HEADER OXIDOREDUCTASE 26-MAY-16 5K7K
TITLE DESIGN AND OPTIMIZATION OF BIARYL ETHER ARYL SULFONAMIDES AS SELECTIVE
TITLE 2 INHIBITORS OF NAV1.7: DISCOVERY OF CLINICAL CANDIDATE PF-05089771
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: CYTOCHROME P450 2C9;
COMPND 3 CHAIN: A;
COMPND 4 SYNONYM: (R)-LIMONENE 6-MONOOXYGENASE,(S)-LIMONENE 6-MONOOXYGENASE,
COMPND 5 (S)-LIMONENE 7-MONOOXYGENASE,CYPIIC9,CHOLESTEROL 25-HYDROXYLASE,
COMPND 6 CYTOCHROME P-450MP,CYTOCHROME P450 MP-4,CYTOCHROME P450 MP-8,
COMPND 7 CYTOCHROME P450 PB-1,S-MEPHENYTOIN 4-HYDROXYLASE;
COMPND 8 EC: 1.14.13.80;
COMPND 9 ENGINEERED: YES
SOURCE MOL_ID: 1;
SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS;
SOURCE 3 ORGANISM_COMMON: HUMAN;
SOURCE 4 ORGANISM_TAXID: 9606;
SOURCE 5 GENE: CYP2C9, CYP2C10;
SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI;
SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562
KEYWDS CYP2C9, OXIDOREDUCTASE
EXPDTA X-RAY DIFFRACTION
AUTHOR N.SWAIN,J.CHRENCIK
REVDAT 4 27-SEP-23 5K7K 1 REMARK
REVDAT 3 06-SEP-17 5K7K 1 JRNL
REVDAT 2 30-AUG-17 5K7K 1 JRNL
REVDAT 1 07-JUN-17 5K7K 0
JRNL AUTH N.A.SWAIN,D.BATCHELOR,S.BEAUDOIN,B.M.BECHLE,P.A.BRADLEY,
JRNL AUTH 2 A.D.BROWN,B.BROWN,K.J.BUTCHER,R.P.BUTT,M.L.CHAPMAN,S.DENTON,
JRNL AUTH 3 D.ELLIS,S.R.G.GALAN,S.M.GAULIER,B.S.GREENER,M.J.DE GROOT,
JRNL AUTH 4 M.S.GLOSSOP,I.K.GURRELL,J.HANNAM,M.S.JOHNSON,Z.LIN,
JRNL AUTH 5 C.J.MARKWORTH,B.E.MARRON,D.S.MILLAN,S.NAKAGAWA,A.PIKE,
JRNL AUTH 6 D.PRINTZENHOFF,D.J.RAWSON,S.J.RANSLEY,S.M.REISTER,K.SASAKI,
JRNL AUTH 7 R.I.STORER,P.A.STUPPLE,C.W.WEST
JRNL TITL DISCOVERY OF CLINICAL CANDIDATE
JRNL TITL 2 4-[2-(5-AMINO-1H-PYRAZOL-4-YL)
JRNL TITL 3 -4-CHLOROPHENOXY]-5-CHLORO-2-FLUORO-N-1,
JRNL TITL 4 3-THIAZOL-4-YLBENZENESULFONAMIDE (PF-05089771): DESIGN AND
JRNL TITL 5 OPTIMIZATION OF DIARYL ETHER ARYL SULFONAMIDES AS SELECTIVE
JRNL TITL 6 INHIBITORS OF NAV1.7.
JRNL REF J. MED. CHEM. V. 60 7029 2017
JRNL REFN ISSN 1520-4804
JRNL PMID 28682065
JRNL DOI 10.1021/ACS.JMEDCHEM.7B00598
REMARK 2
REMARK 2 RESOLUTION. 2.30 ANGSTROMS.
REMARK 3
REMARK 3 REFINEMENT.
