HEADER OXIDOREDUCTASE 04-MAY-07 2PRH TITLE THE STRUCTURES OF APO- AND INHIBITOR BOUND HUMAN DIHYDROOROTATE TITLE 2 DEHYDROGENASE REVEAL CONFORMATIONAL FLEXIBILITY WITHIN THE INHIBITOR TITLE 3 BINDING SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIHYDROOROTATE DEHYDROGENASE, MITOCHONDRIAL; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: (DIHYDROOROTATE OXIDASE; DHODEHASE; COMPND 5 EC: 1.3.99.11; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 CELLULAR_LOCATION: MITOCHONDRIA; SOURCE 6 GENE: DHODH; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET-19B KEYWDS PROTEIN INHIBITOR COMPLEX, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR B.WALSE,V.T.DUFE,S.AL-KARADAGHI REVDAT 6 30-AUG-23 2PRH 1 REMARK REVDAT 5 07-MAR-18 2PRH 1 REMARK REVDAT 4 13-JUL-11 2PRH 1 VERSN REVDAT 3 23-DEC-08 2PRH 1 JRNL VERSN REVDAT 2 03-JUN-08 2PRH 1 DBREF REVDAT 1 20-MAY-08 2PRH 0 JRNL AUTH B.WALSE,V.T.DUFE,B.SVENSSON,I.FRITZSON,L.DAHLBERG, JRNL AUTH 2 A.KHAIROULLINA,U.WELLMAR,S.AL-KARADAGHI JRNL TITL THE STRUCTURES OF HUMAN DIHYDROOROTATE DEHYDROGENASE WITH JRNL TITL 2 AND WITHOUT INHIBITOR REVEAL CONFORMATIONAL FLEXIBILITY IN JRNL TITL 3 THE INHIBITOR AND SUBSTRATE BINDING SITES JRNL REF BIOCHEMISTRY V. 47 8929 2008 JRNL REFN ISSN 0006-2960 JRNL PMID 18672895 JRNL DOI 10.1021/BI8003318 REMARK 2 REMARK 2 RESOLUTION. 2.40 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.36 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 23195 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) : 0.174 REMARK 3 R VALUE (WORKING SET) : 0.172 REMARK 3 FREE R VALUE : 0.217 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1160 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1588 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.1750 REMARK 3 BIN FREE R VALUE SET COUNT : 83 REMARK 3 BIN FREE R VALUE : 0.2980 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2727 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 84 REMARK 3 SOLVENT ATOMS : 216 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 21.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.30000 REMARK 3 B22 (A**2) : 0.30000 REMARK 3 B33 (A**2) : -0.45000 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): 0.234 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.198 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.119 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.930 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.940 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.906 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2897 ; 0.010 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3928 ; 1.263 ; 2.016 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 362 ; 5.768 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 122 ;36.100 ;22.951 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 485 ;14.443 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 29 ;18.417 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 433 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2191 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1622 ; 0.213 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1955 ; 0.297 