HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 29-JAN-20 6VND TITLE QUATERNARY COMPLEX OF HUMAN DIHYDROOROTATE DEHYDROGENASE (DHODH) WITH TITLE 2 FLAVIN MONONUCLEOTIDE (FMN), OROTIC ACID AND AG-636 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROOROTATE DEHYDROGENASE (QUINONE), MITOCHONDRIAL; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DHODEHASE,DIHYDROOROTATE OXIDASE; COMPND 5 EC: 1.3.5.2; COMPND 6 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: DHODH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DHODH, OXIDOREDUCTASE, FMN BINDING, INHIBITOR, MITOCHONDRIA INNER KEYWDS 2 MEMBRANE, OXIDOREDUCTASE-OXIDOREDUCTASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.PADYANA,L.JIN REVDAT 3 11-OCT-23 6VND 1 REMARK REVDAT 2 16-DEC-20 6VND 1 JRNL REVDAT 1 04-NOV-20 6VND 0 JRNL AUTH G.MCDONALD,V.CHUBUKOV,J.COCO,K.TRUSKOWSKI,R.NARAYANASWAMY, JRNL AUTH 2 S.CHOE,M.STEADMAN,E.ARTIN,A.K.PADYANA,L.JIN,S.RONSEAUX, JRNL AUTH 3 C.LOCUSON,Z.P.FAN,T.ERDMANN,A.MANN,S.HAYES,M.FLETCHER, JRNL AUTH 4 K.NELLORE,S.S.RAO,H.SUBRAMANYA,K.S.REDDY,S.K.PANIGRAHI, JRNL AUTH 5 T.ANTONY,S.GOPINATH,Z.SUI,N.NAGARAJA,L.DANG,G.LENZ,J.HUROV, JRNL AUTH 6 S.A.BILLER,J.MURTIE,K.M.MARKS,D.B.ULANET JRNL TITL SELECTIVE VULNERABILITY TO PYRIMIDINE STARVATION IN JRNL TITL 2 HEMATOLOGIC MALIGNANCIES REVEALED BY AG-636, A NOVEL JRNL TITL 3 CLINICAL-STAGE INHIBITOR OF DIHYDROOROTATE DEHYDROGENASE. JRNL REF MOL.CANCER THER. V. 19 2502 2020 JRNL REFN ESSN 1538-8514 JRNL PMID 33082276 JRNL DOI 10.1158/1535-7163.MCT-20-0550 REMARK 2 REMARK 2 RESOLUTION. 1.97 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 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 : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.97 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.78 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 92.7 REMARK 3 NUMBER OF REFLECTIONS : 38771 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.157 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.190 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.860 REMARK 3 FREE R VALUE TEST SET COUNT : 1885 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 28.7800 - 4.6400 0.81 2626 141 0.1954 0.2294 REMARK 3 2 4.6300 - 3.6800 0.87 2713 154 0.1417 0.1600 REMARK 3 3 3.6800 - 3.2200 0.86 2665 129 0.1336 0.1588 REMARK 3 4 3.2200 - 2.9200 0.92 2823 116 0.1305 0.1583 REMARK 3 5 2.9200 - 2.7100 0.94 2866 139 0.1334 0.1952 REMARK 3 6 2.7100 - 2.5500 0.95 2899 123 0.1439 0.1942 REMARK 3 7 2.5500 - 2.4300 0.94 2856 158 0.1395 0.1737 REMARK 3 8 2.4300 - 2.3200 0.96 2866 157 0.1507 0.2044 REMARK 3 9 2.3200 - 2.2300 0.97 2987 127 0.1600 0.1913 REMARK 3 10 2.2300 - 2.1500 0.97 2889 158 0.1667 0.2275 REMARK 3 11 2.1500 - 2.0900 0.97 2918 182 0.1830 0.2094 REMARK 3 12 2.0900 - 2.0300 0.97 2930 144 0.1971 0.2431 REMARK 3 13 2.0300 - 1.9700 0.94 2848 157 0.2087 0.2213 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL 