HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 25-AUG-15 5DE1 TITLE CRYSTAL STRUCTURE OF HUMAN IDH1 IN COMPLEX WITH GSK321A COMPND MOL_ID: 1; COMPND 2 MOLECULE: ISOCITRATE DEHYDROGENASE [NADP] CYTOPLASMIC; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: IDH,CYTOSOLIC NADP-ISOCITRATE DEHYDROGENASE,IDP,NADP(+)- COMPND 5 SPECIFIC ICDH,OXALOSUCCINATE DECARBOXYLASE; COMPND 6 EC: 1.1.1.42; COMPND 7 ENGINEERED: YES; COMPND 8 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: IDH1, PICD; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_CELL: SF9 CELLS; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: BACULOVIRUS KEYWDS IDH1, ALLOSTERIC INHIBITOR, NADP+, OXIDOREDUCTASE-OXIDOREDUCTASE KEYWDS 2 INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR N.O.CONCHA,A.SMALLWOOD,H.QI REVDAT 4 27-SEP-23 5DE1 1 REMARK REVDAT 3 28-OCT-15 5DE1 1 JRNL REVDAT 2 21-OCT-15 5DE1 1 JRNL REVDAT 1 07-OCT-15 5DE1 0 JRNL AUTH U.C.OKOYE-OKAFOR,B.BARTHOLDY,J.CARTIER,E.N.GAO,B.PIETRAK, JRNL AUTH 2 A.R.RENDINA,C.ROMINGER,C.QUINN,A.SMALLWOOD,K.J.WIGGALL, JRNL AUTH 3 A.J.REIF,S.J.SCHMIDT,H.QI,H.ZHAO,G.JOBERTY, JRNL AUTH 4 M.FAELTH-SAVITSKI,M.BANTSCHEFF,G.DREWES,C.DURAISWAMI, JRNL AUTH 5 P.BRADY,A.GROY,S.R.NARAYANAGARI,I.ANTONY-DEBRE,K.MITCHELL, JRNL AUTH 6 H.R.WANG,Y.R.KAO,M.CHRISTOPEIT,L.CARVAJAL,L.BARREYRO, JRNL AUTH 7 E.PAIETTA,H.MAKISHIMA,B.WILL,N.CONCHA,N.D.ADAMS,B.SCHWARTZ, JRNL AUTH 8 M.T.MCCABE,J.MACIEJEWSKI,A.VERMA,U.STEIDL JRNL TITL NEW IDH1 MUTANT INHIBITORS FOR TREATMENT OF ACUTE MYELOID JRNL TITL 2 LEUKEMIA. JRNL REF NAT.CHEM.BIOL. V. 11 878 2015 JRNL REFN ESSN 1552-4469 JRNL PMID 26436839 JRNL DOI 10.1038/NCHEMBIO.1930 REMARK 2 REMARK 2 RESOLUTION. 2.25 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) : 2.25 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.93 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 48511 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) : 0.222 REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2589 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) : 2.25 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.31 REMARK 3 REFLECTION IN BIN (WORKING SET) : 3488 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2730 REMARK 3 BIN FREE R VALUE SET COUNT : 203 REMARK 3 BIN FREE R VALUE : 0.2970 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6235 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 170 REMARK 3 SOLVENT ATOMS : 159 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 50.45 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.50000 REMARK 3 B22 (A**2) : 0.50000 REMARK 3 B33 (A**2) : -1.00000 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): 0.274 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.217 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.162 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.860 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.926 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6549 ; 0.004 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 6118 