HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 21-MAR-19 6OC1 TITLE CRYSTAL STRUCTURE OF HUMAN DHODH WITH TAK-632 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROOROTATE DEHYDROGENASE (QUINONE), MITOCHONDRIAL; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 29-395; COMPND 5 SYNONYM: DHODEHASE,DIHYDROOROTATE OXIDASE; COMPND 6 EC: 1.3.5.2; 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: DHODH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DHODH, INHIBITOR, TAK-632, OXIDOREDUCTASE, OXIDOREDUCTASE- KEYWDS 2 OXIDOREDUCTASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.A.DURST,A.LAVIE REVDAT 4 11-OCT-23 6OC1 1 REMARK REVDAT 3 04-MAR-20 6OC1 1 JRNL REVDAT 2 27-NOV-19 6OC1 1 JRNL REVDAT 1 13-NOV-19 6OC1 0 JRNL AUTH E.R.ABT,E.W.ROSSER,M.A.DURST,V.LOK,S.PODDAR,T.M.LE,A.CHO, JRNL AUTH 2 W.KIM,L.WEI,J.SONG,J.R.CAPRI,S.XU,N.WU,R.SLAVIK,M.E.JUNG, JRNL AUTH 3 R.DAMOISEAUX,J.CZERNIN,T.R.DONAHUE,A.LAVIE,C.G.RADU JRNL TITL METABOLIC MODIFIER SCREEN REVEALS SECONDARY TARGETS OF JRNL TITL 2 PROTEIN KINASE INHIBITORS WITHIN NUCLEOTIDE METABOLISM. JRNL REF CELL CHEM BIOL V. 27 197 2020 JRNL REFN ESSN 2451-9456 JRNL PMID 31734178 JRNL DOI 10.1016/J.CHEMBIOL.2019.10.012 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0238 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN 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) : 46.45 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 12947 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) : 0.233 REMARK 3 R VALUE (WORKING SET) : 0.230 REMARK 3 FREE R VALUE : 0.294 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.400 REMARK 3 FREE R VALUE TEST SET COUNT : 743 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 935 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.51 REMARK 3 BIN R VALUE (WORKING SET) : 0.3510 REMARK 3 BIN FREE R VALUE SET COUNT : 54 REMARK 3 BIN FREE R VALUE : 0.3650 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2769 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 86 REMARK 3 SOLVENT ATOMS : 36 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 67.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.00000 REMARK 3 B22 (A**2) : 0.00000 REMARK 3 B33 (A**2) : 0.00000 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): 0.915 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.382 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.468 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 26.704 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.944 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.899 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2906 ; 0.002 ; 0.013 REMARK 3 BOND LENGTHS OTHERS (A): 2767 ; 0.000 ; 0.017 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3940 ; 1.264 ; 1.683 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6390 ; 1.115 ; 1.596 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 362 ; 6.517 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 152 ;32.100 ;20.592 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 489 ;18.771 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;14.578 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 358 ; 0.032 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3261 ; 0.002 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 614 ; 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): 1451 ; 3.992 ; 7.095 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1452 ; 3.991 ; 7.094 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1813 ; 6.338 ;10.645 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 1813 ; 6.275 ;10.645 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1455 ; 3.724 ; 7.388 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 1453 ; 3.683 ; 7.382 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 2118 ; 5.889 ;10.915 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 3359 ; 9.249 ;83.022 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 3360 ; 9.250 ;83.033 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 : NULL 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 6OC1 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-MAR-19. REMARK 100 THE DEPOSITION ID IS D_1000240419. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-FEB-19 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.2 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-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.978720 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13751 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 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 (%) : 99.9 REMARK 200 DATA REDUNDANCY : 20.00 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 21.5800 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) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 15.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.050 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 4OQV REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.67 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.05 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM PHOSPHATE, PH 8.2, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+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 56.83400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 56.83400 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 56.83400 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 56.83400 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 56.83400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 56.83400 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 56.83400 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 56.83400 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 56.83400 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 56.83400 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 56.83400 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 56.83400 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 56.83400 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 56.83400 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 56.83400 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 56.83400 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 56.83400 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 56.83400 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 HIS A 27 REMARK 465 MET A 28 REMARK 465 MET A 29 REMARK 465 ALA A 30 REMARK 465 ARG A 394 REMARK 465 ARG A 395 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 -78.48 -118.79 REMARK 500 ARG A 71 51.29 -91.82 REMARK 500 PRO A 122 -70.30 -49.12 REMARK 500 ARG A 132 0.04 -154.49 REMARK 500 LEU A 136 71.61 -105.13 REMARK 500 SER A 213 -18.27 -140.16 REMARK 500 ASP A 241 6.74 -62.48 REMARK 500 ASN A 283 -167.52 -75.06 REMARK 500 SER A 336 2.76 -158.51 REMARK 500 TYR A 355 -72.36 -149.42 REMARK 500 ILE A 389 96.45 -65.02 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 ORO A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FMN A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue 1SU A 404 DBREF 6OC1 A 29 395 UNP Q02127 PYRD_HUMAN 29 395 SEQADV 6OC1 HIS A 27 UNP Q02127 EXPRESSION TAG SEQADV 6OC1 MET A 28 UNP Q02127 EXPRESSION TAG SEQRES 1 A 369 HIS MET MET ALA THR GLY ASP GLU ARG PHE TYR ALA GLU SEQRES 2 A 369 HIS LEU MET PRO THR LEU GLN GLY LEU LEU ASP PRO GLU SEQRES 3 A 369 SER ALA HIS ARG LEU ALA VAL ARG PHE THR SER LEU GLY SEQRES 4 A 369 LEU LEU PRO ARG ALA ARG PHE GLN ASP SER ASP MET LEU SEQRES 5 A 369 GLU VAL ARG VAL LEU GLY HIS LYS PHE ARG ASN PRO VAL SEQRES 6 A 369 GLY ILE ALA ALA GLY PHE ASP LYS HIS GLY GLU ALA VAL SEQRES 7 A 369 ASP GLY LEU TYR LYS MET GLY PHE GLY PHE VAL GLU ILE SEQRES 8 A 369 GLY SER VAL THR PRO LYS PRO GLN GLU GLY ASN PRO ARG SEQRES 9 A 369 PRO ARG VAL PHE ARG LEU PRO GLU