HEADER OXIDOREDUCTASE 22-OCT-15 5EDT TITLE CRYSTAL STRUCTURE OF MYCOBACTERIUM TUBERCULOSIS CYP121 IN COMPLEX WITH TITLE 2 LIG9 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450 121; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CYTOCHROME P450 MT2; COMPND 5 EC: 1.14.-.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM TUBERCULOSIS H37RV; SOURCE 3 ORGANISM_TAXID: 83332; SOURCE 4 GENE: CYP121, MB2299; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_VARIANT: C41 KEYWDS CYTOCHROME P450, CYP121, MYCOBACTERIUM TUBERCULOSIS, FRAGMENT-BASED KEYWDS 2 DRUG DISCOVERY, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR M.E.KAVANAGH,A.G.COYNE,K.J.MCLEAN,G.G.JAMES,C.LEVY,L.B.MARINO, AUTHOR 2 L.P.D.CARVALHO,D.S.H.CHAN,S.A.HUDSON,S.SURADE,A.W.MUNRO,C.ABELL REVDAT 5 10-JAN-24 5EDT 1 REMARK REVDAT 4 21-NOV-18 5EDT 1 SOURCE REVDAT 3 30-AUG-17 5EDT 1 ATOM REVDAT 2 27-APR-16 5EDT 1 JRNL REVDAT 1 06-APR-16 5EDT 0 JRNL AUTH M.E.KAVANAGH,A.G.COYNE,K.J.MCLEAN,G.G.JAMES,C.W.LEVY, JRNL AUTH 2 L.B.MARINO,L.P.DE CARVALHO,D.S.CHAN,S.A.HUDSON,S.SURADE, JRNL AUTH 3 D.LEYS,A.W.MUNRO,C.ABELL JRNL TITL FRAGMENT-BASED APPROACHES TO THE DEVELOPMENT OF JRNL TITL 2 MYCOBACTERIUM TUBERCULOSIS CYP121 INHIBITORS. JRNL REF J.MED.CHEM. V. 59 3272 2016 JRNL REFN ISSN 0022-2623 JRNL PMID 27002486 JRNL DOI 10.1021/ACS.JMEDCHEM.6B00007 REMARK 2 REMARK 2 RESOLUTION. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 7.10 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 3 NUMBER OF REFLECTIONS : 17218 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) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.187 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 895 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) : 2.44 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.50 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1010 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 93.69 REMARK 3 BIN R VALUE (WORKING SET) : 0.2460 REMARK 3 BIN FREE R VALUE SET COUNT : 45 REMARK 3 BIN FREE R VALUE : 0.4100 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3001 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 104 REMARK 3 SOLVENT ATOMS : 218 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 16.95 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.02000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -0.04000 REMARK 3 B12 (A**2) : 0.01000 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): 0.434 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.266 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.177 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 7.836 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.931 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.894 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3185 ; 0.015 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4359 ; 2.258 ; 2.022 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 393 ; 5.926 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 126 ;30.492 ;23.016 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 509 ;15.583 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;18.784 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 504 ; 0.110 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2386 ; 0.009 ; 0.022 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN USED IF PRESENT IN REMARK 3 THE INPUT REMARK 4 REMARK 4 5EDT COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-OCT-15. REMARK 100 THE DEPOSITION ID IS D_1000214749. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : BRUKER AXS MICROSTAR REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : BRUKER PLATINUM 135 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : XPREP REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 18202 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 7.100 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 32.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.08000 REMARK 200 FOR THE DATA SET : 16.