 -6 REMARK 465 HIS A -5 REMARK 465 HIS A -4 REMARK 465 HIS A -3 REMARK 465 HIS A -2 REMARK 465 HIS A -1 REMARK 465 HIS A 0 REMARK 465 PRO A 61 REMARK 465 GLY A 62 REMARK 465 PHE A 63 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 GLU A 59 CG CD OE1 OE2 REMARK 470 LEU A 60 CG CD1 CD2 REMARK 470 VAL A 64 CG1 CG2 REMARK 470 LYS A 132 CE NZ REMARK 470 ARG A 255 CD NE CZ NH1 NH2 REMARK 470 ARG A 390 CZ NH1 NH2 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 NE2 HIS A 234 O HOH A 2224 1.14 REMARK 500 CD2 HIS A 234 O HOH A 2224 1.68 REMARK 500 NE ARG A 390 O HOH A 2317 1.94 REMARK 500 N MET A 1 O HOH A 2001 2.03 REMARK 500 O HOH A 2239 O HOH A 2348 2.10 REMARK 500 O HOH A 2054 O HOH A 2138 2.15 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 GLU A 166 CD GLU A 166 OE2 0.080 REMARK 500 ARG A 290 CZ ARG A 290 NH1 0.106 REMARK 500 ARG A 290 CZ ARG A 290 NH2 0.100 REMARK 500 TRP A 311 CE3 TRP A 311 CZ3 0.104 REMARK 500 GLU A 350 CG GLU A 350 CD 0.108 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 83 NE - CZ - NH1 ANGL. DEV. = -4.8 DEGREES REMARK 500 ARG A 127 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG A 136 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ASP A 296 CB - CG - OD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 ASP A 325 CB - CG - OD1 ANGL. DEV. = 7.2 DEGREES REMARK 500 ARG A 329 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 386 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG A 387 NE - CZ - NH1 ANGL. DEV. = 4.0 DEGREES REMARK 500 ARG A 387 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG A 411 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 411 NE - CZ - NH2 ANGL. DEV. = -3.2 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 ALA A 50 71.07 -154.15 REMARK 500 SER A 109 -132.20 50.59 REMARK 500 LEU A 167 -66.05 -141.66 REMARK 500 ASP A 236 47.14 -85.37 REMARK 500 VAL A 266 -65.57 -103.74 REMARK 500 ASN A 269 -68.42 -131.16 REMARK 500 ASN A 269 -68.13 -131.16 REMARK 500 ASP A 296 73.84 -152.78 REMARK 500 ASP A 296 73.84 -152.90 REMARK 500 SER A 313 67.65 29.49 REMARK 500 PRO A 367 46.11 -83.84 REMARK 500 MET A 400 67.30 -151.06 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 59 LEU A 60 145.61 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 450 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 379 SG REMARK 620 2 HEM A 450 NA 99.8 REMARK 620 3 HEM A 450 NB 91.1 89.0 REMARK 620 4 HEM A 450 NC 89.5 170.7 90.2 REMARK 620 5 HEM A 450 ND 100.5 89.6 168.5 89.4 REMARK 620 6 HOH A2239 O 175.2 80.8 84.2 89.9 84.3 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 450 