ASP GLN ALA VAL ILE SEQRES 10 A 369 ASN ARG TYR GLY PHE ASN SER HIS GLY LEU SER VAL VAL SEQRES 11 A 369 GLU HIS ARG LEU ARG ALA ARG GLN GLN LYS GLN ALA LYS SEQRES 12 A 369 LEU THR GLU ASP GLY LEU PRO LEU GLY VAL ASN LEU GLY SEQRES 13 A 369 LYS ASN LYS THR SER VAL ASP ALA ALA GLU ASP TYR ALA SEQRES 14 A 369 GLU GLY VAL ARG VAL LEU GLY PRO LEU ALA ASP TYR LEU SEQRES 15 A 369 VAL VAL ASN VAL SER SER PRO ASN THR ALA GLY LEU ARG SEQRES 16 A 369 SER LEU GLN GLY LYS ALA GLU LEU ARG ARG LEU LEU THR SEQRES 17 A 369 LYS VAL LEU GLN GLU ARG ASP GLY LEU ARG ARG VAL HIS SEQRES 18 A 369 ARG PRO ALA VAL LEU VAL LYS ILE ALA PRO ASP LEU THR SEQRES 19 A 369 SER GLN ASP LYS GLU ASP ILE ALA SER VAL VAL LYS GLU SEQRES 20 A 369 LEU GLY ILE ASP GLY LEU ILE VAL THR ASN THR THR VAL SEQRES 21 A 369 SER ARG PRO ALA GLY LEU GLN GLY ALA LEU ARG SER GLU SEQRES 22 A 369 THR GLY GLY LEU SER GLY LYS PRO LEU ARG ASP LEU SER SEQRES 23 A 369 THR GLN THR ILE ARG GLU MET TYR ALA LEU THR GLN GLY SEQRES 24 A 369 ARG VAL PRO ILE ILE GLY VAL GLY GLY VAL SER SER GLY SEQRES 25 A 369 GLN ASP ALA LEU GLU LYS ILE ARG ALA GLY ALA SER LEU SEQRES 26 A 369 VAL GLN LEU TYR THR ALA LEU THR PHE TRP GLY PRO PRO SEQRES 27 A 369 VAL VAL GLY LYS VAL LYS ARG GLU LEU GLU ALA LEU LEU SEQRES 28 A 369 LYS GLU GLN GLY PHE GLY GLY VAL THR ASP ALA ILE GLY SEQRES 29 A 369 ALA ASP HIS ARG ARG HET ORO A 401 11 HET FMN A 402 31 HET PO4 A 403 5 HET 1SU A 404 39 HETNAM ORO OROTIC ACID HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM PO4 PHOSPHATE ION HETNAM 1SU N-{7-CYANO-6-[4-FLUORO-3-({[3-(TRIFLUOROMETHYL) HETNAM 2 1SU PHENYL]ACETYL}AMINO)PHENOXY]-1,3-BENZOTHIAZOL-2- HETNAM 3 1SU YL}CYCLOPROPANECARBOXAMIDE HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 2 ORO C5 H4 N2 O4 FORMUL 3 FMN C17 H21 N4 O9 P FORMUL 4 PO4 O4 P 3- FORMUL 5 1SU C27 H18 F4 N4 O3 S FORMUL 6 HOH *36(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 GLY A 65 1 16 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 GLY A 219 GLN A 224 5 6 HELIX 11 AB2 GLY A 225 ASP A 241 1 17 HELIX 12 AB3 ARG A 244 ARG A 248 5 5 HELIX 13 AB4 THR A 260 GLY A 275 1 16 HELIX 14 AB5 LEU A 308 GLN A 324 1 17 HELIX 15 AB6 SER A 337 ALA A 347 1 11 HELIX 16 AB7 ALA A 357 GLY A 362 1 6 HELIX 17 AB8 PRO A 364 GLN A 380 1 17 HELIX 18 AB9 VAL A 385 ILE A 389 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 8 VAL A 91 ILE A 93 0 SHEET 2 AA2 8 ALA A 349 LEU A 354 1 O LEU A 354 N GLY A 92 SHEET 3 AA2 8 ILE A 329 VAL A 332 1 N GLY A 331 O LEU A 351 SHEET 4 AA2 8 GLY A 278 VAL A 281 1 N LEU A 279 O ILE A 330 SHEET 5 AA2 8 ALA A 250 ILE A 255 1 N VAL A 253 O ILE A 280 SHEET 6 AA2 8 TYR A 207 ASN A 211 1 N LEU A 208 O ALA A 250 SHEET 7 AA2 8 LEU A 177 LEU A 181 1 N LEU A 181 O VAL A 209 SHEET 8 AA2 8 VAL A 115 VAL A 120 1 N VAL A 115 O GLY A 178 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 CISPEP 1 GLY A 118 SER A 119 0 1.73 CISPEP 2 ARG A 130 PRO A 131 0 -4.15 CISPEP 3 VAL A 281 THR A 282 0 5.42 SITE 1 AC1 11 LYS A 99 ASN A 144 TYR A 146 GLY A 147 SITE 2 AC1 11 PHE A 148 ASN A 211 SER A 214 ASN A 216 SITE 3 AC1 11 ASN A 283 THR A 284 FMN A 402 SITE 1 AC2 22 ALA A 94 ALA A 95 GLY A 96 LYS A 99 SITE 2 AC2 22 GLY A 118 SER A 119 ASN A 144 TYR A 146 SITE 3 AC2 22 ASN A 180 ASN A 211 LYS A 254 THR A 282 SITE 4 AC2 22 ASN A 283 SER A 304 GLY A 305 VAL A 332 SITE 5 AC2 22 GLY A 333 GLY A 334 LEU A 354 TYR A 355 SITE 6 AC2 22 THR A 356 ORO A 401 SITE 1 AC3 3 ARG A 56 HIS A 100 HIS A 151 SITE 1 AC4 17 TYR A 37 LEU A 41 MET A 42 GLN A 46 SITE 2 AC4 17 PRO A 51 ALA A 54 HIS A 55 ALA A 58 SITE 3 AC4 17 PHE A 61 THR A 62 LEU A 66 LEU A 67 SITE 4 AC4 17 PRO A 68 TYR A 355 LEU A 358 THR A 359 SITE 5 AC4 17 PRO A 363 CRYST1 113.668 113.668 113.668 90.00 90.00 90.00 P 21 3 12 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008798 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008798 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008798 0.00000