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) : 0.174 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.136 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 28.78 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 37.39 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 : 0.019 3071 REMARK 3 ANGLE : 1.381 4146 REMARK 3 CHIRALITY : 0.099 445 REMARK 3 PLANARITY : 0.010 562 REMARK 3 DIHEDRAL : 18.533 508 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 7 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 30 THROUGH 50 ) REMARK 3 ORIGIN FOR THE GROUP (A): 26.6724 8.9058 8.6100 REMARK 3 T TENSOR REMARK 3 T11: 0.5377 T22: 0.5312 REMARK 3 T33: 0.4327 T12: 0.0270 REMARK 3 T13: 0.0663 T23: 0.1785 REMARK 3 L TENSOR REMARK 3 L11: 0.1473 L22: 0.3659 REMARK 3 L33: 0.3089 L12: -0.1536 REMARK 3 L13: -0.0487 L23: 0.0851 REMARK 3 S TENSOR REMARK 3 S11: 0.3054 S12: -0.0109 S13: -0.1289 REMARK 3 S21: 0.5772 S22: 0.0362 S23: 0.4093 REMARK 3 S31: 0.4450 S32: -0.4331 S33: -0.0020 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 51 THROUGH 75 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.6049 6.3643 -2.8525 REMARK 3 T TENSOR REMARK 3 T11: 0.4634 T22: 0.3567 REMARK 3 T33: 0.4822 T12: 0.0260 REMARK 3 T13: -0.0155 T23: 0.0910 REMARK 3 L TENSOR REMARK 3 L11: 0.3686 L22: 0.8739 REMARK 3 L33: 1.0244 L12: -0.5030 REMARK 3 L13: -0.3777 L23: 0.1655 REMARK 3 S TENSOR REMARK 3 S11: -0.1358 S12: -0.3141 S13: -0.5497 REMARK 3 S21: -0.2371 S22: 0.1660 S23: 0.4510 REMARK 3 S31: 0.4588 S32: -0.3539 S33: 0.0044 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 76 THROUGH 93 ) REMARK 3 ORIGIN FOR THE GROUP (A): 20.4296 13.4208 -19.0819 REMARK 3 T TENSOR REMARK 3 T11: 0.3434 T22: 0.3470 REMARK 3 T33: 0.3403 T12: -0.0005 REMARK 3 T13: 0.0109 T23: -0.1014 REMARK 3 L TENSOR REMARK 3 L11: 0.4603 L22: 1.1485 REMARK 3 L33: 0.4895 L12: -0.0160 REMARK 3 L13: -0.1077 L23: -0.2830 REMARK 3 S TENSOR REMARK 3 S11: -0.1258 S12: 0.5033 S13: -0.6020 REMARK 3 S21: -0.6675 S22: -0.0196 S23: 0.3107 REMARK 3 S31: 0.3580 S32: -0.1167 S33: -0.0093 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 94 THROUGH 152 ) REMARK 3 ORIGIN FOR THE GROUP (A): 38.1504 18.4599 -5.0919 REMARK 3 T TENSOR REMARK 3 T11: 0.2112 T22: 0.1996 REMARK 3 T33: 0.2194 T12: 0.0288 REMARK 3 T13: 0.0019 T23: -0.0100 REMARK 3 L TENSOR REMARK 3 L11: 0.7778 L22: 0.8244 REMARK 3 L33: 1.2902 L12: -0.3962 REMARK 3 L13: 0.0735 L23: 0.3815 REMARK 3 S TENSOR REMARK 3 S11: 0.0177 S12: -0.0971 S13: 0.0030 REMARK 3 S21: 0.0142 S22: 0.0401 S23: -0.1258 REMARK 3 S31: 0.1873 S32: 0.2029 S33: 0.0001 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 153 THROUGH 241 ) REMARK 3 ORIGIN FOR THE GROUP (A): 39.6563 22.6127 -20.1274 REMARK 3 T TENSOR REMARK 3 T11: 0.2437 T22: 0.2202 REMARK 3 T33: 0.1987 T12: 0.0364 REMARK 3 T13: 0.0501 T23: -0.0038 REMARK 3 L TENSOR REMARK 3 L11: 2.9405 L22: 1.2472 REMARK 3 L33: 2.8341 L12: -0.8140 REMARK 3 