HEADER OXIDOREDUCTASE 30-JUL-10 2XN8 TITLE X-RAY STRUCTURE OF THE SUBSTRATE-FREE MYCOBACTERIUM TUBERCULOSIS TITLE 2 CYTOCHROME P450 CYP125 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PUTATIVE CYTOCHROME P450 125; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 17-433; COMPND 5 SYNONYM: CYP125A1; COMPND 6 EC: 1.14.-.-; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES; COMPND 9 OTHER_DETAILS: FIRST 16 RESIDUES UPSTREAM OF V17 ARE TRUNCATED. 6XHIS COMPND 10 TAG IS ENGINEERED AT THE N-TERMINUS 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 BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: HMS174; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PCWORI KEYWDS CHOLESTEROL DEGRADATION, REVERSE TYPE I INHIBITOR, MONOOXYGENASE, KEYWDS 2 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR H.OUELLET,P.M.KELLS,P.R.ORTIZ DE MONTELLANO,L.M.PODUST REVDAT 5 20-DEC-23 2XN8 1 REMARK REVDAT 4 03-APR-19 2XN8 1 REMARK REVDAT 3 07-FEB-18 2XN8 1 SOURCE JRNL REVDAT 2 29-DEC-10 2XN8 1 JRNL REVDAT 1 10-NOV-10 2XN8 0 JRNL AUTH H.OUELLET,P.M.KELLS,P.R.ORTIZ DE MONTELLANO,L.M.PODUST JRNL TITL REVERSE TYPE I INHIBITOR OF MYCOBACTERIUMTUBERCULOSIS JRNL TITL 2 CYP125A1. JRNL REF BIOORG.MED.CHEM.LETT. V. 21 332 2011 JRNL REFN ISSN 0960-894X JRNL PMID 21109436 JRNL DOI 10.1016/J.BMCL.2010.11.007 REMARK 2 REMARK 2 RESOLUTION. 1.64 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0109 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) : 1.64 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.30 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 43947 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) : 0.144 REMARK 3 R VALUE (WORKING SET) : 0.141 REMARK 3 FREE R VALUE : 0.210 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2333 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) : 1.64 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.68 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2887 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.27 REMARK 3 BIN R VALUE (WORKING SET) : 0.2520 REMARK 3 BIN FREE R VALUE SET COUNT : 164 REMARK 3 BIN FREE R VALUE : 0.3420 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3187 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 48 REMARK 3 SOLVENT ATOMS : 464 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 14.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.98 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.15000 REMARK 3 B22 (A**2) : 0.79000 REMARK 3 B33 (A**2) : -0.64000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.143 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.103 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.062 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.989 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3380 ; 0.023 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4615 ; 1.834 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 422 ; 6.227 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 163 ;30.640 ;23.804 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 520 ;13.446 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 24 ;14.427 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 480 ; 0.150 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2671 ; 0.011 ; 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): 2073 ; 2.020 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3327 ; 3.044 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1307 ; 4.862 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1285 ; 6.743 ; 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): 3380 ; 2.575 ; 3.000 REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 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 234-235 AND 248-249 ARE DISORDERED REMARK 4 REMARK 4 2XN8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-JUL-10. REMARK 100 THE DEPOSITION ID IS D_1290044913. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 24-APR-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : 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 : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 46349 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.640 REMARK 200 RESOLUTION RANGE LOW (A) : 15.530 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.14000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.64 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.73 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.3 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.37000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 2X5L REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.95 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.0M AMMONIUM SULFATE, 0.1 M TRIS-HCL, REMARK 280 PH 8.5, 4 DEG. CELSIUS, TEMPERATURE 277K 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 27.18250 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 45.17850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.15800 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 45.17850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 27.18250 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.15800 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 HIS A 11 REMARK 465 HIS A 12 REMARK 465 HIS A 13 REMARK 465 HIS A 14 REMARK 465 HIS A 15 REMARK 465 HIS A 16 REMARK 465 MET A 17 REMARK 465 PRO A 18 REMARK 465 ASN A 234 REMARK 465 PRO A 235 REMARK 465 ILE A 248 REMARK 465 ASP A 249 REMARK 465 ALA A 432 REMARK 465 HIS A 433 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 SER A 19 OG REMARK 470 LYS A 101 CG CD CE NZ REMARK 470 ARG A 138 CD NE CZ NH1 NH2 REMARK 470 ASN A 203 CG OD1 ND2 REMARK 470 GLU A 204 CG CD OE1 OE2 REMARK 470 LYS A 231 CG CD CE NZ REMARK 470 LYS A 233 CG CD CE NZ REMARK 470 ASP A 237 CG OD1 OD2 REMARK 470 GLN A 242 CG CD OE1 NE2 REMARK 470 ASP A 247 CG OD1 OD2 REMARK 470 GLU A 286 CD OE1 OE2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 2008 O HOH A 2009 1.69 REMARK 500 OE2 GLU A 251 O HOH A 2290 2.01 REMARK 500 O HOH A 2185 O HOH A 2342 2.01 REMARK 500 O HOH A 2135 O HOH A 2462 2.03 REMARK 500 CG LEU A 401 O HOH A 2415 2.18 REMARK 500 O HOH A 2078 O HOH A 2186 2.19 REMARK 500 O HOH A 2166 O HOH A 2321 2.19 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 99 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 MET A 116 CG - SD - CE ANGL. DEV. = -16.3 DEGREES REMARK 500 ARG A 133 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 133 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 MET A 200 CA - CB - CG ANGL. DEV. = -11.1 DEGREES REMARK 500 MET A 200 CB - CG - SD ANGL. DEV. = -18.5 DEGREES REMARK 500 ARG A 409 NE - CZ - NH2 ANGL. DEV. = -3.3 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 72.12 -158.13 REMARK 500 ASN A 55 79.37 -100.71 REMARK 500 THR A 201 -80.90 -106.67 REMARK 500 GLU A 204 2.24 -54.67 REMARK 500 ASN A 270 -78.36 -105.13 REMARK 500 THR A 311 65.89 31.10 REMARK 500 PRO A 365 41.62 -85.86 REMARK 500 MET A 398 57.04 -144.54 REMARK 500 TRP A 414 -23.65 -143.03 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 THR A 201 GLY A 202 -143.