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.51 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 9.77 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL 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: PHASER REMARK 200 STARTING MODEL: 4KTF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2M AMMONIUM SULFATE, 0.1M SODIUM REMARK 280 CACODYLATE, PH 6.0, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE REMARK 280 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 175.33333 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 87.66667 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 131.50000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 43.83333 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 219.16667 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 175.33333 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 87.66667 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 43.83333 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 131.50000 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 219.16667 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 3150 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 16400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -162.0 KCAL/MOL 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 634 LIES ON A SPECIAL POSITION. 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 THR A 2 N CA CB OG1 CG2 REMARK 470 ARG A 17 CZ NH1 NH2 REMARK 470 GLU A 24 CD OE1 OE2 REMARK 470 ARG A 28 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 33 CE NZ REMARK 470 LYS A 96 CE NZ REMARK 470 LYS A 100 NZ REMARK 470 LYS A 105 CG CD CE NZ REMARK 470 GLU A 127 CD OE1 OE2 REMARK 470 GLU A 261 CD OE1 OE2 REMARK 470 GLU A 317 CD OE1 OE2 REMARK 470 LYS A 364 CE NZ 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 TRP A 43 CE2 TRP A 43 CD2 0.073 REMARK 500 HIS A 217 CG HIS A 217 CD2 0.062 REMARK 500 HIS A 318 CG HIS A 318 CD2 0.055 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 GLU A 29 70.48 -150.93 REMARK 500 PHE A 137 -68.44 -144.63 REMARK 500 LYS A 262 77.30 -113.81 REMARK 500 ARG A 340 145.28 -175.27 REMARK 500 PHE A 344 137.66 -37.93 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 401 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 345 SG REMARK 620 2 HEM A 401 NA 110.2 REMARK 620 3 HEM A 401 NB 90.9 84.7 REMARK 620 4 HEM A 401 NC 100.1 149.4 90.7 REMARK 620 5 HEM A 401 ND 104.4 88.9 164.7 87.8 REMARK 620 6 HOH A 503 O 170.5 76.9 83.4 72.5 81.6 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 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 5MK A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 412 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4KTF RELATED DB: PDB DBREF 5EDT A 2 396 UNP P0A515 CP121_MYCBO 2 396 SEQRES 1 A 395 THR ALA THR VAL LEU LEU GLU VAL PRO PHE SER ALA ARG SEQRES 2 A 395 GLY ASP ARG ILE PRO ASP ALA VAL ALA GLU LEU ARG THR SEQRES 3 A 395 ARG GLU PRO ILE ARG LYS VAL ARG THR ILE THR GLY ALA SEQRES 4 A 395 GLU ALA TRP LEU VAL SER SER TYR ALA LEU CYS THR GLN SEQRES 5 A 395 VAL LEU GLU ASP ARG ARG PHE SER MET LYS GLU THR ALA SEQRES 6 A 395 ALA ALA GLY ALA PRO ARG LEU ASN ALA LEU THR VAL PRO SEQRES 7 A 395 PRO GLU VAL VAL ASN ASN MET GLY ASN ILE ALA ASP ALA SEQRES 8 A 395 GLY LEU ARG LYS ALA VAL MET LYS ALA ILE THR PRO LYS SEQRES 9 A 395 ALA PRO GLY LEU GLU GLN PHE LEU ARG ASP THR ALA ASN SEQRES 10 A 395 SER LEU LEU ASP ASN LEU ILE THR GLU GLY ALA PRO ALA SEQRES 11 A 395 ASP LEU ARG ASN ASP PHE ALA ASP PRO LEU ALA THR ALA SEQRES 12 A 395 LEU HIS CYS LYS VAL LEU GLY ILE PRO GLN GLU ASP GLY SEQRES 13 A 395 PRO LYS LEU PHE ARG SER LEU SER ILE ALA PHE MET SER SEQRES 14 A 395 SER ALA ASP PRO ILE PRO ALA ALA LYS ILE ASN TRP ASP SEQRES 15 A 395 ARG ASP ILE GLU TYR MET ALA GLY ILE LEU GLU ASN PRO SEQRES 16 A 395 ASN ILE THR THR GLY LEU MET GLY GLU LEU SER ARG LEU SEQRES 17 A 395 ARG LYS ASP PRO ALA TYR SER HIS VAL SER ASP GLU LEU SEQRES 18 A 395 PHE ALA THR ILE GLY VAL THR PHE PHE GLY ALA GLY VAL SEQRES 19 A 395 ILE SER THR