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 131 ; 0.148 ; 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): 67 ; 0.213 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.091 ; 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): 1842 ; 0.496 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2858 ; 0.808 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1239 ; 1.416 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1069 ; 2.359 ; 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 : 8 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): 53.5077 56.8584 -5.7871 REMARK 3 T TENSOR REMARK 3 T11: 0.2110 T22: 0.2495 REMARK 3 T33: 0.2490 T12: -0.0236 REMARK 3 T13: 0.0354 T23: -0.0011 REMARK 3 L TENSOR REMARK 3 L11: 7.3648 L22: 32.0800 REMARK 3 L33: 42.8442 L12: 6.4592 REMARK 3 L13: -16.8969 L23: -4.4408 REMARK 3 S TENSOR REMARK 3 S11: -0.7659 S12: -1.6948 S13: 1.6273 REMARK 3 S21: -1.4367 S22: 1.3005 S23: -2.1233 REMARK 3 S31: 0.8316 S32: 1.9219 S33: -0.5346 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 64 REMARK 3 ORIGIN FOR THE GROUP (A): 53.6519 43.7460 -5.4281 REMARK 3 T TENSOR REMARK 3 T11: -0.0377 T22: 0.1476 REMARK 3 T33: -0.0023 T12: -0.0034 REMARK 3 T13: 0.0608 T23: 0.0608 REMARK 3 L TENSOR REMARK 3 L11: 1.6442 L22: 3.2826 REMARK 3 L33: 4.8611 L12: 2.0853 REMARK 3 L13: -0.3079 L23: 1.3600 REMARK 3 S TENSOR REMARK 3 S11: 0.0004 S12: 0.4768 S13: -0.0394 REMARK 3 S21: -0.4596 S22: 0.0729 S23: -0.3238 REMARK 3 S31: 0.0556 S32: 0.7579 S33: -0.0732 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 65 A 78 REMARK 3 ORIGIN FOR THE GROUP (A): 52.6102 57.5987 8.4639 REMARK 3 T TENSOR REMARK 3 T11: 0.1142 T22: 0.2197 REMARK 3 T33: 0.3126 T12: -0.1361 REMARK 3 T13: -0.0755 T23: -0.1118 REMARK 3 L TENSOR REMARK 3 L11: 22.1536 L22: 18.2911 REMARK 3 L33: 9.4067 L12: -17.6863 REMARK 3 L13: -13.9755 L23: 9.5882 REMARK 3 S TENSOR REMARK 3 S11: 1.0928 S12: 0.2014 S13: 2.3093 REMARK 3 S21: -0.9063 S22: -0.0833 S23: -2.0973 REMARK 3 S31: -1.2465 S32: 0.3302 S33: -1.0094 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 79 A 148 REMARK 3 ORIGIN FOR THE GROUP (A): 47.0412 40.6137 7.9618 REMARK 3 T TENSOR REMARK 3 T11: -0.0175 T22: 0.0213 REMARK 3 T33: 0.0183 T12: -0.0079 REMARK 3 T13: -0.0036 T23: 0.0012 REMARK 3 L TENSOR REMARK 3 L11: 0.9779 L22: 0.6354 REMARK 3 L33: 1.0991 L12: -0.2968 REMARK 3 L13: 0.5506 L23: 0.1660 REMARK 3 S TENSOR REMARK 3 S11: 0.0354 S12: 0.0444 S13: 0.0423 REMARK 3 S21: -0.0460 S22: -0.0055 S23: -0.0895 REMARK 3 S31: -0.0360 S32: 0.2005 S33: -0.0299 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 149 A 211 REMARK 3 ORIGIN FOR THE GROUP (A): 50.8053 34.8803 19.3268 REMARK 3 T TENSOR REMARK 3 T11: -0.0236 T22: 0.0515 REMARK 3 T33: -0.0168 T12: 0.0112 REMARK 3 T13: -0.0219 T23: 0.0189 REMARK 3 L TENSOR REMARK 3 L11: 2.1065 L22: 1.2033 REMARK 3 L33: 1.8332 L12: -0.0792 REMARK 3 L13: -0.0603 L23: -0.3816 REMARK 3 S TENSOR REMARK 3 S11: -0.0493 S12: -0.1091 S13: -0.1059 REMARK 3 S21: 0.1130 S22: 0.0445 S23: -0.1243 REMARK 3 S31: 0.1038 S32: 0.1233 S33: 0.0048 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 212 A 245 REMARK 3 ORIGIN FOR THE GROUP (A): 37.5360 30.0039 24.8994 REMARK 3 T