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 PROTOPORPHYRIN IX CONTAINING FE (HEM): THIOLATE BOND TO CYS REMARK 600 377 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 A1434 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 377 SG REMARK 620 2 HEM A1434 NA 100.5 REMARK 620 3 HEM A1434 NB 91.1 87.3 REMARK 620 4 HEM A1434 NC 88.0 171.4 91.1 REMARK 620 5 HEM A1434 ND 97.6 91.1 171.4 89.2 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 1434 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1432 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2X5W RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS CYTOCHROME P450 REMARK 900 CYP125 IN COMPLEX WITH SUBSTRATE CHOLEST-4-EN-3-ONE REMARK 900 RELATED ID: 2XC3 RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF CYP125A1 FROM M. TUBERCULOSIS BOUND TO THE REMARK 900 REVERSE TYPE I INHIBITOR REMARK 900 RELATED ID: 2X5L RELATED DB: PDB REMARK 900 X-RAY STRUCTURE OF THE TRUNCATED FORM OF CYP125A1 FROM M. REMARK 900 TUBERCULOSIS REMARK 999 REMARK 999 SEQUENCE REMARK 999 FIRST 16 RESIDUES UPSTREAM OF V17 ARE TRUNCATED. MUTATIONS REMARK 999 V17M AND C429L ARE ENGINEERED. 6XHIS TAG IS ENGINEERED AT REMARK 999 THE N-TERMINUS DBREF 2XN8 A 17 433 UNP P63709 CP125_MYCTU 17 433 SEQADV 2XN8 HIS A 11 UNP P63709 EXPRESSION TAG SEQADV 2XN8 HIS A 12 UNP P63709 EXPRESSION TAG SEQADV 2XN8 HIS A 13 UNP P63709 EXPRESSION TAG SEQADV 2XN8 HIS A 14 UNP P63709 EXPRESSION TAG SEQADV 2XN8 HIS A 15 UNP P63709 EXPRESSION TAG SEQADV 2XN8 HIS A 16 UNP P63709 EXPRESSION TAG SEQADV 2XN8 MET A 17 UNP P63709 VAL 17 ENGINEERED MUTATION SEQADV 2XN8 LEU A 429 UNP P63709 CYS 429 ENGINEERED MUTATION SEQRES 1 A 423 HIS HIS HIS HIS HIS HIS MET PRO SER PRO ASN LEU PRO SEQRES 2 A 423 PRO GLY PHE ASP PHE THR ASP PRO ALA ILE TYR ALA GLU SEQRES 3 A 423 ARG LEU PRO VAL ALA GLU PHE ALA GLU LEU ARG SER ALA SEQRES 4 A 423 ALA PRO ILE TRP TRP ASN GLY GLN ASP PRO GLY LYS GLY SEQRES 5 A 423 GLY GLY PHE HIS ASP GLY GLY PHE TRP ALA ILE THR LYS SEQRES 6 A 423 LEU ASN ASP VAL LYS GLU ILE SER ARG HIS SER ASP VAL SEQRES 7 A 423 PHE SER SER TYR GLU ASN GLY VAL ILE PRO ARG PHE LYS SEQRES 8 A 423 ASN ASP ILE ALA ARG GLU ASP ILE GLU VAL GLN ARG PHE SEQRES 9 A 423 VAL MET LEU ASN MET ASP ALA PRO HIS HIS THR ARG LEU SEQRES 10 A 423 ARG LYS ILE ILE SER ARG GLY PHE THR PRO ARG ALA VAL SEQRES 11 A 423 GLY ARG LEU HIS ASP GLU LEU GLN GLU ARG ALA GLN LYS SEQRES 12 A 423 ILE ALA ALA GLU ALA ALA ALA ALA GLY SER GLY ASP PHE SEQRES 13 A 423 VAL GLU GLN VAL SER CYS GLU LEU PRO LEU GLN ALA ILE SEQRES 14 A 423 ALA GLY LEU LEU GLY VAL PRO GLN GLU ASP ARG GLY LYS SEQRES 15 A 423 LEU PHE HIS TRP SER ASN GLU MET THR GLY ASN GLU ASP SEQRES 16 A 423 PRO GLU TYR ALA HIS ILE ASP PRO LYS ALA SER SER ALA SEQRES 17 A 423 GLU LEU ILE GLY TYR ALA MET LYS MET ALA GLU GLU LYS SEQRES 18 A 423 ALA LYS ASN PRO ALA ASP ASP ILE VAL THR GLN LEU ILE SEQRES 19 A 423 GLN ALA ASP ILE ASP GLY GLU LYS LEU SER ASP