REMARK 3 PROGRAM : REFMAC 5.8.0073
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) : 2.30
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 17.33
REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL
REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6
REMARK 3 NUMBER OF REFLECTIONS : 22151
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) : 0.227
REMARK 3 R VALUE (WORKING SET) : 0.224
REMARK 3 FREE R VALUE : 0.272
REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100
REMARK 3 FREE R VALUE TEST SET COUNT : 1192
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) : 2.30
REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.36
REMARK 3 REFLECTION IN BIN (WORKING SET) : 1678
REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.83
REMARK 3 BIN R VALUE (WORKING SET) : 0.2690
REMARK 3 BIN FREE R VALUE SET COUNT : 69
REMARK 3 BIN FREE R VALUE : 0.3700
REMARK 3
REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT.
REMARK 3 PROTEIN ATOMS : 3646
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 73
REMARK 3 SOLVENT ATOMS : 37
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 59.48
REMARK 3 OVERALL ANISOTROPIC B VALUE.
REMARK 3 B11 (A**2) : 0.01000
REMARK 3 B22 (A**2) : 0.01000
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): 0.383
REMARK 3 ESU BASED ON FREE R VALUE (A): 0.263
REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.197
REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.028
REMARK 3
REMARK 3 CORRELATION COEFFICIENTS.
REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939
REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.917
REMARK 3
REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT
REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3818 ; 0.016 ; 0.019
REMARK 3 BOND LENGTHS OTHERS (A): 3668 ; 0.001 ; 0.020
REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5175 ; 2.049 ; 1.985
REMARK 3 BOND ANGLES OTHERS (DEGREES): 8468 ; 1.106 ; 3.000
REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 452 ; 2.983 ; 5.000
REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 166 ;40.305 ;24.036
REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 672 ;19.524 ;15.000
REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;17.900 ;15.000
REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 562 ; 0.115 ; 0.200
REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4353 ; 0.009 ; 0.021
REMARK 3 GENERAL PLANES OTHERS (A): 875 ; 0.005 ; 0.020
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): 1817 ; 3.837 ; 5.704
REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1816 ; 3.837 ; 5.700
REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2266 ; 5.965 ; 8.538
REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 2267 ; 5.963 ; 8.542
REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2001 ; 3.659 ; 6.133
REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 2002 ; 3.658 ; 6.133
REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL
REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2910 ; 5.842 ; 9.022
REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 15475 ;11.127 ;52.932
REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 15447 ;11.124 ;52.896
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 ADDED IN THE RIDING
REMARK 3 POSITIONS
REMARK 4
REMARK 4 5K7K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11
REMARK 100
REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-JUN-16.
REMARK 100 THE DEPOSITION ID IS D_1000221858.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 22-JAN-08
REMARK 200 TEMPERATURE (KELVIN) : 293
REMARK 200 PH : 8.5
REMARK 200 NUMBER OF CRYSTALS USED : 1
REMARK 200
REMARK 200 SYNCHROTRON (Y/N) : Y
REMARK 200 RADIATION SOURCE : ESRF
REMARK 200 BEAMLINE : ID14-4
REMARK 200 X-RAY GENERATOR MODEL : NULL
REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M
REMARK 200 WAVELENGTH OR RANGE (A) : 1
REMARK 200 MONOCHROMATOR : NULL
REMARK 200 OPTICS : NULL
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 : HKL-2000
REMARK 200
REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22151
REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300
REMARK 200 RESOLUTION RANGE LOW (A) : 17.000
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6
REMARK 200 DATA REDUNDANCY : 6.000
REMARK 200 R MERGE (I) : NULL
REMARK 200 R SYM (I) : NULL
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 3.0000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.36
REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9
REMARK 200 DATA REDUNDANCY IN SHELL : NULL
REMARK 200 R MERGE FOR SHELL (I) : NULL
REMARK 200 R SYM FOR SHELL (I) : NULL
REMARK 200 <I/SIGMA(I)> 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: 1R9O
REMARK 200
REMARK 200 REMARK: NULL
REMARK 280
REMARK 280 CRYSTAL
REMARK 280 SOLVENT CONTENT, VS (%): 51.38
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.53
REMARK 280
REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM HEPES AT 8.5 WITH 2% PEG 4K.