TENSOR REMARK 3 T11: 0.0427 T22: 0.0543 REMARK 3 T33: 0.0707 T12: 0.0102 REMARK 3 T13: -0.0351 T23: 0.0477 REMARK 3 L TENSOR REMARK 3 L11: 6.3840 L22: 2.2559 REMARK 3 L33: 1.3602 L12: 1.0189 REMARK 3 L13: -0.5091 L23: -1.7433 REMARK 3 S TENSOR REMARK 3 S11: 0.1313 S12: -0.1002 S13: -0.5995 REMARK 3 S21: -0.4513 S22: 0.2040 S23: 0.1070 REMARK 3 S31: 0.4128 S32: -0.4604 S33: -0.3354 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 246 A 368 REMARK 3 ORIGIN FOR THE GROUP (A): 34.0523 42.5559 9.9186 REMARK 3 T TENSOR REMARK 3 T11: -0.0097 T22: 0.0343 REMARK 3 T33: 0.0072 T12: 0.0124 REMARK 3 T13: -0.0173 T23: -0.0084 REMARK 3 L TENSOR REMARK 3 L11: 0.8711 L22: 0.6070 REMARK 3 L33: 1.0898 L12: -0.2407 REMARK 3 L13: 0.1208 L23: -0.1168 REMARK 3 S TENSOR REMARK 3 S11: -0.0209 S12: -0.1135 S13: 0.0051 REMARK 3 S21: 0.0183 S22: -0.0534 S23: 0.0214 REMARK 3 S31: -0.0538 S32: -0.1027 S33: 0.0742 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 369 A 396 REMARK 3 ORIGIN FOR THE GROUP (A): 33.4667 60.0609 11.5167 REMARK 3 T TENSOR REMARK 3 T11: 0.0538 T22: -0.0397 REMARK 3 T33: 0.0467 T12: 0.0852 REMARK 3 T13: -0.0873 T23: -0.0264 REMARK 3 L TENSOR REMARK 3 L11: 3.2443 L22: 2.7072 REMARK 3 L33: 3.4480 L12: 0.6268 REMARK 3 L13: -0.8880 L23: -0.4644 REMARK 3 S TENSOR REMARK 3 S11: -0.0819 S12: -0.1782 S13: 0.5598 REMARK 3 S21: 0.1297 S22: 0.1185 S23: 0.0494 REMARK 3 S31: -0.4742 S32: -0.1117 S33: -0.0367 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: NULL REMARK 4 REMARK 4 2PRH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-MAY-07. REMARK 100 THE DEPOSITION ID IS D_1000042705. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 27-APR-04 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 : MAX II REMARK 200 BEAMLINE : I711 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.092 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29077 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.300 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 75.0 REMARK 200 DATA REDUNDANCY : 5.200 REMARK 200 R MERGE (I) : 0.11800 REMARK 200 R SYM (I) : 0.12000 REMARK 200 FOR THE DATA SET : 12.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.34 REMARK 200 COMPLETENESS FOR SHELL (%) : 94.0 REMARK 200 DATA REDUNDANCY IN SHELL : 5.18 REMARK 200 R MERGE FOR SHELL (I) : 0.41700 REMARK 200 R SYM FOR SHELL (I) : 0.30900 REMARK 200 FOR SHELL : 4.610 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: 1D3G REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 66.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.64 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1M ACETATE, 1.6-2.4M AMMONIUM REMARK 280 SULPHATE, 30% GLYCEROL, PH 4.8, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 298K 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 81.80000 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 40.90000 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 40.90000 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 81.80000 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 300 REMARK: BIOLOGICAL UNIT IS A MONOMER 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 ASN A 217 REMARK 465 THR A 218 REMARK 465 