HEADER OXIDOREDUCTASE 16-JAN-15 4XP7 TITLE CRYSTAL STRUCTURE OF HUMAN TRNA DIHYDROURIDINE SYNTHASE 2 COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA-DIHYDROURIDINE(20) SYNTHASE [NAD(P)+]-LIKE; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 1-340; COMPND 5 SYNONYM: DIHYDROURIDINE SYNTHASE 2,UP-REGULATED IN LUNG CANCER COMPND 6 PROTEIN 8,URLC8,TRNA-DIHYDROURIDINE SYNTHASE 2-LIKE,HDUS2; COMPND 7 EC: 1.3.1.-; COMPND 8 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: DUS2, DUS2L; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS TRNA, DUS, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR F.WHELAN,H.T.JENKINS,S.GRIFFITHS,R.T.BYRNE,E.J.DODSON,A.A.ANTSON REVDAT 3 15-JUL-15 4XP7 1 JRNL REVDAT 2 18-MAR-15 4XP7 1 REVDAT 1 28-JAN-15 4XP7 0 JRNL AUTH F.WHELAN,H.T.JENKINS,S.C.GRIFFITHS,R.T.BYRNE,E.J.DODSON, JRNL AUTH 2 A.A.ANTSON JRNL TITL FROM BACTERIAL TO HUMAN DIHYDROURIDINE SYNTHASE: AUTOMATED JRNL TITL 2 STRUCTURE DETERMINATION. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 71 1564 2015 JRNL REFN ESSN 1399-0047 JRNL PMID 26143927 JRNL DOI 10.1107/S1399004715009220 REMARK 2 REMARK 2 RESOLUTION. 1.90 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0073 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 46.02 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.2 REMARK 3 NUMBER OF REFLECTIONS : 22995 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) : 0.170 REMARK 3 R VALUE (WORKING SET) : 0.168 REMARK 3 FREE R VALUE : 0.207 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1236 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) : 1.90 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.95 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1674 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 96.53 REMARK 3 BIN R VALUE (WORKING SET) : 0.3050 REMARK 3 BIN FREE R VALUE SET COUNT : 78 REMARK 3 BIN FREE R VALUE : 0.2880 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2466 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 31 REMARK 3 SOLVENT ATOMS : 194 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 36.62 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.27000 REMARK 3 B22 (A**2) : 1.10000 REMARK 3 B33 (A**2) : -0.84000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.12000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.157 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.140 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.120 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.096 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2609 ; 0.012 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 2493 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3561 ; 1.507 ; 1.970 REMARK 3 BOND ANGLES OTHERS (DEGREES): 5710 ; 0.828 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 342 ; 5.785 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 112 ;36.460 ;23.750 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 439 ;13.263 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;17.392 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 417 ; 0.084 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3092 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 582 ; 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): 1326 ; 1.446 ; 2.373 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 1325 ; 1.436 ; 2.368 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1664 ; 2.118 ; 3.983 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 4 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 7 A 109 REMARK 3 ORIGIN FOR THE GROUP (A): 21.2890 -1.0000 23.4710 REMARK 3 T TENSOR REMARK 3 T11: 0.0701 T22: 0.0817 REMARK 3 T33: 0.0787 T12: 0.0339 REMARK 3 T13: 0.0480 T23: -0.0115 REMARK 3 L TENSOR REMARK 3 L11: 3.5436 L22: 0.8957 REMARK 3 L33: 2.6216 L12: -0.1688 REMARK 3 L13: 1.0801 L23: -0.6006 REMARK 3 S TENSOR REMARK 3 S11: 0.0613 S12: 0.4253 S13: -0.1124 REMARK 3 S21: -0.0107 S22: -0.0496 S23: -0.1235 REMARK 3 S31: 0.1996 S32: 0.3868 S33: -0.0117 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 110 A 220 REMARK 3 ORIGIN FOR THE GROUP (A): 20.4242 4.1657 4.6777 REMARK 