HEADER OXIDOREDUCTASE 28-MAY-16 5L57 TITLE CRYSTAL STRUCTURE OF ISO-CITRATE DEHYDROGENASE R132H IN COMPLEX WITH A TITLE 2 NOVEL INHIBITOR (COMPOUND 13A) COMPND MOL_ID: 1; COMPND 2 MOLECULE: ISOCITRATE DEHYDROGENASE [NADP] CYTOPLASMIC; COMPND 3 CHAIN: A; 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 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: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: JM109 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS R132H, ISO-CITRATE DEHYDROGENASE, ALLOSTERIC, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR C.LEVY REVDAT 4 01-MAY-24 5L57 1 REMARK REVDAT 3 09-OCT-19 5L57 1 JRNL REVDAT 2 11-JAN-17 5L57 1 JRNL REVDAT 1 14-DEC-16 5L57 0 JRNL AUTH S.JONES,J.AHMET,K.AYTON,M.BALL,M.COCKERILL,E.FAIRWEATHER, JRNL AUTH 2 N.HAMILTON,P.HARPER,J.HITCHIN,A.JORDAN,C.LEVY,R.LOPEZ, JRNL AUTH 3 E.MCKENZIE,M.PACKER,D.PLANT,I.SIMPSON,P.SIMPSON,I.SINCLAIR, JRNL AUTH 4 T.C.SOMERVAILLE,H.SMALL,G.J.SPENCER,G.THOMSON,M.TONGE, JRNL AUTH 5 I.WADDELL,J.WALSH,B.WASZKOWYCZ,M.WIGGLESWORTH,D.H.WISEMAN, JRNL AUTH 6 D.OGILVIE JRNL TITL DISCOVERY AND OPTIMIZATION OF ALLOSTERIC INHIBITORS OF JRNL TITL 2 MUTANT ISOCITRATE DEHYDROGENASE 1 (R132H IDH1) DISPLAYING JRNL TITL 3 ACTIVITY IN HUMAN ACUTE MYELOID LEUKEMIA CELLS. JRNL REF J.MED.CHEM. V. 59 11120 2016 JRNL REFN ISSN 0022-2623 JRNL PMID 28002956 JRNL DOI 10.1021/ACS.JMEDCHEM.6B01320 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10.1_2155: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.72 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.500 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 14260 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.218 REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.256 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.920 REMARK 3 FREE R VALUE TEST SET COUNT : 1415 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 46.7266 - 5.8030 1.00 1422 157 0.2055 0.2290 REMARK 3 2 5.8030 - 4.6073 1.00 1319 145 0.1797 0.2052 REMARK 3 3 4.6073 - 4.0253 1.00 1293 143 0.1682 0.2003 REMARK 3 4 4.0253 - 3.6574 1.00 1280 139 0.2015 0.2332 REMARK 3 5 3.6574 - 3.3954 1.00 1272 141 0.2342 0.2940 REMARK 3 6 3.3954 - 3.1952 1.00 1271 139 0.2567 0.3088 REMARK 3 7 3.1952 - 3.0352 1.00 1244 138 0.2615 0.3177 REMARK 3 8 3.0352 - 2.9031 1.00 1272 141 0.2694 0.3605 REMARK 3 9 2.9031 - 2.7914 0.99 1240 136 0.2690 0.3695 REMARK 3 10 2.7914 - 2.6951 0.99 1232 136 0.3018 0.4012 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.380 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.820 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.004 3361 REMARK 3 ANGLE : 0.602 4559 REMARK 3 CHIRALITY : 0.043 498 REMARK 3 PLANARITY : 0.003 575 REMARK 3 DIHEDRAL : 13.148 1988 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 4 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 3 THROUGH 132 ) REMARK 3 ORIGIN FOR THE GROUP (A): 3.0588 41.4438 189.9679 REMARK 3 T TENSOR REMARK 3 T11: 0.4394 T22: 0.3834 REMARK 3 T33: 0.3541 T12: -0.0105 REMARK 3 T13: 0.0408 T23: 0.0134 REMARK 3 L TENSOR REMARK 3 L11: 0.5196 L22: 1.6625 REMARK 3 L33: 1.9658 L12: -0.2812 REMARK 3 L13: 0.5480 L23: 0.0147 REMARK 3 S TENSOR REMARK 3 S11: -0.0679 S12: 0.1386 S13: 0.0685 REMARK 3 S21: -0.1642 S22: 0.0699 S23: -0.0567 REMARK 3 S31: -0.2705 S32: 0.1435 S33: 0.0264 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 133 