ALA A 219 REMARK 465 GLY A 220 REMARK 465 LEU A 221 REMARK 465 ARG A 222 REMARK 465 SER A 223 REMARK 465 LEU A 224 REMARK 465 GLN A 225 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 ARG A 70 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 72 CG CD NE CZ NH1 NH2 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 ALA A 31 -155.84 56.09 REMARK 500 ASP A 34 107.77 94.70 REMARK 500 HIS A 41 -65.80 -128.04 REMARK 500 ARG A 70 -144.00 50.87 REMARK 500 ASP A 99 79.66 -104.06 REMARK 500 ALA A 104 27.60 -140.70 REMARK 500 SER A 214 -13.84 -142.11 REMARK 500 TYR A 356 -68.55 -146.65 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 399 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 238 A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DDQ A 630 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2PRL RELATED DB: PDB REMARK 900 RELATED ID: 2PRM RELATED DB: PDB REMARK 900 RELATED ID: 1D3G RELATED DB: PDB DBREF 2PRH 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 399 11 HET 238 A 400 28 HET DDQ A 630 14 HETNAM FMN FLAVIN MONONUCLEOTIDE HETNAM ORO OROTIC ACID HETNAM 238 6-CHLORO-2-(2'-FLUOROBIPHENYL-4-YL)-3-METHYLQUINOLINE- HETNAM 2 238 4-CARBOXYLIC ACID HETNAM DDQ DECYLAMINE-N,N-DIMETHYL-N-OXIDE HETSYN FMN RIBOFLAVIN MONOPHOSPHATE FORMUL 2 FMN C17 H21 N4 O9 P FORMUL 3 ORO C5 H4 N2 O4 FORMUL 4 238 C23 H15 CL F N O2 FORMUL 5 DDQ C12 H27 N O FORMUL 6 HOH *216(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 MET A 111 1 8 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 LYS A 227 GLY A 243 1 17 HELIX 12 12 ARG A 245 ARG A 249 5 5 HELIX 13 13 THR A 261 GLY A 276 1 16 HELIX 14 14 LEU A 309 THR A 324 1 16 HELIX 15 15 SER A 338 GLY A 349 1 12 HELIX 16 16 TYR A 356 GLY A 363 1 8 HELIX 17 17 PRO A 365 GLN A 381 1 17 HELIX 18 18 GLY A 385 ILE A 390 1 6 HELIX 19 19 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 ALA A 251 N LEU A 209 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 ILE A 144 N PHE A 135 SHEET 3 C 3 GLY A 303 GLY A 306 -1 O GLY A 303 N ASN A 145 CISPEP 1 GLY A 33 ASP A 34 0 -5.34 CISPEP 2 ARG A 70 ALA A 71 0 0.89 CISPEP 3 GLY A 119 SER A 120 0 3.58 CISPEP 4 ARG A 131 PRO A 132 0 -2.94 CISPEP 5 GLY A 226 LYS A 227 0 1.17 CISPEP 6 VAL A 282 THR A 283 0 7.87 SITE 1 AC1 24 ALA A 95 ALA A 96 GLY A 97 LYS A 100 SITE 2 AC1 24 GLY A 119 SER A 120 ASN A 145 TYR A 147 SITE 3 AC1 24 ASN A 181 ASN A 212 LYS A 255 THR A 283 SITE 4 AC1 24 ASN A 284 THR A 285 SER A 305 GLY A 306 SITE 5 AC1 24 LEU A 309 GLY A 334 GLY A 335 LEU A 355 SITE 6 AC1 24 TYR A 356 THR A 357 HOH A 633 HOH A 653 SITE 1 AC2 9 LYS A 100 ASN A 145 TYR A 147 GLY A 148 SITE 2 AC2 9 PHE A 149 ASN A 212 SER A 215 ASN A 284 SITE 3 AC2 9 THR A 285 SITE 1 AC3 15 TYR A 38 MET A 43 GLN A 47 PRO A 52 SITE 2 AC3 15 ALA A 55 HIS A 56 ALA A 59 THR A 63 SITE 3 AC3 15 LEU A 67 LEU A 68 ARG A 136 TYR A 356 SITE 4 AC3 15 THR A 360 PRO A 364 HOH A 713 SITE 1 AC4 7 MET A 30 ALA A 31 THR A 32 LEU A 58 SITE 2 AC4 7 PHE A 62 LEU A 67 LEU A 68 CRYST1 90.550 90.550 122.700 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 0.011044 0.006376 0.000000 0.00000 SCALE2 0.000000 0.012752 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008150 0.00000