HEADER OXIDOREDUCTASE 28-OCT-08 3F1Q TITLE HUMAN DIHYDROOROTATE DEHYDROGENASE IN COMPLEX WITH A LEFLUNOMIDE TITLE 2 DERIVATIVE INHIBITOR 1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROOROTATE DEHYDROGENASE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES 30-396; COMPND 5 SYNONYM: DHODEHASE, DIHYDROOROTATE OXIDASE; COMPND 6 EC: 1.3.3.1; 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 DIHYDROOROTATE DEHYDROGENASE, LEFLUNOMIDE, FAD, FLAVOPROTEIN, KEYWDS 2 MEMBRANE, MITOCHONDRION, MITOCHONDRION INNER MEMBRANE, KEYWDS 3 OXIDOREDUCTASE, PYRIMIDINE BIOSYNTHESIS, TRANSIT PEPTIDE EXPDTA X-RAY DIFFRACTION AUTHOR T.HEIKKILA,M.DAVIES,G.A.MCCONKEY,C.W.G.FISHWICK,M.R.PARSONS, AUTHOR 2 A.P.JOHNSON REVDAT 3 01-NOV-23 3F1Q 1 REMARK REVDAT 2 13-JUL-11 3F1Q 1 VERSN REVDAT 1 09-JUN-09 3F1Q 0 JRNL AUTH M.DAVIES,T.HEIKKILA,G.A.MCCONKEY,C.W.G.FISHWICK,M.R.PARSONS, JRNL AUTH 2 A.P.JOHNSON JRNL TITL STRUCTURE-BASED DESIGN, SYNTHESIS, AND CHARACTERIZATION OF JRNL TITL 2 INHIBITORS OF HUMAN AND PLASMODIUM FALCIPARUM DIHYDROOROTATE JRNL TITL 3 DEHYDROGENASES JRNL REF J.MED.CHEM. V. 52 2683 2009 JRNL REFN ISSN 0022-2623 JRNL PMID 19351152 JRNL DOI 10.1021/JM800963T REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.69 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 36072 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) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.199 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2011 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) : 2.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.05 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2794 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1840 REMARK 3 BIN FREE R VALUE SET COUNT : 124 REMARK 3 BIN FREE R VALUE : 0.2190 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2758 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 76 REMARK 3 SOLVENT ATOMS : 311 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 14.90 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 5.21 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.29000 REMARK 3 B22 (A**2) : 0.29000 REMARK 3 B33 (A**2) : -0.44000 REMARK 3 B12 (A**2) : 0.15000 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): 0.128 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.117 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.073 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.541 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.919 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2900 ; 0.008 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3924 ; 1.085 ; 2.013 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 361 ; 5.229 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 125 ;37.623 ;23.040 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 497 ;13.143 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 30 ;18.647 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 437 ; 0.073 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2194 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1478 ; 0.196 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1976 ; 0.298 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 274 ; 0.129 ; 0.200 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): 52 ; 0.190 