REMARK 280 CRYSTALLIZER ALEC TUCKER CRYOPROTECTAND 40% PEG 4K, PH 8.5,
REMARK 280 VAPOR DIFFUSION, TEMPERATURE 293K
REMARK 290
REMARK 290 CRYSTALLOGRAPHIC SYMMETRY
REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: H 3
REMARK 290
REMARK 290 SYMOP SYMMETRY
REMARK 290 NNNMMM OPERATOR
REMARK 290 1555 X,Y,Z
REMARK 290 2555 -Y,X-Y,Z
REMARK 290 3555 -X+Y,-X,Z
REMARK 290 4555 X+2/3,Y+1/3,Z+1/3
REMARK 290 5555 -Y+2/3,X-Y+1/3,Z+1/3
REMARK 290 6555 -X+Y+2/3,-X+1/3,Z+1/3
REMARK 290 7555 X+1/3,Y+2/3,Z+2/3
REMARK 290 8555 -Y+1/3,X-Y+2/3,Z+2/3
REMARK 290 9555 -X+Y+1/3,-X+2/3,Z+2/3
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 0.00000
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 0.00000
REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 45.84500
REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 26.46862
REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 56.62667
REMARK 290 SMTRY1 5 -0.500000 -0.866025 0.000000 45.84500
REMARK 290 SMTRY2 5 0.866025 -0.500000 0.000000 26.46862
REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 56.62667
REMARK 290 SMTRY1 6 -0.500000 0.866025 0.000000 45.84500
REMARK 290 SMTRY2 6 -0.866025 -0.500000 0.000000 26.46862
REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 56.62667
REMARK 290 SMTRY1 7 1.000000 0.000000 0.000000 0.00000
REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 52.93725
REMARK 290 SMTRY3 7 0.000000 0.000000 1.000000 113.25333
REMARK 290 SMTRY1 8 -0.500000 -0.866025 0.000000 0.00000
REMARK 290 SMTRY2 8 0.866025 -0.500000 0.000000 52.93725
REMARK 290 SMTRY3 8 0.000000 0.000000 1.000000 113.25333
REMARK 290 SMTRY1 9 -0.500000 0.866025 0.000000 0.00000
REMARK 290 SMTRY2 9 -0.866025 -0.500000 0.000000 52.93725
REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 113.25333
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 18
REMARK 465 ALA A 19
REMARK 465 LYS A 20
REMARK 465 LYS A 21
REMARK 465 THR A 22
REMARK 465 SER A 23
REMARK 465 SER A 24
REMARK 465 GLY A 25
REMARK 465 VAL A 38
REMARK 465 ILE A 39
REMARK 465 GLY A 40
REMARK 465 ASN A 41
REMARK 465 ILE A 42
REMARK 465 GLN A 214
REMARK 465 ILE A 215
REMARK 465 CYS A 216
REMARK 465 ASN A 217
REMARK 465 ASN A 218
REMARK 465 PHE A 219
REMARK 465 SER A 220
REMARK 465 HIS A 493
REMARK 465 HIS A 494
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 LYS A 72 CG CD CE NZ
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 TYR A 225 OG1 THR A 229 1.89
REMARK 500 NH2 ARG A 108 OD1 ASP A 293 1.92
REMARK 500 O PHE A 487 O HOH A 601 2.19
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: CLOSE CONTACTS
REMARK 500
REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC
REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15
REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A
REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375
REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE
REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS.