GLY SER PHE LEU THR THR ALA LEU ILE SER SEQRES 20 A 395 LEU ILE GLN ARG PRO GLN LEU ARG ASN LEU LEU HIS GLU SEQRES 21 A 395 LYS PRO GLU LEU ILE PRO ALA GLY VAL GLU GLU LEU LEU SEQRES 22 A 395 ARG ILE ASN LEU SER PHE ALA ASP GLY LEU PRO ARG LEU SEQRES 23 A 395 ALA THR ALA ASP ILE GLN VAL GLY ASP VAL LEU VAL ARG SEQRES 24 A 395 LYS GLY GLU LEU VAL LEU VAL LEU LEU GLU GLY ALA ASN SEQRES 25 A 395 PHE ASP PRO GLU HIS PHE PRO ASN PRO GLY SER ILE GLU SEQRES 26 A 395 LEU ASP ARG PRO ASN PRO THR SER HIS LEU ALA PHE GLY SEQRES 27 A 395 ARG GLY GLN HIS PHE CYS PRO GLY SER ALA LEU GLY ARG SEQRES 28 A 395 ARG HIS ALA GLN ILE GLY ILE GLU ALA LEU LEU LYS LYS SEQRES 29 A 395 MET PRO GLY VAL ASP LEU ALA VAL PRO ILE ASP GLN LEU SEQRES 30 A 395 VAL TRP ARG THR ARG PHE GLN ARG ARG ILE PRO GLU ARG SEQRES 31 A 395 LEU PRO VAL LEU TRP HET HEM A 401 43 HET 5MK A 402 11 HET SO4 A 403 5 HET SO4 A 404 5 HET SO4 A 405 5 HET SO4 A 406 5 HET SO4 A 407 5 HET SO4 A 408 5 HET SO4 A 409 5 HET SO4 A 410 5 HET SO4 A 411 5 HET SO4 A 412 5 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM 5MK 2-AZANYL-5-CHLORANYL-BENZAMIDE HETNAM SO4 SULFATE ION HETSYN HEM HEME FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 5MK C7 H7 CL N2 O FORMUL 4 SO4 10(O4 S 2-) FORMUL 14 HOH *218(H2 O) HELIX 1 AA1 ASP A 20 GLU A 29 1 10 HELIX 2 AA2 SER A 47 ASP A 57 1 11 HELIX 3 AA3 MET A 62 ALA A 67 5 6 HELIX 4 AA4 PRO A 79 ASN A 84 1 6 HELIX 5 AA5 ASN A 84 ALA A 92 1 9 HELIX 6 AA6 LEU A 94 ILE A 102 1 9 HELIX 7 AA7 GLY A 108 GLY A 128 1 21 HELIX 8 AA8 PHE A 137 GLY A 151 1 15 HELIX 9 AA9 PRO A 153 GLU A 155 5 3 HELIX 10 AB1 ASP A 156 ARG A 162 1 7 HELIX 11 AB2 SER A 163 PHE A 168 1 6 HELIX 12 AB3 ILE A 175 GLU A 194 1 20 HELIX 13 AB4 THR A 200 ASP A 212 1 13 HELIX 14 AB5 PRO A 213 SER A 216 5 4 HELIX 15 AB6 SER A 219 GLN A 251 1 33 HELIX 16 AB7 ARG A 252 LYS A 262 1 11 HELIX 17 AB8 LEU A 265 ILE A 276 1 12 HELIX 18 AB9 LEU A 308 PHE A 314 1 7 HELIX 19 AC1 ARG A 340 PHE A 344 5 5 HELIX 20 AC2 GLY A 347 MET A 366 1 20 HELIX 21 AC3 PRO A 374 LEU A 378 5 5 SHEET 1 AA1 5 ILE A 31 ARG A 35 0 SHEET 2 AA1 5 GLU A 41 VAL A 45 -1 O LEU A 44 N ARG A 32 SHEET 3 AA1 5 LEU A 304 VAL A 307 1 O LEU A 306 N TRP A 43 SHEET 4 AA1 5 LEU A 284 ALA A 288 -1 N ARG A 286 O VAL A 305 SHEET 5 AA1 5 PHE A 60 SER A 61 -1 N SER A 61 O LEU A 287 SHEET 1 AA2 3 ALA A 131 ASP A 132 0 SHEET 2 AA2 3 PRO A 393 LEU A 395 -1 O VAL A 394 N ALA A 131 SHEET 3 AA2 3 ASP A 370 LEU A 371 -1 N ASP A 370 O LEU A 395 SHEET 1 AA3 2 ILE A 292 VAL A 294 0 SHEET 2 AA3 2 VAL A 297 VAL A 299 -1 O VAL A 297 N VAL A 294 LINK SG CYS A 345 FE HEM A 401 1555 1555 2.30 LINK FE HEM A 401 O HOH A 503 1555 1555 2.46 CISPEP 1 VAL A 9 PRO A 10 0 2.66 CISPEP 2 ALA A 129 PRO A 130 0 -3.14 SITE 1 AC1 20 MET A 62 MET A 86 HIS A 146 PHE A 230 SITE 2 AC1 20 ALA A 233 GLY A 234 SER A 237 PHE A 280 SITE 3 AC1 20 LEU A 284 ARG A 286 ALA A 337 PHE A 338 SITE 4 AC1 20 GLY A 339 HIS A 343 CYS A 345 PRO A 346 SITE 5 AC1 20 GLY A 347 SO4 A 403 HOH A 503 HOH A 599 SITE 1 AC2 11 THR A 77 VAL A 78 ALA A 167 PHE A 168 SITE 2 AC2 11 ALA A 178 ASN A 181 TRP A 182 ASP A 185 SITE 3 AC2 11 VAL A 228 HOH A 600 HOH A 638 SITE 1 AC3 6 ALA A 233 PHE A 280 ARG A 386 HEM A 401 SITE 2 AC3 6 HOH A 503 HOH A 539 SITE 1 AC4 5 ARG A 58 SER A 61 MET A 62 LYS A 63 SITE 2 AC4 5 HIS A 343 SITE 1 AC5 7 ARG A 134 PHE A 161 SER A 165 ARG A 381 SITE 2 AC5 7 ARG A 391 HOH A 515 HOH A 585 SITE 1 AC6 7 LYS A 211 PRO A 330 ASN A 331 PRO A 332 SITE 2 AC6 7 THR A 333 SER A 334 HOH A 579 SITE 1 AC7 4 ILE A 152 PRO A 153 GLN A 154 HOH A 520 SITE 1 AC8 4 SER A 219 ARG A 252 SER A 324 ILE A 325 SITE 1 AC9 5 ASP A 16 ARG A 17 ARG A 252 ILE A 276 SITE 2 AC9 5 PHE A 314 SITE 1 AD1 3 SER A 12 ARG A 14 HOH A 618 SITE 1 AD2 3 PRO A 19 ASP A 20 ALA A 21 SITE 1 AD3 2 PRO A 158 ARG A 162 CRYST1 77.000 77.000 263.000 90.00 90.00 120.00 P 65 2 2 12 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 0.012987 0.007498 0.000000 0.00000 SCALE2 0.000000 0.014996 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003802 0.00000