THROUGH 222 ) REMARK 3 ORIGIN FOR THE GROUP (A): 32.0197 34.9304 189.4707 REMARK 3 T TENSOR REMARK 3 T11: 0.4641 T22: 0.5308 REMARK 3 T33: 0.6235 T12: -0.0050 REMARK 3 T13: 0.0726 T23: -0.0840 REMARK 3 L TENSOR REMARK 3 L11: 0.2989 L22: 0.2413 REMARK 3 L33: 1.3758 L12: -0.1266 REMARK 3 L13: -0.3832 L23: -0.2608 REMARK 3 S TENSOR REMARK 3 S11: -0.0570 S12: -0.1691 S13: 0.1801 REMARK 3 S21: -0.0944 S22: 0.0523 S23: -0.0428 REMARK 3 S31: -0.1855 S32: 0.1651 S33: 0.0323 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 223 THROUGH 287 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.4258 23.5206 196.1774 REMARK 3 T TENSOR REMARK 3 T11: 0.4719 T22: 0.5838 REMARK 3 T33: 0.4646 T12: 0.1491 REMARK 3 T13: -0.0206 T23: -0.0110 REMARK 3 L TENSOR REMARK 3 L11: 4.2130 L22: 2.2356 REMARK 3 L33: 3.7400 L12: 1.1436 REMARK 3 L13: 1.5359 L23: 1.1612 REMARK 3 S TENSOR REMARK 3 S11: -0.3490 S12: 0.0263 S13: -0.2584 REMARK 3 S21: 0.1500 S22: 0.3456 S23: -0.3974 REMARK 3 S31: 0.0697 S32: 0.8718 S33: 0.0676 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 288 THROUGH 414 ) REMARK 3 ORIGIN FOR THE GROUP (A): -5.7523 30.5898 190.5805 REMARK 3 T TENSOR REMARK 3 T11: 0.3440 T22: 0.3616 REMARK 3 T33: 0.3284 T12: 0.0483 REMARK 3 T13: 0.0477 T23: 0.0090 REMARK 3 L TENSOR REMARK 3 L11: 1.6048 L22: 1.8521 REMARK 3 L33: 1.8112 L12: 0.6280 REMARK 3 L13: 0.4404 L23: -0.1989 REMARK 3 S TENSOR REMARK 3 S11: -0.0768 S12: 0.1793 S13: 0.1310 REMARK 3 S21: -0.2105 S22: 0.1151 S23: 0.1179 REMARK 3 S31: 0.2582 S32: 0.0764 S33: -0.0555 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5L57 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 30-MAY-16. REMARK 100 THE DEPOSITION ID IS D_1200000138. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-OCT-14 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 : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.92819 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XIA2 REMARK 200 DATA SCALING SOFTWARE : XIA2 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14266 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.695 REMARK 200 RESOLUTION RANGE LOW (A) : 46.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 12.70 REMARK 200 R MERGE (I) : 0.07166 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 27.3900 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.0 REMARK 200 DATA REDUNDANCY IN SHELL : 12.80 REMARK 200 R MERGE FOR SHELL (I) : 0.52520 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 4.650 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: INHOUSE REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.91 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.12M ETHYLENE GLYCOLS, 0.1M BICINE PH REMARK 280 8.5, 50% (40% V/V PEG 500 MME, 20% W/V PEG 20K) [MORPHEUS A9] REMARK 280 200 PLUS 200NL DROPS (MOSQUITO), VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 277K 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 91.32100 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 36.43300 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 36.43300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 136.98150 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 36.43300 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 36.43300 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 45.66050 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 36.43300 