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 25 ; 0.278 ; 0.200 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): 1855 ; 0.257 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2877 ; 0.394 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1206 ; 1.081 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1046 ; 1.823 ; 4.500 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 : 10 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 30 A 36 REMARK 3 ORIGIN FOR THE GROUP (A): 7.5514 -20.8028 -4.9817 REMARK 3 T TENSOR REMARK 3 T11: 0.2738 T22: 0.2451 REMARK 3 T33: 0.2620 T12: 0.0003 REMARK 3 T13: 0.0223 T23: 0.0104 REMARK 3 L TENSOR REMARK 3 L11: 31.8725 L22: 142.2053 REMARK 3 L33: 49.2433 L12: 19.6771 REMARK 3 L13: -39.4815 L23: -17.7613 REMARK 3 S TENSOR REMARK 3 S11: 0.8146 S12: -2.4490 S13: 2.4060 REMARK 3 S21: 7.3144 S22: 1.1683 S23: -3.3538 REMARK 3 S31: -3.5015 S32: 3.3983 S33: -1.9829 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 : A 37 A 49 REMARK 3 ORIGIN FOR THE GROUP (A): 6.0470 -29.8443 -10.1899 REMARK 3 T TENSOR REMARK 3 T11: 0.0137 T22: 0.1509 REMARK 3 T33: -0.0661 T12: -0.0260 REMARK 3 T13: 0.0567 T23: 0.1010 REMARK 3 L TENSOR REMARK 3 L11: 4.6783 L22: 39.3402 REMARK 3 L33: 5.0959 L12: -4.0832 REMARK 3 L13: -4.1589 L23: 9.2609 REMARK 3 S TENSOR REMARK 3 S11: 0.0006 S12: 0.8004 S13: 0.2544 REMARK 3 S21: -1.5565 S22: 0.3802 S23: 0.0238 REMARK 3 S31: 0.0403 S32: -0.1598 S33: -0.3808 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 50 A 64 REMARK 3 ORIGIN FOR THE GROUP (A): 10.1304 -39.8754 -1.5381 REMARK 3 T TENSOR REMARK 3 T11: -0.0411 T22: 0.1768 REMARK 3 T33: 0.0096 T12: 0.0523 REMARK 3 T13: 0.0359 T23: 0.0000 REMARK 3 L TENSOR REMARK 3 L11: 5.1487 L22: 8.4182 REMARK 3 L33: 13.8236 L12: 6.5647 REMARK 3 L13: 6.7838 L23: 9.1339 REMARK 3 S TENSOR REMARK 3 S11: -0.0861 S12: 0.5902 S13: -0.4232 REMARK 3 S21: -0.1804 S22: 0.4329 S23: -0.5940 REMARK 3 S31: 0.1531 S32: 1.2624 S33: -0.3468 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 65 A 89 REMARK 3 ORIGIN FOR THE GROUP (A): 2.3162 -23.3205 15.4980 REMARK 3 T TENSOR REMARK 3 T11: 0.0179 T22: 0.0019 REMARK 3 T33: 0.0815 T12: -0.0762 REMARK 3 T13: -0.0622 T23: -0.0412 REMARK 3 L TENSOR REMARK 3 L11: 4.2385 L22: 3.5045 REMARK 3 L33: 0.7764 L12: -2.2302 REMARK 3 L13: -0.5409 L23: 0.9947 REMARK 3 S TENSOR REMARK 3 S11: -0.0440 S12: -0.1320 S13: 0.4642 REMARK 3 S21: -0.0090 S22: 0.0848 S23: -0.5105 REMARK 3 S31: -0.4206 S32: 0.1568 S33: -0.0409 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 90 A 163 REMARK 3 ORIGIN FOR THE GROUP (A): 4.0995 -41.9840 7.3763 REMARK 3 T TENSOR REMARK 3 T11: -0.0225 T22: 0.0393 REMARK 3 T33: 0.0020 T12: 0.0133 REMARK 3 T13: 0.0079 T23: 0.0042 REMARK 3 L TENSOR REMARK 3 L11: 0.9735 L22: 0.4786 REMARK 3 L33: 0.9063 L12: -0.2227 REMARK 3 L13: 0.8255 L23: -0.2079 REMARK 3 S TENSOR REMARK 3 S11: 0.0839 S12: 0.0927 S13: -0.0527 REMARK 3 S21: -0.0435 S22: -0.0588 S23: -0.0474 REMARK 3 S31: 0.0525 S32: 0.1825 S33: -0.0251 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 164 A 225 REMARK 3 ORIGIN FOR THE GROUP (A): 0.7798 -44.5715 18.4403 REMARK 3 T TENSOR REMARK 3 T11: -0.0050 T22: 0.0297 REMARK 3 T33: -0.0041 T12: 0.0085 REMARK 3 T13: -0.0078 T23: 0.0199 REMARK 3 L TENSOR REMARK 3 L11: 1.0686 L22: 0.3138 REMARK 3 L33: 1.0433 L12: -0.4081 REMARK 3 L13: 0.1008 L23: -0.3810 REMARK 3 S TENSOR REMARK 3 S11: -0.0194 S12: -0.1042 S13: -0.0617 REMARK 3 S21: 0.0104 S22: -0.0260 S23: 0.0003 REMARK 3 S31: 0.1213 S32: -0.0188 S33: 0.0455 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 226 A 273 REMARK 3 ORIGIN FOR THE GROUP (A): -10.3736 -44.9153 23.4458 REMARK 3 T TENSOR REMARK 3 T11: -0.0126 T22: 0.0376 REMARK 3 T33: 0.0129 T12: 0.0068 REMARK 3 T13: 0.0181 T23: 0.0206 REMARK 3 L TENSOR REMARK 3 L11: 3.1586 L22: 0.2414 REMARK 3 L33: 2.0751 L12: -0.1220 REMARK 3 L13: 1.8312 L23: -0.0456 REMARK 3 S TENSOR REMARK 3 S11: -0.0863 S12: -0.2520 S13: -0.1742 REMARK 3 S21: 0.0327 S22: 0.0875 S23: 0.0308 REMARK 3 S31: -0.0180 S32: -0.1927 S33: -0.0012 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 274 A 319 REMARK 3 ORIGIN FOR THE GROUP (A): -13.3676 -39.5446 4.4097 REMARK 3 T TENSOR REMARK 3 T11: -0.0192 T22: -0.0034 REMARK 3 T33: -0.0019 T12: 0.0108 REMARK 3 T13: -0.0117 T23: -0.0003 REMARK 3 L TENSOR REMARK 3 L11: 0.6875 L22: 0.5005 REMARK 3 L33: 1.4915 L12: -0.1938 REMARK 3 L13: -0.0743 L23: 0.5530 REMARK 3 S TENSOR REMARK 3 S11: 0.0206 S12: -0.0407 S13: -0.0350 REMARK 3 S21: -0.0406 S22: 0.0007 S23: 0.0484 REMARK 3 S31: 0.0713 S32: -0.0689 S33: -0.0213 REMARK 3 REMARK 3 TLS GROUP : 9 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 320 A 392 REMARK 3 ORIGIN FOR THE GROUP (A): -9.2177 -25.7676 9.6419 REMARK 3 T TENSOR REMARK 3 T11: -0.0071 T22: -0.0011 REMARK 3 T33: 0.0008 T12: 0.0097 REMARK 3 T13: -0.0318 T23: -0.0099 REMARK 3 L TENSOR REMARK 3 L11: 1.2612 L22: 0.9353 REMARK 3 L33: 0.9686 L12: -0.1093 REMARK 3 L13: 0.0668 L23: -0.0188 REMARK 3 S TENSOR REMARK 3 S11: -0.0552 S12: -0.0379 S13: 0.1368 REMARK 3 S21: 0.0102 S22: 0.0179 S23: -0.0502 REMARK 3 S31: -0.1488 S32: -0.0117 S33: 0.0373 REMARK 3 REMARK 3 TLS GROUP : 10 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 393 A 396 REMARK 3 ORIGIN FOR THE GROUP (A): -22.9126 -22.7559 15.2991 REMARK 3 T TENSOR REMARK 3 T11: -0.0441 T22: 0.0754 REMARK 3 T33: 0.0574 T12: 0.0391 REMARK 3 T13: 0.0040 T23: -0.0495 REMARK 3 L TENSOR REMARK 3 L11: 19.3386 L22: 19.8053 REMARK 3 L33: 31.7677 L12: -4.3793 REMARK 3 L13: -4.0324 L23: 10.9544 REMARK 3 S TENSOR REMARK 3 S11: -0.0602 S12: -0.6585 S13: 1.2409 REMARK 3 S21: -0.2449 S22: 0.5436 S23: 0.6652 REMARK 3 S31: -1.1079 S32: -0.7528 S33: -0.4834 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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 3F1Q COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 13-NOV-08. REMARK 100 THE DEPOSITION ID IS D_1000050036. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 25-APR-06 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 : ESRF REMARK 200 BEAMLINE : BM14 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.98 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 225 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 40134 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.740 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 5.600 REMARK 200 R MERGE (I) : 0.08800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.11 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.60 REMARK 200 R MERGE FOR SHELL (I) : 0.23800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 6.100 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: 