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2WM4 RELATED DB: PDB REMARK 900 BIOCHEMICAL AND STRUCTURAL CHARACTERIZATION OF CYP124: A METHYL- REMARK 900 BRANCHED LIPID OMEGA- HYDROXYLASE FROM MYCOBACTERIUM TUBERCULOSIS REMARK 999 REMARK 999 SEQUENCE REMARK 999 ENGINEERED 6 X HIS TAG AT THE N-TERMINUS DBREF 2WM5 A 1 428 UNP P0A516 CP124_MYCTU 1 428 SEQADV 2WM5 MET A -6 UNP P0A516 EXPRESSION TAG SEQADV 2WM5 HIS A -5 UNP P0A516 EXPRESSION TAG SEQADV 2WM5 HIS A -4 UNP P0A516 EXPRESSION TAG SEQADV 2WM5 HIS A -3 UNP P0A516 EXPRESSION TAG SEQADV 2WM5 HIS A -2 UNP P0A516 EXPRESSION TAG SEQADV 2WM5 HIS A -1 UNP P0A516 EXPRESSION TAG SEQADV 2WM5 HIS A 0 UNP P0A516 EXPRESSION TAG SEQRES 1 A 435 MET HIS HIS HIS HIS HIS HIS MET GLY LEU ASN THR ALA SEQRES 2 A 435 ILE ALA THR ARG VAL ASN GLY THR PRO PRO PRO GLU VAL SEQRES 3 A 435 PRO ILE ALA ASP ILE GLU LEU GLY SER LEU ASP PHE TRP SEQRES 4 A 435 ALA LEU ASP ASP ASP VAL ARG ASP GLY ALA PHE ALA THR SEQRES 5 A 435 LEU ARG ARG GLU ALA PRO ILE SER PHE TRP PRO THR ILE SEQRES 6 A 435 GLU LEU PRO GLY PHE VAL ALA GLY ASN GLY HIS TRP ALA SEQRES 7 A 435 LEU THR LYS TYR ASP ASP VAL PHE TYR ALA SER ARG HIS SEQRES 8 A 435 PRO ASP ILE PHE SER SER TYR PRO ASN ILE THR ILE ASN SEQRES 9 A 435 ASP GLN THR PRO GLU LEU ALA GLU TYR PHE GLY SER MET SEQRES 10 A 435 ILE VAL LEU ASP ASP PRO ARG HIS GLN ARG LEU ARG SER SEQRES 11 A 435 ILE VAL SER ARG ALA PHE THR PRO LYS VAL VAL ALA ARG SEQRES 12 A 435 ILE GLU ALA ALA VAL ARG ASP ARG ALA HIS ARG LEU VAL SEQRES 13 A 435 SER SER MET ILE ALA ASN ASN PRO ASP ARG GLN ALA ASP SEQRES 14 A 435 LEU VAL SER GLU LEU ALA GLY PRO LEU PRO LEU GLN ILE SEQRES 15 A 435 ILE CYS ASP MET MET GLY ILE PRO LYS ALA ASP HIS GLN SEQRES 16 A 435 ARG ILE PHE HIS TRP THR ASN VAL ILE LEU GLY PHE GLY SEQRES 17 A 435 ASP PRO ASP LEU ALA THR ASP PHE ASP GLU PHE MET GLN SEQRES 18 A 435 VAL SER ALA ASP ILE GLY ALA TYR ALA THR ALA LEU ALA SEQRES 19 A 435 GLU ASP ARG ARG VAL ASN HIS HIS ASP ASP LEU THR SER SEQRES 20 A 435 SER LEU VAL GLU ALA GLU VAL ASP GLY GLU ARG LEU SER SEQRES 21 A 435 SER ARG GLU ILE ALA SER PHE PHE ILE LEU LEU VAL VAL SEQRES 22 A 435 ALA GLY ASN GLU THR THR ARG ASN ALA ILE THR HIS GLY SEQRES 23 A 435 VAL LEU ALA LEU SER ARG TYR PRO GLU GLN ARG ASP ARG SEQRES 24 A 435 TRP TRP SER ASP PHE ASP GLY LEU ALA PRO THR ALA VAL SEQRES 25 A 435 GLU GLU ILE VAL ARG TRP ALA SER PRO VAL VAL TYR MET SEQRES 26 A 435 ARG ARG THR LEU THR GLN ASP ILE GLU LEU ARG GLY THR SEQRES 27 A 435 LYS MET ALA ALA GLY ASP LYS VAL SER LEU TRP TYR CYS SEQRES 28 A 435 SER ALA ASN ARG ASP GLU SER LYS PHE ALA ASP PRO TRP SEQRES 29 A 435 THR PHE ASP LEU ALA