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 36.43300 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 136.98150 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 36.43300 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 36.43300 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 45.66050 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 91.32100 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: 8080 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33730 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -44.0 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 350 BIOMT1 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 365.28400 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 1 REMARK 465 SER A 2 REMARK 465 GLN A 163 REMARK 465 LYS A 164 REMARK 465 VAL A 165 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 GLN A 138 CG CD OE1 NE2 REMARK 470 THR A 142 O REMARK 470 ASP A 160 CG OD1 OD2 REMARK 470 ASN A 171 CG OD1 ND2 REMARK 470 GLU A 173 CG CD OE1 OE2 REMARK 470 GLU A 174 CG CD OE1 OE2 REMARK 470 ILE A 215 CG1 CG2 CD1 REMARK 470 LEU A 216 CG CD1 CD2 REMARK 470 LYS A 217 CG CD CE NZ REMARK 470 LYS A 218 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 -135.46 61.68 REMARK 500 ILE A 31 -70.18 -110.97 REMARK 500 LEU A 44 33.07 -95.67 REMARK 500 ASN A 68 -6.79 75.21 REMARK 500 TYR A 135 -118.29 -74.98 REMARK 500 ASP A 137 -169.68 61.99 REMARK 500 TYR A 139 -78.24 -145.76 REMARK 500 ARG A 140 176.83 46.22 REMARK 500 PRO A 149 143.50 -39.56 REMARK 500 HIS A 170 144.92 -171.80 REMARK 500 PHE A 172 152.86 -41.22 REMARK 500 GLU A 173 -89.31 -108.12 REMARK 500 LEU A 216 80.12 -66.35 REMARK 500 LYS A 224 -70.61 -42.85 REMARK 500 TYR A 235 -4.11 -141.28 REMARK 500 TYR A 272 54.43 -69.06 REMARK 500 ASP A 273 -163.55 -176.34 REMARK 500 VAL A 276 167.75 61.53 REMARK 500 ALA A 282 -109.30 -56.04 REMARK 500 GLN A 283 -35.16 -178.86 REMARK 500 VAL A 312 65.16 60.73 REMARK 500 PRO A 384 3.66 -68.87 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 NDP A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 6N3 A 502 DBREF 5L57 A 1 414 UNP O75874 IDHC_HUMAN 1 414 SEQADV 5L57 ALA A 80 UNP O75874 GLU 80 ENGINEERED MUTATION SEQADV 5L57 ALA A 81 UNP O75874 LYS 81 ENGINEERED MUTATION SEQADV 5L57 HIS A 132 UNP O75874 ARG 132 ENGINEERED MUTATION SEQADV 5L57 ALA A 240 UNP O75874 GLU 240 ENGINEERED MUTATION SEQADV 5L57 ALA A 242 UNP O75874 GLN 242 ENGINEERED MUTATION SEQADV 5L57 ALA A 243 UNP O75874 LYS 243 ENGINEERED MUTATION SEQRES 1 A 414 MET SER LYS LYS ILE SER GLY GLY SER VAL VAL GLU MET SEQRES 2 A 414 GLN GLY ASP GLU MET THR ARG ILE ILE TRP GLU LEU ILE SEQRES 3 A 414 LYS GLU LYS LEU ILE PHE PRO TYR VAL GLU LEU ASP LEU SEQRES 4 A 414 HIS SER TYR ASP LEU GLY ILE GLU ASN ARG ASP ALA THR SEQRES 5 A 414 ASN ASP GLN VAL THR LYS ASP ALA ALA GLU ALA ILE LYS SEQRES 6 A 414 LYS HIS ASN VAL GLY VAL LYS CYS ALA THR ILE THR PRO SEQRES 7 A 414 ASP ALA ALA ARG VAL GLU GLU PHE LYS LEU LYS GLN MET SEQRES 8 A 414 TRP LYS SER PRO ASN GLY THR ILE ARG ASN ILE LEU GLY SEQRES 9 A 414 GLY THR VAL PHE ARG GLU ALA ILE ILE CYS LYS ASN ILE SEQRES 10 A 414 PRO ARG LEU VAL SER GLY TRP VAL LYS PRO ILE ILE ILE SEQRES 11 A 414 GLY HIS HIS ALA TYR GLY ASP GLN TYR ARG ALA THR ASP SEQRES 12 A 414 PHE VAL VAL PRO GLY PRO GLY LYS VAL GLU ILE THR TYR SEQRES 13 A 414 THR PRO SER ASP GLY THR GLN LYS VAL THR TYR LEU