L13: -0.2733 L23: -1.3244 REMARK 3 S TENSOR REMARK 3 S11: 0.0974 S12: 0.0766 S13: 0.3075 REMARK 3 S21: 0.0202 S22: -0.1713 S23: -0.2378 REMARK 3 S31: -0.3070 S32: 0.2203 S33: 0.0007 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 242 THROUGH 322 ) REMARK 3 ORIGIN FOR THE GROUP (A): 28.5749 31.0032 -11.9118 REMARK 3 T TENSOR REMARK 3 T11: 0.2093 T22: 0.1513 REMARK 3 T33: 0.1932 T12: 0.0245 REMARK 3 T13: -0.0039 T23: -0.0061 REMARK 3 L TENSOR REMARK 3 L11: 1.3266 L22: 0.3436 REMARK 3 L33: 1.2230 L12: -0.3412 REMARK 3 L13: -0.3930 L23: 0.0004 REMARK 3 S TENSOR REMARK 3 S11: 0.0324 S12: 0.0805 S13: 0.0866 REMARK 3 S21: -0.1168 S22: -0.0841 S23: -0.0026 REMARK 3 S31: -0.1987 S32: -0.1430 S33: -0.0002 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 323 THROUGH 394 ) REMARK 3 ORIGIN FOR THE GROUP (A): 17.0224 20.2570 -9.6491 REMARK 3 T TENSOR REMARK 3 T11: 0.1739 T22: 0.2196 REMARK 3 T33: 0.1912 T12: 0.0034 REMARK 3 T13: 0.0061 T23: -0.0375 REMARK 3 L TENSOR REMARK 3 L11: 2.2619 L22: 2.2817 REMARK 3 L33: 1.2412 L12: 0.0164 REMARK 3 L13: -0.4796 L23: 0.4621 REMARK 3 S TENSOR REMARK 3 S11: 0.0220 S12: 0.0251 S13: -0.1322 REMARK 3 S21: -0.0243 S22: -0.0616 S23: 0.3146 REMARK 3 S31: 0.1190 S32: -0.3772 S33: -0.0004 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 6VND COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JAN-20. REMARK 100 THE DEPOSITION ID IS D_1000246675. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUN-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL17U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97918 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER X 16M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38783 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.970 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.7 REMARK 200 DATA REDUNDANCY : 3.400 REMARK 200 R MERGE (I) : 0.07900 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.97 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.30 REMARK 200 R MERGE FOR SHELL (I) : 0.52000 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: 3ZWS REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 64.99 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.51 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 2.5 M AMMONIUM SULFATE, 30% GLYCEROL, REMARK 280 0.1 M SODIUM ACETATE, PH 4.8, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-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 82.50733 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 41.25367 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 41.25367 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 82.50733 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 GLY A 28 REMARK 465 MET A 29 REMARK 465 ARG A 395 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 ARG A 35 CG CD NE CZ NH1 NH2 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 OD1 ASP A 206 O1 GOL A 417 2.19 