1D3H REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.42 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: DROPS: 50MM HEPES, PH 7.7, 400MM NACL, REMARK 280 30% GLYCEROL, 1MM EDTA, 10MM N,N-DIMETHYLUNDECYLAMIN-N-OXIDE REMARK 280 (C11DAO), PRECIPITANT SOLUTION: 0.1M ACETATE PH 4.6-5.0, 40MM REMARK 280 C11DAO, 20.8MM N,N-DIMETHYLDECYLAMINE-N-OXIDE (DDAO), 2MM REMARK 280 DIHYDROOROTATE (DHO), 1.8-2.4M AMMONIUM SULFATE, 1MM INHIBITORS, REMARK 280 RESERVOIR: 0.1M ACETATE PH 4.8, 2.4-2.6M AMMONIUM SULFATE, 30% REMARK 280 GLYCEROL , VAPOR DIFFUSION, HANGING DROP, 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 81.96667 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 40.98333 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 40.98333 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 81.96667 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 30 REMARK 465 ALA A 31 REMARK 465 THR A 32 REMARK 465 ARG A 70 REMARK 465 ALA A 71 REMARK 465 ARG A 72 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 41 -58.36 -122.45 REMARK 500 ASP A 99 78.74 -109.76 REMARK 500 TYR A 356 -63.04 -139.15 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 FMN A 398 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ORO A 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BCE A 397 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 399 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY A 2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 3 DBREF 3F1Q A 30 396 UNP Q02127 PYRD_HUMAN 29 395 SEQRES 1 A 367 MET ALA THR GLY ASP GLU ARG PHE TYR ALA GLU HIS LEU SEQRES 2 A 367 MET PRO THR LEU GLN GLY LEU LEU ASP PRO GLU SER ALA SEQRES 3 A 367 HIS ARG LEU ALA VAL ARG PHE THR SER LEU GLY LEU LEU SEQRES 4 A 367 PRO ARG ALA ARG PHE GLN ASP SER ASP MET LEU GLU VAL SEQRES 5 A 367 ARG VAL LEU GLY HIS LYS PHE ARG ASN PRO VAL GLY ILE SEQRES 6 A 367 ALA ALA GLY PHE ASP LYS HIS GLY GLU ALA VAL ASP GLY SEQRES 7 A 367 LEU TYR LYS MET GLY PHE GLY PHE VAL GLU ILE GLY SER SEQRES 8 A 367 VAL THR PRO LYS PRO GLN GLU GLY ASN PRO ARG PRO ARG SEQRES 9 A 367 VAL PHE ARG LEU PRO GLU ASP GLN ALA VAL ILE ASN ARG SEQRES 10 A 367 TYR GLY PHE ASN SER HIS GLY LEU SER VAL VAL GLU HIS SEQRES 11 A 367 ARG LEU ARG ALA ARG GLN GLN LYS GLN ALA LYS LEU THR SEQRES 12 A 367 GLU ASP GLY LEU PRO LEU GLY VAL ASN LEU GLY LYS ASN SEQRES 13 A 367 LYS THR SER VAL ASP ALA ALA GLU ASP TYR ALA GLU GLY SEQRES 14 A 367 VAL ARG VAL LEU GLY PRO LEU ALA ASP TYR LEU VAL VAL SEQRES 15 A 367 ASN VAL SER SER PRO ASN THR ALA GLY LEU ARG SER LEU SEQRES 16 A 367 GLN GLY LYS ALA GLU LEU ARG ARG LEU LEU THR LYS VAL SEQRES 17 A 367 LEU GLN GLU ARG ASP GLY LEU ARG ARG VAL HIS ARG PRO SEQRES 18 A 367 ALA VAL LEU VAL LYS ILE ALA PRO ASP LEU THR SER GLN SEQRES 19 A 367 ASP LYS GLU ASP ILE ALA SER VAL VAL LYS GLU LEU GLY SEQRES 20 A 367 ILE ASP GLY LEU ILE VAL THR ASN THR THR VAL SER ARG SEQRES 21 A 367 PRO ALA GLY LEU GLN GLY ALA LEU ARG SER GLU THR GLY SEQRES 22 A 367 GLY LEU SER GLY LYS PRO LEU ARG ASP LEU SER THR GLN SEQRES 23 A 367 THR ILE ARG GLU MET TYR ALA LEU THR GLN GLY ARG VAL SEQRES 24 A 367 PRO ILE ILE GLY VAL GLY GLY VAL SER SER GLY GLN ASP SEQRES 25 A 367 ALA LEU GLU LYS ILE ARG ALA GLY ALA SER LEU VAL GLN SEQRES 26 A 367 LEU TYR THR ALA LEU THR PHE TRP GLY PRO PRO