VAL SEQRES 14 A 414 HIS ASN PHE GLU GLU GLY GLY GLY VAL ALA MET GLY MET SEQRES 15 A 414 TYR ASN GLN ASP LYS SER ILE GLU ASP PHE ALA HIS SER SEQRES 16 A 414 SER PHE GLN MET ALA LEU SER LYS GLY TRP PRO LEU TYR SEQRES 17 A 414 LEU SER THR LYS ASN THR ILE LEU LYS LYS TYR ASP GLY SEQRES 18 A 414 ARG PHE LYS ASP ILE PHE GLN GLU ILE TYR ASP LYS GLN SEQRES 19 A 414 TYR LYS SER GLN PHE ALA ALA ALA ALA ILE TRP TYR GLU SEQRES 20 A 414 HIS ARG LEU ILE ASP ASP MET VAL ALA GLN ALA MET LYS SEQRES 21 A 414 SER GLU GLY GLY PHE ILE TRP ALA CYS LYS ASN TYR ASP SEQRES 22 A 414 GLY ASP VAL GLN SER ASP SER VAL ALA GLN GLY TYR GLY SEQRES 23 A 414 SER LEU GLY MET MET THR SER VAL LEU VAL CYS PRO ASP SEQRES 24 A 414 GLY LYS THR VAL GLU ALA GLU ALA ALA HIS GLY THR VAL SEQRES 25 A 414 THR ARG HIS TYR ARG MET TYR GLN LYS GLY GLN GLU THR SEQRES 26 A 414 SER THR ASN PRO ILE ALA SER ILE PHE ALA TRP THR ARG SEQRES 27 A 414 GLY LEU ALA HIS ARG ALA LYS LEU ASP ASN ASN LYS GLU SEQRES 28 A 414 LEU ALA PHE PHE ALA ASN ALA LEU GLU GLU VAL SER ILE SEQRES 29 A 414 GLU THR ILE GLU ALA GLY PHE MET THR LYS ASP LEU ALA SEQRES 30 A 414 ALA CYS ILE LYS GLY LEU PRO ASN VAL GLN ARG SER ASP SEQRES 31 A 414 TYR LEU ASN THR PHE GLU PHE MET ASP LYS LEU GLY GLU SEQRES 32 A 414 ASN LEU LYS ILE LYS LEU ALA GLN ALA LYS LEU HET NDP A 501 48 HET 6N3 A 502 35 HETNAM NDP NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE HETNAM 2 NDP PHOSPHATE HETNAM 6N3 (1~{R},5~{S})-3-[6-(3-METHYLBUTOXY)-5-[[(1~{R},3~{S})- HETNAM 2 6N3 5-OXIDANYL-2-ADAMANTYL]CARBAMOYL]PYRIDIN-2-YL]-3- HETNAM 3 6N3 AZABICYCLO[3.1.0]HEXANE-6-CARBOXYLIC ACID FORMUL 2 NDP C21 H30 N7 O17 P3 FORMUL 3 6N3 C27 H37 N3 O5 FORMUL 4 HOH *19(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 PHE A 86 1 8 HELIX 5 AA5 SER A 94 GLY A 104 1 11 HELIX 6 AA6 GLN A 185 GLY A 204 1 20 HELIX 7 AA7 LEU A 216 TYR A 235 1 20 HELIX 8 AA8 TYR A 235 ALA A 242 1 8 HELIX 9 AA9 ILE A 251 LYS A 260 1 10 HELIX 10 AB1 SER A 287 GLY A 289 5 3 HELIX 11 AB2 VAL A 312 LYS A 321 1 10 HELIX 12 AB3 PRO A 329 ASN A 348 1 20 HELIX 13 AB4 ASN A 349 ALA A 369 1 21 HELIX 14 AB5 THR A 373 GLY A 382 1 10 HELIX 15 AB6 LEU A 383 VAL A 386 5 4 HELIX 16 AB7 GLN A 387 TYR A 391 5 5 HELIX 17 AB8 ASN A 393 LYS A 413 1 21 SHEET 1 AA110 VAL A 35 ASP A 43 0 SHEET 2 AA110 ILE A 5 GLN A 14 1 N GLY A 8 O ASP A 38 SHEET 3 AA110 VAL A 69 LYS A 72 1 O VAL A 69 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 LEU A 295 O GLU A 304 SHEET 6 AA110 THR A 106 ALA A 111 -1 N GLU A 110 O THR A 292 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 TRP A 267 N ILE A 129 SHEET 9 AA110 LEU A 207 THR A 211 1 N SER A 210 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 2 PHE A 144 VAL A 146 0 SHEET 2 AA2 2 GLY A 177 ALA A 179 -1 O GLY A 177 N VAL A 146 CISPEP 1 ASP A 137 GLN A 138 0 3.73 SITE 1 AC1 18 THR A 75 ILE A 76 THR A 77 ARG A 82 SITE 2 AC1 18 ASN A 96 ASP A 279 SER A 280 LEU A 288 SITE 3 AC1 18 GLU A 306 HIS A 309 GLY A 310 THR A 311 SITE 4 AC1 18 VAL A 312 THR A 313 ARG A 314 HIS A 315 SITE 5 AC1 18 ASN A 328 HOH A 611 SITE 1 AC2 7 ARG A 119 TRP A 124 ILE A 130 ASP A 252 SITE 2 AC2 7 MET A 259 TYR A 285 HOH A 602 CRYST1 72.866 72.866 182.642 90.00 90.00 90.00 P 43 21 2 8 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 0.013724 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013724 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005475 0.00000