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8874 ; 0.951 ; 1.977 REMARK 3 BOND ANGLES OTHERS (DEGREES): 14071 ; 0.659 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 793 ; 5.079 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 285 ;32.947 ;24.807 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1110 ;11.538 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 26 ;17.600 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 966 ; 0.049 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7443 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 1525 ; 0.001 ; 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): 3190 ; 0.931 ; 3.908 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3189 ; 0.931 ; 3.907 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3977 ; 1.659 ; 5.849 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 : 2 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 3 A 414 REMARK 3 ORIGIN FOR THE GROUP (A): -33.1660 2.5790 -14.7160 REMARK 3 T TENSOR REMARK 3 T11: 0.0830 T22: 0.0093 REMARK 3 T33: 0.1881 T12: 0.0183 REMARK 3 T13: -0.0536 T23: -0.0384 REMARK 3 L TENSOR REMARK 3 L11: 0.7834 L22: 0.1083 REMARK 3 L33: 0.7039 L12: -0.2495 REMARK 3 L13: -0.3761 L23: 0.0196 REMARK 3 S TENSOR REMARK 3 S11: -0.0500 S12: -0.0085 S13: -0.0691 REMARK 3 S21: 0.0098 S22: 0.0069 S23: -0.0204 REMARK 3 S31: 0.0904 S32: 0.0208 S33: 0.0431 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 3 B 413 REMARK 3 ORIGIN FOR THE GROUP (A): -29.3810 9.3880 18.7180 REMARK 3 T TENSOR REMARK 3 T11: 0.0503 T22: 0.0336 REMARK 3 T33: 0.1548 T12: 0.0048 REMARK 3 T13: -0.0281 T23: -0.0046 REMARK 3 L TENSOR REMARK 3 L11: 0.8643 L22: 0.3330 REMARK 3 L33: 0.4059 L12: 0.1207 REMARK 3 L13: 0.3742 L23: -0.2126 REMARK 3 S TENSOR REMARK 3 S11: -0.0405 S12: 0.0428 S13: 0.0719 REMARK 3 S21: 0.0085 S22: -0.0291 S23: -0.0552 REMARK 3 S31: -0.0414 S32: 0.0281 S33: 0.0697 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 5DE1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-AUG-15. REMARK 100 THE DEPOSITION ID IS D_1000213038. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-APR-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97856 REMARK 200 MONOCHROMATOR : GRAPHITE 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 : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51200 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.250 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 8.500 REMARK 200 R MERGE (I) : 0.06700 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.25 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.33 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 8.60 REMARK 200 R MERGE FOR SHELL (I) : 0.71300 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: FOURIER SYNTHESIS REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: PDB ENTRY 4L04 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.79 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18-23% PEG3350, 0.2M AMMONIUM SULFATE, REMARK 280 0.1M BIS-TRIS, PH 7.0, 10MM