REMARK 500
REMARK 500 DISTANCE CUTOFF:
REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS
REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS
REMARK 500
REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE
REMARK 500 NE2 GLN A 44 O PHE A 226 2545 2.17
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 TYR A 225 CB - CA - C ANGL. DEV. = -17.6 DEGREES
REMARK 500 TYR A 225 N - CA - C ANGL. DEV. = 31.4 DEGREES
REMARK 500 PRO A 227 CB - CA - C ANGL. DEV. = -18.3 DEGREES
REMARK 500 PRO A 227 N - CA - C ANGL. DEV. = -16.8 DEGREES
REMARK 500 PRO A 279 C - N - CD ANGL. DEV. = 17.5 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 LEU A 36 -1.52 102.14
REMARK 500 PHE A 69 71.66 -116.06
REMARK 500 PHE A 100 -75.96 -108.78
REMARK 500 PRO A 101 -103.00 -98.12
REMARK 500 ALA A 103 96.51 -68.49
REMARK 500 ASN A 107 72.51 52.95
REMARK 500 PRO A 211 -178.37 -68.33
REMARK 500 PRO A 227 77.55 -103.10
REMARK 500 SER A 254 35.41 -96.44
REMARK 500 HIS A 276 -6.98 68.20
REMARK 500 SER A 365 -122.50 58.91
REMARK 500 ARG A 377 -127.39 59.35
REMARK 500 ASN A 403 65.73 65.75
REMARK 500 SER A 429 -160.24 78.26
REMARK 500 CYS A 435 116.58 -38.12
REMARK 500 PHE A 476 -31.54 -132.65
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 501 FE
REMARK 620 N RES CSSEQI ATOM
REMARK 620 1 CYS A 435 SG
REMARK 620 2 HEM A 501 NA 98.1
REMARK 620 3 HEM A 501 NB 91.0 94.0
REMARK 620 4 HEM A 501 NC 82.3 173.5 92.4
REMARK 620 5 HEM A 501 ND 89.1 87.2 178.7 86.4
REMARK 620 6 6RJ A 502 N28 175.1 85.6 91.8 93.7 87.9
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 501
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: binding site for residue 6RJ A 502
DBREF 5K7K A 23 489 UNP P11712 CP2C9_HUMAN 23 489
SEQADV 5K7K MET A 18 UNP P11712 EXPRESSION TAG
SEQADV 5K7K ALA A 19 UNP P11712 EXPRESSION TAG
SEQADV 5K7K LYS A 20 UNP P11712 EXPRESSION TAG
SEQADV 5K7K LYS A 21 UNP P11712 EXPRESSION TAG
SEQADV 5K7K THR A 22 UNP P11712 EXPRESSION TAG
SEQADV 5K7K ILE A 490 UNP P11712 EXPRESSION TAG
SEQADV 5K7K HIS A 491 UNP P11712 EXPRESSION TAG
SEQADV 5K7K HIS A 492 UNP P11712 EXPRESSION TAG
SEQADV 5K7K HIS A 493 UNP P11712 EXPRESSION TAG
SEQADV 5K7K HIS A 494 UNP P11712 EXPRESSION TAG
SEQRES 1 A 477 MET ALA LYS LYS THR SER SER GLY ARG GLY LYS LEU PRO
SEQRES 2 A 477 PRO GLY PRO THR PRO LEU PRO VAL ILE GLY ASN ILE LEU