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 HIS A 40 -57.12 -123.64 REMARK 500 ALA A 70 79.37 -68.98 REMARK 500 ASP A 98 79.63 -103.43 REMARK 500 ARG A 132 10.51 -141.21 REMARK 500 TYR A 355 -58.48 -137.31 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 728 DISTANCE = 6.69 ANGSTROMS 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 NA A 407 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 52 OE2 REMARK 620 2 DET A 402 O 129.3 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 409 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SER A 269 OG REMARK 620 2 GLU A 273 OE1 144.9 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue R4P A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DET A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DET A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DDQ A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue DDQ A 405 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue CL A 406 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 407 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 408 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMN A 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ORO A 411 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 412 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 413 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT A 414 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 415 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 416 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 417 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 418 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 419 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 420 DBREF 6VND A 29 395 UNP Q02127 PYRD_HUMAN 29 395 SEQADV 6VND GLY A 28 UNP Q02127 CLONING ARTIFACT SEQRES 1 A 368 GLY MET ALA THR GLY ASP GLU ARG PHE TYR ALA GLU HIS SEQRES 2 A 368 LEU MET PRO THR LEU GLN GLY LEU LEU ASP PRO GLU SER SEQRES 3 A 368 ALA HIS ARG LEU ALA VAL ARG PHE THR SER LEU GLY LEU SEQRES 4 A 368 LEU PRO ARG ALA ARG PHE GLN ASP SER ASP MET LEU GLU SEQRES 5 A 368 VAL ARG VAL LEU GLY HIS LYS PHE ARG ASN PRO VAL GLY SEQRES 6 A 368 ILE ALA ALA GLY PHE ASP LYS HIS GLY GLU ALA VAL ASP SEQRES 7 A 368 GLY LEU TYR LYS MET GLY PHE GLY PHE VAL GLU ILE GLY SEQRES 8 A 368 SER VAL THR PRO LYS PRO GLN GLU GLY ASN PRO ARG PRO SEQRES 9 A 368 ARG VAL PHE ARG LEU PRO GLU ASP GLN ALA VAL ILE ASN SEQRES 10 A 368 ARG TYR GLY PHE ASN SER HIS GLY LEU SER VAL VAL GLU SEQRES 11 A 368 HIS ARG LEU ARG ALA ARG GLN GLN LYS GLN ALA LYS LEU SEQRES 12 A 368 THR GLU ASP GLY LEU PRO LEU GLY VAL ASN LEU GLY LYS SEQRES 13 A 368 ASN LYS THR SER VAL ASP ALA ALA GLU ASP TYR ALA GLU SEQRES 14 A 368 GLY VAL ARG VAL LEU GLY PRO LEU ALA ASP TYR LEU VAL SEQRES 15 A 368 VAL ASN VAL SER SER PRO ASN THR ALA GLY LEU ARG SER SEQRES 16 A 368 LEU GLN GLY LYS ALA GLU LEU ARG ARG LEU LEU THR LYS SEQRES 17 A 368 VAL