ASP GLU SEQRES 20 A 423 PHE GLY PHE PHE VAL VAL MET LEU ALA VAL ALA GLY ASN SEQRES 21 A 423 GLU THR THR ARG ASN SER ILE THR GLN GLY MET MET ALA SEQRES 22 A 423 PHE ALA GLU HIS PRO ASP GLN TRP GLU LEU TYR LYS LYS SEQRES 23 A 423 VAL ARG PRO GLU THR ALA ALA ASP GLU ILE VAL ARG TRP SEQRES 24 A 423 ALA THR PRO VAL THR ALA PHE GLN ARG THR ALA LEU ARG SEQRES 25 A 423 ASP TYR GLU LEU SER GLY VAL GLN ILE LYS LYS GLY GLN SEQRES 26 A 423 ARG VAL VAL MET PHE TYR ARG SER ALA ASN PHE ASP GLU SEQRES 27 A 423 GLU VAL PHE GLN ASP PRO PHE THR PHE ASN ILE LEU ARG SEQRES 28 A 423 ASN PRO ASN PRO HIS VAL GLY PHE GLY GLY THR GLY ALA SEQRES 29 A 423 HIS TYR CYS ILE GLY ALA ASN LEU ALA ARG MET THR ILE SEQRES 30 A 423 ASN LEU ILE PHE ASN ALA VAL ALA ASP HIS MET PRO ASP SEQRES 31 A 423 LEU LYS PRO ILE SER ALA PRO GLU ARG LEU ARG SER GLY SEQRES 32 A 423 TRP LEU ASN GLY ILE LYS HIS TRP GLN VAL ASP TYR THR SEQRES 33 A 423 GLY ARG LEU PRO VAL ALA HIS HET SO4 A1432 5 HET HEM A1434 43 HETNAM SO4 SULFATE ION HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETSYN HEM HEME FORMUL 2 SO4 O4 S 2- FORMUL 3 HEM C34 H32 FE N4 O4 FORMUL 4 HOH *464(H2 O) HELIX 1 1 ASP A 30 ALA A 35 1 6 HELIX 2 2 PRO A 39 ALA A 50 1 12 HELIX 3 3 LYS A 75 HIS A 85 1 11 HELIX 4 4 ALA A 105 VAL A 111 1 7 HELIX 5 5 GLN A 112 MET A 119 5 8 HELIX 6 6 PRO A 122 SER A 132 1 11 HELIX 7 7 ARG A 133 PHE A 135 5 3 HELIX 8 8 THR A 136 ARG A 142 1 7 HELIX 9 9 LEU A 143 GLY A 162 1 20 HELIX 10 10 PHE A 166 VAL A 170 1 5 HELIX 11 11 CYS A 172 GLY A 184 1 13 HELIX 12 12 PRO A 186 GLU A 188 5 3 HELIX 13 13 ASP A 189 GLU A 199 1 11 HELIX 14 14 ASP A 205 ALA A 209 5 5 HELIX 15 15 ASP A 212 ALA A 232 1 21 HELIX 16 16 ASP A 238 GLN A 245 1 8 HELIX 17 17 SER A 254 GLY A 269 1 16 HELIX 18 18 ASN A 270 HIS A 287 1 18 HELIX 19 19 HIS A 287 ARG A 298 1 12 HELIX 20 20 THR A 301 THR A 311 1 11 HELIX 21 21 TYR A 341 ASN A 345 1 5 HELIX 22 22 GLY A 379 MET A 398 1 20 SHEET 1 AA 5 ILE A 52 GLY A 56 0 SHEET 2 AA 5 GLY A 69 ILE A 73 -1 O PHE A 70 N ASN A 55 SHEET 3 AA 5 ARG A 336 PHE A 340 1 O ARG A 336 N TRP A 71 SHEET 4 AA 5 ALA A 315 ALA A 320 -1 O PHE A 316 N MET A 339 SHEET 5 AA 5 PHE A 89 SER A 90 -1 O SER A 90 N THR A 319 SHEET 1 AB 3 SER A 163 ASP A 165 0 SHEET 2 AB 3 GLN A 422 ASP A 424 -1 O VAL A 423 N GLY A 164 SHEET 3 AB 3 LYS A 402 PRO A 403 -1 O LYS A 402 N ASP A 424 SHEET 1 AC 2 TYR A 324 LEU A 326 0 SHEET 2 AC 2 VAL A 329 ILE A 331 -1 O VAL A 329 N LEU A 326 SHEET 1 AD 2 GLU A 408 ARG A 409 0 SHEET 2 AD 2 ILE A 418 HIS A 420 -1 N LYS A 419 O GLU A 408 LINK SG CYS A 377 FE HEM A1434 1555 1555 2.36 CISPEP 1 ALA A 121 PRO A 122 0 3.36 CISPEP 2 ASN A 362 PRO A 363 0 -5.84 SITE 1 AC1 26 LEU A 117 HIS A 124 ARG A 128 MET A 264 SITE 2 AC1 26 ALA A 268 GLY A 269 THR A 272 THR A 273 SITE 3 AC1 26 SER A 276 PRO A 312 PHE A 316 ARG A 318 SITE 4 AC1 26 GLY A 368 PHE A 369 GLY A 370 GLY A 371 SITE 5 AC1 26 ALA A 374 HIS A 375 TYR A 376 CYS A 377 SITE 6 AC1 26 ILE A 378 GLY A 379 HOH A2303 HOH A2365 SITE 7 AC1 26 HOH A2463 HOH A2464 SITE 1 AC2 7 LYS A 101 ASN A 102 ARG A 411 HOH A2134 SITE 2 AC2 7 HOH A2460 HOH A2461 HOH A2462 CRYST1 54.365 76.316 90.357 90.00 90.00 90.00 P 21 21 21 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 0.018394 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013103 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011067 0.00000