NADP+, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 151.81950 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 41.36300 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 41.36300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 227.72925 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 41.36300 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 41.36300 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 75.90975 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 41.36300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 41.36300 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 227.72925 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 41.36300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 41.36300 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 75.90975 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 151.81950 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6600 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34740 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -41.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 SER A 2 REMARK 465 ALA A 134 REMARK 465 TYR A 135 REMARK 465 GLY A 136 REMARK 465 ASP A 137 REMARK 465 GLN A 138 REMARK 465 TYR A 139 REMARK 465 TYR A 272 REMARK 465 ASP A 273 REMARK 465 GLY A 274 REMARK 465 ASP A 275 REMARK 465 VAL A 276 REMARK 465 GLN A 277 REMARK 465 SER A 278 REMARK 465 SER B 2 REMARK 465 GLY B 136 REMARK 465 ASP B 137 REMARK 465 GLN B 138 REMARK 465 TYR B 139 REMARK 465 TYR B 272 REMARK 465 ASP B 273 REMARK 465 GLY B 274 REMARK 465 ASP B 275 REMARK 465 VAL B 276 REMARK 465 GLN B 277 REMARK 465 SER B 278 REMARK 465 LEU B 414 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 3 CG CD CE NZ REMARK 470 LYS A 81 CG CD CE NZ REMARK 470 ARG A 140 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 212 CG CD CE NZ REMARK 470 LYS A 243 CG CD CE NZ REMARK 470 ASP A 279 CG OD1 OD2 REMARK 470 LYS A 350 CG CD CE NZ REMARK 470 LYS A 413 CG CD CE NZ REMARK 470 LYS B 3 CG CD CE NZ REMARK 470 GLU B 62 CG CD OE1 OE2 REMARK 470 GLU B 80 CG CD OE1 OE2 REMARK 470 LYS B 81 CG CD CE NZ REMARK 470 LYS B 93 CG CD CE NZ REMARK 470 TYR B 135 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ARG B 140 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 164 CE NZ REMARK 470 GLU B 174 CG CD OE1 OE2 REMARK 470 LYS B 212 CG CD CE NZ REMARK 470 LYS B 217 CG CD CE NZ REMARK 470 LYS B 233 CG CD CE NZ REMARK 470 LYS B 270 CD CE NZ REMARK 470 ASP B 279 CG OD1 OD2 REMARK 470 LYS B 350 CD CE NZ REMARK 470 LYS B 413 CG CD CE NZ 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 17 -128.29 52.28 REMARK 500 ILE A 31 -64.40 -98.42 REMARK 500 ASN A 68 -21.84 75.59 REMARK 500 THR A 142 71.90 54.92 REMARK 500 LYS A 212 53.08 -111.02 REMARK 500 GLU B 17 -136.15 51.97 REMARK 500 ILE B 31 -61.79 -98.07 REMARK 500 ASN B 68 -15.03 76.