LEU GLN GLU ARG ASP GLY LEU ARG ARG VAL HIS ARG SEQRES 18 A 368 PRO ALA VAL LEU VAL LYS ILE ALA PRO ASP LEU THR SER SEQRES 19 A 368 GLN ASP LYS GLU ASP ILE ALA SER VAL VAL LYS GLU LEU SEQRES 20 A 368 GLY ILE ASP GLY LEU ILE VAL THR ASN THR THR VAL SER SEQRES 21 A 368 ARG PRO ALA GLY LEU GLN GLY ALA LEU ARG SER GLU THR SEQRES 22 A 368 GLY GLY LEU SER GLY LYS PRO LEU ARG ASP LEU SER THR SEQRES 23 A 368 GLN THR ILE ARG GLU MET TYR ALA LEU THR GLN GLY ARG SEQRES 24 A 368 VAL PRO ILE ILE GLY VAL GLY GLY VAL SER SER GLY GLN SEQRES 25 A 368 ASP ALA LEU GLU LYS ILE ARG ALA GLY ALA SER LEU VAL SEQRES 26 A 368 GLN LEU TYR THR ALA LEU THR PHE TRP GLY PRO PRO VAL SEQRES 27 A 368 VAL GLY LYS VAL LYS ARG GLU LEU GLU ALA LEU LEU LYS SEQRES 28 A 368 GLU GLN GLY PHE GLY GLY VAL THR ASP ALA ILE GLY ALA SEQRES 29 A 368 ASP HIS ARG ARG HET R4P A 401 52 HET DET A 402 15 HET DET A 403 15 HET DDQ A 404 14 HET DDQ A 405 28 HET CL A 406 1 HET NA A 407 1 HET NA A 408 1 HET NA A 409 1 HET FMN A 410 31 HET ORO A 411 11 HET ACT A 412 4 HET ACT A 413 4 HET ACT A 414 4 HET GOL A 415 6 HET GOL A 416 6 HET GOL A 417 6 HET GOL A 418 6 HET GOL A 419 6 HET GOL A 420 6 HETNAM R4P 1-METHYL-5-(2'-METHYL[1,1'-BIPHENYL]-4-YL)-1H- HETNAM 2 R4P BENZOTRIAZOLE-7-CARBOXYLIC ACID HETNAM DET UNDECYLAMINE-N,N-DIMETHYL-N-OXIDE HETNAM DDQ DECYLAMINE-N,N-DIMETHYL-N-OXIDE HETNAM CL CHLORIDE ION HETNAM NA SODIUM ION HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM ORO OROTIC ACID HETNAM ACT ACETATE ION HETNAM GOL GLYCEROL HETSYN FMN RIBOFLAVIN MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 R4P C21 H17 N3 O2 FORMUL 3 DET 2(C13 H29 N O) FORMUL 5 DDQ 2(C12 H27 N O) FORMUL 7 CL CL 1- FORMUL 8 NA 3(NA 1+) FORMUL 11 FMN C17 H21 N4 O9 P FORMUL 12 ORO C5 H4 N2 O4 FORMUL 13 ACT 3(C2 H3 O2 1-) FORMUL 16 GOL 6(C3 H8 O3) FORMUL 22 HOH *228(H2 O) HELIX 1 AA1 THR A 31 HIS A 40 1 10 HELIX 2 AA2 HIS A 40 LEU A 49 1 10 HELIX 3 AA3 ASP A 50 LEU A 64 1 15 HELIX 4 AA4 SER A 75 GLU A 79 5 5 HELIX 5 AA5 ALA A 103 GLY A 111 1 9 HELIX 6 AA6 PRO A 137 ASP A 139 5 3 HELIX 7 AA7 GLY A 152 ALA A 162 1 11 HELIX 8 AA8 ARG A 163 ASP A 173 1 11 HELIX 9 AA9 ASP A 189 GLY A 202 1 14 HELIX 10 AB1 PRO A 203 ALA A 205 5 3 HELIX 11 AB2 LEU A 220 GLN A 224 5 5 HELIX 12 AB3 GLY A 225 GLY A 242 1 18 HELIX 13 AB4 LEU A 243 ARG A 248 5 6 HELIX 14 AB5 THR A 260 GLY A 275 1 16 HELIX 15 AB6 LEU A 308 THR A 323 1 16 HELIX 16 AB7 SER A 337 GLY A 348 1 12 HELIX 17 AB8 TYR A 355 GLY A 362 1 8 HELIX 18 AB9 PRO A 364 GLN A 380 1 17 HELIX 19 AC1 GLY A 384 ILE A 389 1 6 HELIX 20 AC2 GLY A 390 ARG A 394 5 5 SHEET 1 AA1 2 VAL A 80 VAL A 82 0 SHEET 2 AA1 2 HIS A 85 PHE A 87 -1 O PHE A 87 N VAL A 80 SHEET 1 AA2 9 VAL A 91 ILE A 93 0 SHEET 2 AA2 9 PHE A 114 VAL A 120 1 O PHE A 114 N ILE A 93 SHEET 3 AA2 9 LEU A 177 LEU A 181 1 O GLY A 178 N VAL A 115 SHEET 4 AA2 9 TYR A 207 ASN A 211 1 O VAL A 209 N LEU A 181 SHEET 5 AA2 9 ALA A 250 ILE A 255 1 O ALA A 250 N LEU A 208 SHEET 