SEQRES 3 A 477 GLN ILE GLY ILE LYS ASP ILE SER LYS SER LEU THR ASN
SEQRES 4 A 477 LEU SER LYS VAL TYR GLY PRO VAL PHE THR LEU TYR PHE
SEQRES 5 A 477 GLY LEU LYS PRO ILE VAL VAL LEU HIS GLY TYR GLU ALA
SEQRES 6 A 477 VAL LYS GLU ALA LEU ILE ASP LEU GLY GLU GLU PHE SER
SEQRES 7 A 477 GLY ARG GLY ILE PHE PRO LEU ALA GLU ARG ALA ASN ARG
SEQRES 8 A 477 GLY PHE GLY ILE VAL PHE SER ASN GLY LYS LYS TRP LYS
SEQRES 9 A 477 GLU ILE ARG ARG PHE SER LEU MET THR LEU ARG ASN PHE
SEQRES 10 A 477 GLY MET GLY LYS ARG SER ILE GLU ASP ARG VAL GLN GLU
SEQRES 11 A 477 GLU ALA ARG CYS LEU VAL GLU GLU LEU ARG LYS THR LYS
SEQRES 12 A 477 ALA SER PRO CYS ASP PRO THR PHE ILE LEU GLY CYS ALA
SEQRES 13 A 477 PRO CYS ASN VAL ILE CYS SER ILE ILE PHE HIS LYS ARG
SEQRES 14 A 477 PHE ASP TYR LYS ASP GLN GLN PHE LEU ASN LEU MET GLU
SEQRES 15 A 477 LYS LEU ASN GLU ASN ILE LYS ILE LEU SER SER PRO TRP
SEQRES 16 A 477 ILE GLN ILE CYS ASN ASN PHE SER PRO ILE ILE ASP TYR
SEQRES 17 A 477 PHE PRO GLY THR HIS ASN LYS LEU LEU LYS ASN VAL ALA
SEQRES 18 A 477 PHE MET LYS SER TYR ILE LEU GLU LYS VAL LYS GLU HIS
SEQRES 19 A 477 GLN GLU SER MET ASP MET ASN ASN PRO GLN ASP PHE ILE
SEQRES 20 A 477 ASP CYS PHE LEU MET LYS MET GLU LYS GLU LYS HIS ASN
SEQRES 21 A 477 GLN PRO SER GLU PHE THR ILE GLU SER LEU GLU ASN THR
SEQRES 22 A 477 ALA VAL ASP LEU PHE GLY ALA GLY THR GLU THR THR SER
SEQRES 23 A 477 THR THR LEU ARG TYR ALA LEU LEU LEU LEU LEU LYS HIS
SEQRES 24 A 477 PRO GLU VAL THR ALA LYS VAL GLN GLU GLU ILE GLU ARG
SEQRES 25 A 477 VAL ILE GLY ARG ASN ARG SER PRO CYS MET GLN ASP ARG
SEQRES 26 A 477 SER HIS MET PRO TYR THR ASP ALA VAL VAL HIS GLU VAL
SEQRES 27 A 477 GLN ARG TYR ILE ASP LEU LEU PRO THR SER LEU PRO HIS
SEQRES 28 A 477 ALA VAL THR CYS ASP ILE LYS PHE ARG ASN TYR LEU ILE
SEQRES 29 A 477 PRO LYS GLY THR THR ILE LEU ILE SER LEU THR SER VAL
SEQRES 30 A 477 LEU HIS ASP ASN LYS GLU PHE PRO ASN PRO GLU MET PHE
SEQRES 31 A 477 ASP PRO HIS HIS PHE LEU ASP GLU GLY GLY ASN PHE LYS
SEQRES 32 A 477 LYS SER LYS TYR PHE MET PRO PHE SER ALA GLY LYS ARG
SEQRES 33 A 477 ILE CYS VAL GLY GLU ALA LEU ALA GLY MET GLU LEU PHE
SEQRES 34 A 477 LEU PHE LEU THR SER ILE LEU GLN ASN PHE ASN LEU LYS
SEQRES 35 A 477 SER LEU VAL ASP PRO LYS ASN LEU ASP THR THR PRO VAL
SEQRES 36 A 477 VAL ASN GLY PHE ALA SER VAL PRO PRO PHE TYR GLN LEU