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAP A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 59D A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NAP B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 59D B 502 DBREF 5DE1 A 2 414 UNP O75874 IDHC_HUMAN 2 414 DBREF 5DE1 B 2 414 UNP O75874 IDHC_HUMAN 2 414 SEQADV 5DE1 HIS A 132 UNP O75874 ARG 132 ENGINEERED MUTATION SEQADV 5DE1 HIS B 132 UNP O75874 ARG 132 ENGINEERED MUTATION SEQRES 1 A 413 SER LYS LYS ILE SER GLY GLY SER VAL VAL GLU MET GLN SEQRES 2 A 413 GLY ASP GLU MET THR ARG ILE ILE TRP GLU LEU ILE LYS SEQRES 3 A 413 GLU LYS LEU ILE PHE PRO TYR VAL GLU LEU ASP LEU HIS SEQRES 4 A 413 SER TYR ASP LEU GLY ILE GLU ASN ARG ASP ALA THR ASN SEQRES 5 A 413 ASP GLN VAL THR LYS ASP ALA ALA GLU ALA ILE LYS LYS SEQRES 6 A 413 HIS ASN VAL GLY VAL LYS CYS ALA THR ILE THR PRO ASP SEQRES 7 A 413 GLU LYS ARG VAL GLU GLU PHE LYS LEU LYS GLN MET TRP SEQRES 8 A 413 LYS SER PRO ASN GLY THR ILE ARG ASN ILE LEU GLY GLY SEQRES 9 A 413 THR VAL PHE ARG GLU ALA ILE ILE CYS LYS ASN ILE PRO SEQRES 10 A 413 ARG LEU VAL SER GLY TRP VAL LYS PRO ILE ILE ILE GLY SEQRES 11 A 413 HIS HIS ALA TYR GLY ASP GLN TYR ARG ALA THR ASP PHE SEQRES 12 A 413 VAL VAL PRO GLY PRO GLY LYS VAL GLU ILE THR TYR THR SEQRES 13 A 413 PRO SER ASP GLY THR GLN LYS VAL THR TYR LEU VAL HIS SEQRES 14 A 413 ASN PHE GLU GLU GLY GLY GLY VAL ALA MET GLY MET TYR SEQRES 15 A 413 ASN GLN ASP LYS SER ILE GLU ASP PHE ALA HIS SER SER SEQRES 16 A 413 PHE GLN MET ALA LEU SER LYS GLY TRP PRO LEU TYR LEU SEQRES 17 A 413 SER THR LYS ASN THR ILE LEU LYS LYS TYR ASP GLY ARG SEQRES 18 A 413 PHE LYS ASP ILE PHE GLN GLU ILE TYR ASP LYS GLN TYR SEQRES 19 A 413 LYS SER GLN PHE GLU ALA GLN LYS ILE TRP TYR GLU HIS SEQRES 20 A 413 ARG LEU ILE ASP ASP MET VAL ALA GLN ALA MET LYS SER SEQRES 21 A 413 GLU GLY GLY PHE ILE TRP ALA CYS LYS ASN TYR ASP GLY SEQRES 22 A 413 ASP VAL GLN SER ASP SER VAL ALA GLN GLY TYR GLY SER SEQRES 23 A 413 LEU GLY MET MET THR SER VAL LEU VAL CYS PRO ASP GLY SEQRES 24 A 413 LYS THR VAL GLU ALA GLU ALA ALA HIS GLY THR VAL THR SEQRES 25 A 413 ARG HIS TYR ARG MET TYR GLN LYS GLY GLN GLU THR SER SEQRES 26 A 413 THR ASN PRO ILE ALA SER ILE PHE ALA TRP THR ARG GLY SEQRES 27 A 413 LEU ALA HIS ARG ALA LYS LEU ASP ASN ASN LYS GLU LEU SEQRES 28 A 413 ALA PHE PHE ALA ASN ALA LEU GLU GLU VAL SER ILE GLU SEQRES 29 A 413 THR ILE GLU ALA GLY PHE MET THR LYS ASP LEU ALA ALA SEQRES 30 A 413 CYS ILE LYS GLY LEU PRO ASN VAL GLN ARG SER ASP TYR SEQRES 31 A 413 LEU ASN THR PHE GLU PHE MET ASP LYS LEU GLY GLU ASN SEQRES 32 A 413 LEU LYS ILE LYS LEU ALA GLN ALA LYS LEU SEQRES 1 B 413 SER LYS LYS ILE SER GLY GLY SER VAL VAL GLU MET GLN SEQRES 2 B 413 GLY ASP GLU MET THR ARG ILE ILE TRP GLU LEU ILE LYS SEQRES 3 B 413 GLU LYS LEU ILE PHE PRO TYR VAL GLU LEU ASP LEU HIS SEQRES 4 B 413 SER TYR ASP LEU GLY ILE GLU ASN ARG ASP ALA THR ASN SEQRES 5 B 413 ASP GLN VAL THR LYS ASP ALA ALA GLU ALA ILE LYS LYS SEQRES 6 B 413 HIS ASN VAL GLY VAL LYS CYS ALA THR ILE THR PRO ASP SEQRES 7 B 413 GLU LYS ARG VAL GLU GLU PHE LYS LEU LYS GLN MET TRP SEQRES 8 B 413 LYS SER PRO ASN GLY THR ILE ARG ASN ILE LEU GLY GLY SEQRES 9 B 413 THR VAL PHE ARG GLU ALA ILE ILE CYS LYS ASN ILE