VAL VAL SEQRES 27 A 367 GLY LYS VAL LYS ARG GLU LEU GLU ALA LEU LEU LYS GLU SEQRES 28 A 367 GLN GLY PHE GLY GLY VAL THR ASP ALA ILE GLY ALA ASP SEQRES 29 A 367 HIS ARG ARG HET FMN A 398 31 HET ORO A 1 11 HET BCE A 397 21 HET ACY A 399 4 HET ACY A 2 4 HET SO4 A 3 5 HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM ORO OROTIC ACID HETNAM BCE (2Z)-N-BIPHENYL-4-YL-2-CYANO-3-HYDROXYBUT-2-ENAMIDE HETNAM ACY ACETIC ACID HETNAM SO4 SULFATE ION HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 2 FMN C17 H21 N4 O9 P FORMUL 3 ORO C5 H4 N2 O4 FORMUL 4 BCE C17 H14 N2 O2 FORMUL 5 ACY 2(C2 H4 O2) FORMUL 7 SO4 O4 S 2- FORMUL 8 HOH *311(H2 O) HELIX 1 1 ASP A 34 HIS A 41 1 8 HELIX 2 2 HIS A 41 LEU A 50 1 10 HELIX 3 3 ASP A 51 LEU A 65 1 15 HELIX 4 4 SER A 76 GLU A 80 5 5 HELIX 5 5 ALA A 104 GLY A 112 1 9 HELIX 6 6 PRO A 138 ASP A 140 5 3 HELIX 7 7 GLY A 153 ALA A 163 1 11 HELIX 8 8 ARG A 164 ASP A 174 1 11 HELIX 9 9 ASP A 190 GLY A 203 1 14 HELIX 10 10 PRO A 204 ALA A 206 5 3 HELIX 11 11 GLY A 220 GLN A 225 5 6 HELIX 12 12 GLY A 226 GLY A 243 1 18 HELIX 13 13 ARG A 245 ARG A 249 5 5 HELIX 14 14 THR A 261 GLY A 276 1 16 HELIX 15 15 LEU A 309 THR A 324 1 16 HELIX 16 16 SER A 338 GLY A 349 1 12 HELIX 17 17 TYR A 356 GLY A 363 1 8 HELIX 18 18 PRO A 364 GLN A 381 1 18 HELIX 19 19 GLY A 385 ILE A 390 1 6 HELIX 20 20 GLY A 391 ARG A 396 5 6 SHEET 1 A 2 VAL A 81 VAL A 83 0 SHEET 2 A 2 HIS A 86 PHE A 88 -1 O PHE A 88 N VAL A 81 SHEET 1 B 9 VAL A 92 ILE A 94 0 SHEET 2 B 9 PHE A 115 VAL A 121 1 O PHE A 115 N ILE A 94 SHEET 3 B 9 LEU A 178 LEU A 182 1 O GLY A 179 N VAL A 116 SHEET 4 B 9 TYR A 208 ASN A 212 1 O VAL A 210 N LEU A 182 SHEET 5 B 9 ALA A 251 ILE A 256 1 O LEU A 253 N VAL A 211 SHEET 6 B 9 GLY A 279 VAL A 282 1 O ILE A 281 N VAL A 254 SHEET 7 B 9 ILE A 330 VAL A 333 1 O ILE A 331 N VAL A 282 SHEET 8 B 9 LEU A 352 LEU A 355 1 O LEU A 352 N GLY A 332 SHEET 9 B 9 VAL A 92 ILE A 94 1 N GLY A 93 O VAL A 353 SHEET 1 C 3 VAL A 134 LEU A 137 0 SHEET 2 C 3 ALA A 142 ASN A 145 -1 O ALA A 142 N LEU A 137 SHEET 3 C 3 GLY A 303 GLY A 306 -1 O GLY A 303 N ASN A 145 CISPEP 1 GLY A 119 SER A 120 0 6.07 CISPEP 2 ARG A 131 PRO A 132 0 3.31 CISPEP 3 VAL A 282 THR A 283 0 8.93 SITE 1 AC1 26 ORO A 1 ALA A 95 ALA A 96 GLY A 97 SITE 2 AC1 26 LYS A 100 GLY A 119 SER A 120 ASN A 145 SITE 3 AC1 26 TYR A 147 ASN A 181 ASN A 212 LYS A 255 SITE 4 AC1 26 THR A 283 ASN A 284 THR A 285 SER A 305 SITE 5 AC1 26 GLY A 306 LEU A 309 VAL A 333 GLY A 334 SITE 6 AC1 26 GLY A 335 LEU A 355 TYR A 356 THR A 357 SITE 7 AC1 26 HOH A 420 HOH A 625 SITE 1 AC2 11 LYS A 100 ASN A 145 TYR A 147 GLY A 148 SITE 2 AC2 11 PHE A 149 ASN A 212 SER A 215 ASN A 217 SITE 3 AC2 11 ASN A 284 THR A 285 FMN A 398 SITE 1 AC3 13 TYR A 38 MET A 43 LEU A 46 PRO A 52 SITE 2 AC3 13 HIS A 56 ALA A 59 LEU A 68 PHE A 98 SITE 3 AC3 13 ARG A 136 TYR A 356 THR A 360 PRO A 364 SITE 4 AC3 13 HOH A 453 SITE 1 AC4 6 GLN A 168 ALA A 169 THR A 172 LEU A 205 SITE 2 AC4 6 ASP A 207 HOH A 407 SITE 1 AC5 7 LYS A 307 PRO A 308 ASP A 311 THR A 314 SITE 2 AC5 7 GLN A 315 ARG A 318 HOH A 597 SITE 1 AC6 3 ARG A 245 VAL A 247 HIS A 248 CRYST1 90.696 90.696 122.950 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 0.011026 0.006366 0.000000 0.00000 SCALE2 0.000000 0.012732 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008133 0.00000