SEQRES 37 A 477 CYS PHE ILE PRO ILE HIS HIS HIS HIS
HET HEM A 501 43
HET 6RJ A 502 30
HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE
HETNAM 6RJ 4-[4-CHLORANYL-2-(1~{H}-PYRAZOL-4-YL)PHENOXY]-3-CYANO-
HETNAM 2 6RJ ~{N}-(1,3-THIAZOL-2-YL)BENZENESULFONAMIDE
HETSYN HEM HEME
FORMUL 2 HEM C34 H32 FE N4 O4
FORMUL 3 6RJ C19 H12 CL N5 O3 S2
FORMUL 4 HOH *37(H2 O)
HELIX 1 AA1 GLY A 46 GLY A 62 1 17
HELIX 2 AA2 GLY A 79 ILE A 88 1 10
HELIX 3 AA3 ASN A 116 LEU A 131 1 16
HELIX 4 AA4 SER A 140 LYS A 158 1 19
HELIX 5 AA5 PRO A 166 HIS A 184 1 19
HELIX 6 AA6 ASP A 191 SER A 209 1 19
HELIX 7 AA7 GLY A 228 SER A 254 1 27
HELIX 8 AA8 ASP A 262 GLU A 274 1 13
HELIX 9 AA9 THR A 283 HIS A 316 1 34
HELIX 10 AB1 HIS A 316 ILE A 331 1 16
HELIX 11 AB2 CYS A 338 HIS A 344 5 7
HELIX 12 AB3 MET A 345 ASP A 360 1 16
HELIX 13 AB4 LEU A 391 HIS A 396 1 6
HELIX 14 AB5 ASP A 408 LEU A 413 5 6
HELIX 15 AB6 ALA A 430 ILE A 434 5 5
HELIX 16 AB7 GLY A 437 ASN A 455 1 19
HELIX 17 AB8 ASP A 463 LEU A 467 5 5
SHEET 1 AA1 5 VAL A 64 PHE A 69 0
SHEET 2 AA1 5 LYS A 72 LEU A 77 -1 O VAL A 76 N PHE A 65
SHEET 3 AA1 5 THR A 386 ILE A 389 1 O LEU A 388 N VAL A 75
SHEET 4 AA1 5 HIS A 368 ALA A 369 -1 N HIS A 368 O ILE A 387
SHEET 5 AA1 5 GLY A 96 ARG A 97 -1 N GLY A 96 O ALA A 369
SHEET 1 AA2 2 ILE A 374 PHE A 376 0
SHEET 2 AA2 2 TYR A 379 ILE A 381 -1 O ILE A 381 N ILE A 374
SHEET 1 AA3 2 PHE A 456 SER A 460 0
SHEET 2 AA3 2 LEU A 485 PRO A 489 -1 O ILE A 488 N ASN A 457
LINK SG CYS A 435 FE HEM A 501 1555 1555 2.44
LINK FE HEM A 501 N28 6RJ A 502 1555 1555 2.21
CISPEP 1 GLN A 278 PRO A 279 0 -6.13
SITE 1 AC1 22 ARG A 97 ILE A 112 TRP A 120 ALA A 297
SITE 2 AC1 22 GLY A 298 THR A 301 THR A 302 THR A 305
SITE 3 AC1 22 LEU A 361 LEU A 362 SER A 365 HIS A 368
SITE 4 AC1 22 PRO A 427 PHE A 428 SER A 429 ARG A 433
SITE 5 AC1 22 CYS A 435 VAL A 436 GLY A 437 ALA A 441
SITE 6 AC1 22 6RJ A 502 HOH A 603
SITE 1 AC2 13 ARG A 108 PHE A 114 LEU A 201 ILE A 205
SITE 2 AC2 13 LEU A 208 MET A 240 VAL A 292 GLY A 296
SITE 3 AC2 13 ALA A 297 THR A 301 SER A 365 LEU A 366
SITE 4 AC2 13 HEM A 501
CRYST1 91.690 91.690 169.880 90.00 90.00 120.00 H 3 9
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 0.010906 0.006297 0.000000 0.00000
SCALE2 0.000000 0.012594 0.000000 0.00000
SCALE3 0.000000 0.000000 0.005887 0.00000