PRO SEQRES 10 B 413 ARG LEU VAL SER GLY TRP VAL LYS PRO ILE ILE ILE GLY SEQRES 11 B 413 HIS HIS ALA TYR GLY ASP GLN TYR ARG ALA THR ASP PHE SEQRES 12 B 413 VAL VAL PRO GLY PRO GLY LYS VAL GLU ILE THR TYR THR SEQRES 13 B 413 PRO SER ASP GLY THR GLN LYS VAL THR TYR LEU VAL HIS SEQRES 14 B 413 ASN PHE GLU GLU GLY GLY GLY VAL ALA MET GLY MET TYR SEQRES 15 B 413 ASN GLN ASP LYS SER ILE GLU ASP PHE ALA HIS SER SER SEQRES 16 B 413 PHE GLN MET ALA LEU SER LYS GLY TRP PRO LEU TYR LEU SEQRES 17 B 413 SER THR LYS ASN THR ILE LEU LYS LYS TYR ASP GLY ARG SEQRES 18 B 413 PHE LYS ASP ILE PHE GLN GLU ILE TYR ASP LYS GLN TYR SEQRES 19 B 413 LYS SER GLN PHE GLU ALA GLN LYS ILE TRP TYR GLU HIS SEQRES 20 B 413 ARG LEU ILE ASP ASP MET VAL ALA GLN ALA MET LYS SER SEQRES 21 B 413 GLU GLY GLY PHE ILE TRP ALA CYS LYS ASN TYR ASP GLY SEQRES 22 B 413 ASP VAL GLN SER ASP SER VAL ALA GLN GLY TYR GLY SER SEQRES 23 B 413 LEU GLY MET MET THR SER VAL LEU VAL CYS PRO ASP GLY SEQRES 24 B 413 LYS THR VAL GLU ALA GLU ALA ALA HIS GLY THR VAL THR SEQRES 25 B 413 ARG HIS TYR ARG MET TYR GLN LYS GLY GLN GLU THR SER SEQRES 26 B 413 THR ASN PRO ILE ALA SER ILE PHE ALA TRP THR ARG GLY SEQRES 27 B 413 LEU ALA HIS ARG ALA LYS LEU ASP ASN ASN LYS GLU LEU SEQRES 28 B 413 ALA PHE PHE ALA ASN ALA LEU GLU GLU VAL SER ILE GLU SEQRES 29 B 413 THR ILE GLU ALA GLY PHE MET THR LYS ASP LEU ALA ALA SEQRES 30 B 413 CYS ILE LYS GLY LEU PRO ASN VAL GLN ARG SER ASP TYR SEQRES 31 B 413 LEU ASN THR PHE GLU PHE MET ASP LYS LEU GLY GLU ASN SEQRES 32 B 413 LEU LYS ILE LYS LEU ALA GLN ALA LYS LEU HET NAP A 501 48 HET 59D A 502 37 HET NAP B 501 48 HET 59D B 502 37 HETNAM NAP NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE HETNAM 59D (7R)-1-(4-FLUOROBENZYL)-N-{3-[(1S)-1- HETNAM 2 59D HYDROXYETHYL]PHENYL}-7-METHYL-5-(1H-PYRROL-2- HETNAM 3 59D YLCARBONYL)-4,5,6,7-TETRAHYDRO-1H-PYRAZOLO[4,3- HETNAM 4 59D C]PYRIDINE-3-CARBOXAMIDE HETSYN NAP 2'-MONOPHOSPHOADENOSINE 5'-DIPHOSPHORIBOSE FORMUL 3 NAP 2(C21 H28 N7 O17 P3) FORMUL 4 59D 2(C28 H28 F N5 O3) FORMUL 7 HOH *159(H2 O) HELIX 1 AA1 ASP A 16 LEU A 30 1 15 HELIX 2 AA2 GLY A 45 THR A 52 1 8 HELIX 3 AA3 ASP A 54 ASN A 68 1 15 HELIX 4 AA4 ASP A 79 LYS A 87 1 9 HELIX 5 AA5 SER A 94 GLY A 104 1 11 HELIX 6 AA6 ASP A 186 GLY A 204 1 19 HELIX 7 AA7 LYS A 218 TYR A 235 1 18 HELIX 8 AA8 TYR A 235 GLN A 242 1 8 HELIX 9 AA9 ILE A 251 LYS A 260 1 10 HELIX 10 AB1 VAL A 281 TYR A 285 5 5 HELIX 11 AB2 SER A 287 GLY A 289 5 3 HELIX 12 AB3 VAL A 312 LYS A 321 1 10 HELIX 13 AB4 PRO A 329 ASN A 348 1 20 HELIX 14 AB5 ASN A 349 ALA A 369 1 21 HELIX 15 AB6 THR A 373 GLY A 382 1 10 HELIX 16 AB7 LEU A 383 VAL A 386 5 4 HELIX 17 AB8 GLN A 387 TYR A 391 5 5 HELIX 18 AB9 ASN A 393 LYS A 413 1 21 HELIX 19 AC1 ASP B 16 LEU B 30 1 15 HELIX 20 AC2 GLY B 45 THR B 52 1 8 HELIX 21 AC3 ASP B 54 ASN B 68 1 15 HELIX 22 AC4 ASP B 79 LYS B 87 1 9 HELIX 23 AC5 SER B 94 GLY B 104 1 11 HELIX 24 AC6 ASP B 186 LYS B 203 1 18 HELIX 25 AC7 ASP B 220 TYR B 235 1 16 HELIX 26 AC8 TYR B 235 GLN B 242 1 8 HELIX 27 AC9 ILE B 251 SER B 261 1 11 HELIX 