6 AA2 9 GLY A 278 VAL A 281 1 O ILE A 280 N VAL A 253 SHEET 7 AA2 9 ILE A 329 VAL A 332 1 O ILE A 330 N LEU A 279 SHEET 8 AA2 9 LEU A 351 LEU A 354 1 O LEU A 351 N GLY A 331 SHEET 9 AA2 9 VAL A 91 ILE A 93 1 N GLY A 92 O VAL A 352 SHEET 1 AA3 3 VAL A 133 LEU A 136 0 SHEET 2 AA3 3 ALA A 141 ASN A 144 -1 O ILE A 143 N PHE A 134 SHEET 3 AA3 3 GLY A 302 GLY A 305 -1 O SER A 304 N VAL A 142 LINK OE2 GLU A 52 NA NA A 407 1555 1555 2.35 LINK OE1 GLU A 265 NA NA A 408 1555 1555 2.21 LINK OG SER A 269 NA NA A 409 1555 1555 2.99 LINK OE1 GLU A 273 NA NA A 409 1555 1555 2.28 LINK O DET A 402 NA NA A 407 1555 1555 2.13 CISPEP 1 GLY A 118 SER A 119 0 2.70 CISPEP 2 ARG A 130 PRO A 131 0 -2.64 CISPEP 3 VAL A 281 THR A 282 0 15.86 SITE 1 AC1 17 TYR A 37 LEU A 41 MET A 42 GLN A 46 SITE 2 AC1 17 PRO A 51 ALA A 54 HIS A 55 ALA A 58 SITE 3 AC1 17 THR A 62 LEU A 66 LEU A 67 ARG A 135 SITE 4 AC1 17 TYR A 355 THR A 359 PRO A 363 DDQ A 404 SITE 5 AC1 17 HOH A 573 SITE 1 AC2 11 ARG A 56 LYS A 99 HIS A 100 PRO A 124 SITE 2 AC2 11 GLN A 125 GLU A 126 ASN A 149 SER A 150 SITE 3 AC2 11 HIS A 151 NA A 407 HOH A 613 SITE 1 AC3 14 GLU A 138 ASP A 139 GLN A 140 PRO A 289 SITE 2 AC3 14 LYS A 306 PRO A 307 ASP A 310 GLN A 314 SITE 3 AC3 14 ARG A 317 ASP A 392 HOH A 528 HOH A 542 SITE 4 AC3 14 HOH A 545 HOH A 611 SITE 1 AC4 5 LEU A 57 PHE A 61 LEU A 67 PRO A 68 SITE 2 AC4 5 R4P A 401 SITE 1 AC5 6 GLN A 140 ARG A 346 TRP A 361 GLN A 380 SITE 2 AC5 6 PHE A 382 ALA A 391 SITE 1 AC6 3 ARG A 297 SER A 298 HOH A 521 SITE 1 AC7 3 GLU A 52 ARG A 56 DET A 402 SITE 1 AC8 2 ARG A 161 GLU A 265 SITE 1 AC9 4 LYS A 226 ARG A 230 SER A 269 GLU A 273 SITE 1 AD1 26 ALA A 94 ALA A 95 GLY A 96 LYS A 99 SITE 2 AD1 26 GLY A 118 SER A 119 ASN A 144 TYR A 146 SITE 3 AD1 26 ASN A 180 ASN A 211 LYS A 254 THR A 282 SITE 4 AD1 26 ASN A 283 THR A 284 SER A 304 GLY A 305 SITE 5 AD1 26 LEU A 308 VAL A 332 GLY A 333 GLY A 334 SITE 6 AD1 26 LEU A 354 TYR A 355 THR A 356 ORO A 411 SITE 7 AD1 26 HOH A 514 HOH A 539 SITE 1 AD2 11 LYS A 99 ASN A 144 TYR A 146 GLY A 147 SITE 2 AD2 11 PHE A 148 ASN A 211 SER A 214 ASN A 216 SITE 3 AD2 11 ASN A 283 THR A 284 FMN A 410 SITE 1 AD3 3 THR A 260 GLN A 262 HOH A 634 SITE 1 AD4 5 ALA A 162 LYS A 166 LYS A 226 GLU A 265 SITE 2 AD4 5 ASP A 266 SITE 1 AD5 2 ARG A 248 HOH A 561 SITE 1 AD6 4 ASP A 105 TYR A 108 HOH A 546 HOH A 633 SITE 1 AD7 5 PRO A 129 ARG A 130 PRO A 131 ARG A 145 SITE 2 AD7 5 GLN A 238 SITE 1 AD8 8 GLN A 164 GLN A 167 ALA A 168 THR A 171 SITE 2 AD8 8 LEU A 204 ASP A 206 HOH A 506 HOH A 525 SITE 1 AD9 4 ARG A 56 LEU A 57 HOH A 568 HOH A 640 SITE 1 AE1 6 TYR A 320 ALA A 321 HIS A 393 HOH A 505 SITE 2 AE1 6 HOH A 543 HOH A 550 SITE 1 AE2 2 GLY A 47 LEU A 48 CRYST1 90.526 90.526 123.761 90.00 90.00 120.00 P 32 2 1 6 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 0.011047 0.006378 0.000000 0.00000 SCALE2 0.000000 0.012755 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008080 0.00000