ARG ASN PRO ASN PRO HIS LEU GLY SEQRES 30 A 435 PHE GLY GLY GLY GLY ALA HIS PHE CYS LEU GLY ALA ASN SEQRES 31 A 435 LEU ALA ARG ARG GLU ILE ARG VAL ALA PHE ASP GLU LEU SEQRES 32 A 435 ARG ARG GLN MET PRO ASP VAL VAL ALA THR GLU GLU PRO SEQRES 33 A 435 ALA ARG LEU LEU SER GLN PHE ILE HIS GLY ILE LYS THR SEQRES 34 A 435 LEU PRO VAL THR TRP SER HET HEM A 450 43 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETSYN HEM HEME FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 HOH *348(H2 O) HELIX 1 1 PRO A 20 ILE A 24 5 5 HELIX 2 2 SER A 28 ALA A 33 1 6 HELIX 3 3 ASP A 35 ASP A 40 1 6 HELIX 4 4 ALA A 42 ALA A 50 1 9 HELIX 5 5 LYS A 74 HIS A 84 1 11 HELIX 6 6 THR A 100 PHE A 107 1 8 HELIX 7 7 SER A 109 LEU A 113 5 5 HELIX 8 8 PRO A 116 ALA A 128 1 13 HELIX 9 9 THR A 130 ASN A 156 1 27 HELIX 10 10 LEU A 163 LEU A 167 1 5 HELIX 11 11 PRO A 170 MET A 180 1 11 HELIX 12 12 PRO A 183 ALA A 185 5 3 HELIX 13 13 ASP A 186 LEU A 198 1 13 HELIX 14 14 ASP A 208 ILE A 219 1 12 HELIX 15 15 ALA A 221 ASN A 233 1 13 HELIX 16 16 ASP A 237 ALA A 245 1 9 HELIX 17 17 SER A 253 ALA A 267 1 15 HELIX 18 18 ASN A 269 HIS A 278 1 10 HELIX 19 19 VAL A 280 TYR A 286 1 7 HELIX 20 20 TYR A 286 ASP A 296 1 11 HELIX 21 21 LEU A 300 SER A 313 1 14 HELIX 22 22 TRP A 342 ASN A 347 1 6 HELIX 23 23 ALA A 382 MET A 400 1 19 SHEET 1 AA 5 ILE A 52 PHE A 54 0 SHEET 2 AA 5 TRP A 70 LEU A 72 -1 O ALA A 71 N SER A 53 SHEET 3 AA 5 LYS A 338 LEU A 341 1 O LYS A 338 N TRP A 70 SHEET 4 AA 5 MET A 318 LEU A 322 -1 O MET A 318 N LEU A 341 SHEET 5 AA 5 PHE A 88 SER A 89 -1 O SER A 89 N THR A 321 SHEET 1 AB 3 GLN A 160 ASP A 162 0 SHEET 2 AB 3 PRO A 424 THR A 426 -1 O VAL A 425 N ALA A 161 SHEET 3 AB 3 VAL A 404 ALA A 405 -1 O VAL A 404 N THR A 426 SHEET 1 AC 2 ILE A 326 GLU A 327 0 SHEET 2 AC 2 LYS A 332 MET A 333 -1 O MET A 333 N ILE A 326 LINK SG CYS A 379 FE HEM A 450 1555 1555 2.32 LINK FE HEM A 450 O HOH A2239 1555 1555 2.20 CISPEP 1 TYR A 91 PRO A 92 0 -3.41 CISPEP 2 ASP A 115 PRO A 116 0 11.72 CISPEP 3 ASN A 364 PRO A 365 0 0.99 SITE 1 AC1 26 MET A 110 ILE A 111 HIS A 118 ARG A 122 SITE 2 AC1 26 LEU A 263 ALA A 267 GLY A 268 THR A 271 SITE 3 AC1 26 THR A 272 ARG A 320 TYR A 343 GLY A 370 SITE 4 AC1 26 PHE A 371 GLY A 372 ALA A 376 HIS A 377 SITE 5 AC1 26 CYS A 379 GLY A 381 LEU A 384 ALA A 385 SITE 6 AC1 26 GLU A 388 HOH A2239 HOH A2288 HOH A2308 SITE 7 AC1 26 HOH A2346 HOH A2347 CRYST1 142.277 74.006 58.589 90.00 103.13 90.00 C 1 2 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 0.007029 0.000000 0.001639 0.00000 SCALE2 0.000000 0.013512 0.000000 0.00000 SCALE3 0.000000 0.000000 0.017526 0.00000