28 AD1 SER B 280 TYR B 285 5 6 HELIX 29 AD2 SER B 287 GLY B 289 5 3 HELIX 30 AD3 VAL B 312 LYS B 321 1 10 HELIX 31 AD4 PRO B 329 ASN B 348 1 20 HELIX 32 AD5 ASN B 349 ALA B 369 1 21 HELIX 33 AD6 THR B 373 GLY B 382 1 10 HELIX 34 AD7 LEU B 383 VAL B 386 5 4 HELIX 35 AD8 GLN B 387 TYR B 391 5 5 HELIX 36 AD9 ASN B 393 LYS B 413 1 21 SHEET 1 AA110 VAL A 35 ASP A 43 0 SHEET 2 AA110 ILE A 5 GLN A 14 1 N GLU A 12 O TYR A 42 SHEET 3 AA110 VAL A 69 LYS A 72 1 O VAL A 71 N VAL A 11 SHEET 4 AA110 VAL A 303 ALA A 307 1 O ALA A 305 N GLY A 70 SHEET 5 AA110 MET A 291 VAL A 296 -1 N SER A 293 O GLU A 306 SHEET 6 AA110 THR A 106 ALA A 111 -1 N PHE A 108 O VAL A 294 SHEET 7 AA110 ILE A 128 HIS A 132 -1 O ILE A 130 N ARG A 109 SHEET 8 AA110 PHE A 265 CYS A 269 1 O CYS A 269 N GLY A 131 SHEET 9 AA110 LEU A 207 THR A 211 1 N TYR A 208 O ALA A 268 SHEET 10 AA110 TYR A 246 LEU A 250 1 O ARG A 249 N LEU A 209 SHEET 1 AA2 4 ASP A 143 VAL A 146 0 SHEET 2 AA2 4 GLY A 177 GLN A 185 -1 O GLY A 177 N VAL A 146 SHEET 3 AA2 4 GLY B 177 GLN B 185 -1 O MET B 182 N MET A 180 SHEET 4 AA2 4 THR B 142 VAL B 146 -1 N VAL B 146 O GLY B 177 SHEET 1 AA3 4 VAL A 165 PHE A 172 0 SHEET 2 AA3 4 GLY A 150 PRO A 158 -1 N TYR A 156 O VAL A 165 SHEET 3 AA3 4 GLY B 150 PRO B 158 -1 O GLU B 153 N THR A 155 SHEET 4 AA3 4 VAL B 165 PHE B 172 -1 O TYR B 167 N ILE B 154 SHEET 1 AA410 VAL B 35 ASP B 43 0 SHEET 2 AA410 ILE B 5 GLN B 14 1 N ILE B 5 O GLU B 36 SHEET 3 AA410 VAL B 69 LYS B 72 1 O VAL B 69 N VAL B 11 SHEET 4 AA410 VAL B 303 ALA B 307 1 O ALA B 305 N GLY B 70 SHEET 5 AA410 MET B 291 VAL B 296 -1 N LEU B 295 O GLU B 304 SHEET 6 AA410 THR B 106 ALA B 111 -1 N THR B 106 O VAL B 296 SHEET 7 AA410 ILE B 128 HIS B 132 -1 O ILE B 130 N ARG B 109 SHEET 8 AA410 PHE B 265 CYS B 269 1 O TRP B 267 N ILE B 129 SHEET 9 AA410 LEU B 207 THR B 211 1 N TYR B 208 O ALA B 268 SHEET 10 AA410 TYR B 246 LEU B 250 1 O ARG B 249 N LEU B 209 SITE 1 AC1 17 LYS A 72 THR A 75 THR A 77 ARG A 82 SITE 2 AC1 17 ASN A 96 GLU A 306 HIS A 309 GLY A 310 SITE 3 AC1 17 THR A 311 VAL A 312 THR A 313 ARG A 314 SITE 4 AC1 17 HIS A 315 ASN A 328 HOH A 602 HOH A 649 SITE 5 AC1 17 HOH A 665 SITE 1 AC2 15 ILE A 113 ARG A 119 LEU A 120 TRP A 124 SITE 2 AC2 15 LYS A 126 ILE A 128 ILE A 130 TRP A 267 SITE 3 AC2 15 VAL A 281 ALA A 282 GLY A 284 TYR A 285 SITE 4 AC2 15 MET A 291 HOH A 645 LEU B 120 SITE 1 AC3 19 LYS A 260 LYS B 72 THR B 75 THR B 77 SITE 2 AC3 19 ARG B 82 ASN B 96 GLU B 306 HIS B 309 SITE 3 AC3 19 GLY B 310 THR B 311 VAL B 312 THR B 313 SITE 4 AC3 19 ARG B 314 HIS B 315 THR B 327 ASN B 328 SITE 5 AC3 19 HOH B 604 HOH B 623 HOH B 628 SITE 1 AC4 14 ILE B 113 PRO B 118 ARG B 119 LEU B 120 SITE 2 AC4 14 TRP B 124 LYS B 126 ILE B 128 ILE B 130 SITE 3 AC4 14 TRP B 267 VAL B 281 ALA B 282 GLY B 284 SITE 4 AC4 14 TYR B 285 HOH B 637 CRYST1 82.726 82.726 303.639 90.00 90.00 90.00 P 43 21 2 16 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 0.012088 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012088 0.000000 0.00000 SCALE3 0.000000 0.000000 0.003293 0.00000