3 T TENSOR REMARK 3 T11: 0.2536 T22: 0.4342 REMARK 3 T33: 0.1096 T12: -0.0037 REMARK 3 T13: 0.0910 T23: 0.0617 REMARK 3 L TENSOR REMARK 3 L11: 5.7800 L22: 1.7818 REMARK 3 L33: 4.3588 L12: 0.2331 REMARK 3 L13: 2.1617 L23: -0.4095 REMARK 3 S TENSOR REMARK 3 S11: -0.1063 S12: 0.9925 S13: 0.5870 REMARK 3 S21: -0.4311 S22: -0.0745 S23: -0.1212 REMARK 3 S31: -0.2094 S32: 0.4325 S33: 0.1808 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 221 A 319 REMARK 3 ORIGIN FOR THE GROUP (A): 1.9712 0.5057 24.7661 REMARK 3 T TENSOR REMARK 3 T11: 0.0325 T22: 0.0612 REMARK 3 T33: 0.0797 T12: -0.0207 REMARK 3 T13: 0.0283 T23: 0.0082 REMARK 3 L TENSOR REMARK 3 L11: 2.7981 L22: 1.5554 REMARK 3 L33: 5.6347 L12: -0.7251 REMARK 3 L13: -0.0796 L23: 0.5693 REMARK 3 S TENSOR REMARK 3 S11: -0.0675 S12: 0.0982 S13: -0.0128 REMARK 3 S21: -0.0610 S22: 0.0648 S23: 0.1695 REMARK 3 S31: 0.0485 S32: -0.4895 S33: 0.0027 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 320 A 338 REMARK 3 ORIGIN FOR THE GROUP (A): 15.3505 -6.8334 47.2673 REMARK 3 T TENSOR REMARK 3 T11: 0.1539 T22: 0.1019 REMARK 3 T33: 0.1031 T12: 0.0262 REMARK 3 T13: 0.0172 T23: 0.0053 REMARK 3 L TENSOR REMARK 3 L11: 9.6382 L22: 2.7444 REMARK 3 L33: 1.3299 L12: -3.3502 REMARK 3 L13: 2.3559 L23: -0.7361 REMARK 3 S TENSOR REMARK 3 S11: -0.0024 S12: -0.0593 S13: 0.0995 REMARK 3 S21: 0.1367 S22: 0.0149 S23: -0.1361 REMARK 3 S31: 0.0518 S32: -0.0944 S33: -0.0124 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK 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 U VALUES : WITH TLS ADDED REMARK 4 REMARK 4 4XP7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-JAN-15. REMARK 100 THE DEPOSITION ID IS D_1000205253. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-SEP-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24244 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 46.020 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06300 REMARK 200 FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.80 REMARK 200 R MERGE FOR SHELL (I) : 0.58500 REMARK 200 R SYM FOR SHELL (I) : 0.58500 REMARK 200 FOR SHELL : 1.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP 11.0.02 REMARK 200 STARTING MODEL: SEMET MODEL REMARK 200 REMARK 200 REMARK: ROD-LIKE CLUSTERS THAT SEPARATE READILY REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 40.20 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.13 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES MALIC TRIS PH 4, 25% PEG REMARK 280 1500, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 24.78100 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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 TOTAL BURIED SURFACE AREA: 740 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -6.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 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 -5 REMARK 465 SER A -4 REMARK 465 HIS A -3 REMARK 465 MET A -2 REMARK 465 ALA A -1 REMARK 465 SER A 0 REMARK 465 MET A 1 REMARK 465 ILE A 2 REMARK 465 LEU A 3 REMARK 465 ASN A 4 REMARK 465 SER A 5 REMARK 465 LEU A 6 REMARK 465 TYR A 120 REMARK 465 SER A 121 REMARK 465 THR A 122 REMARK 465 LYS A 123 REMARK 465 GLY A 124 REMARK 465 GLY A 125 REMARK 465 MET A 126 REMARK 465 GLY A 127 REMARK 465 ALA A 128 REMARK 465 GLU A 340 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 LYS A 53 CE NZ REMARK 470 GLU A 78 CD OE1 OE2 REMARK 470 LYS A 118 CE NZ REMARK 470 GLN A 119 CG CD OE1 NE2 REMARK 470 LYS A 139 CE NZ REMARK 470 LEU A 159 CG CD1 CD2 REMARK 470 SER A 161 OG REMARK 470 LEU A 162 CG CD1 CD2 REMARK 470 GLU A 163 CG CD OE1 OE2 REMARK 470 ASP A 164 CG OD1 OD2 REMARK 470 LYS A 170 CD CE NZ REMARK 470 ARG A 174 CD NE CZ NH1 NH2 REMARK 470 LYS A 186 CG CD CE NZ REMARK 470 ARG A 187 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 188 CG CD OE1 OE2 REMARK 470 ARG A 190 CB CG CD NE CZ NH1 NH2 REMARK 470 GLN A 192 CG CD OE1 NE2 REMARK 470 GLU A 198 OE1 REMARK 470 LYS A 201 CD CE NZ REMARK 470 SER A 208 CB OG REMARK 470 ASP A 219 CG OD1 OD2 REMARK 470 LYS A 254 CD CE NZ REMARK 470 ARG A 308 CZ NH1 NH2 REMARK 470 LYS A 337 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 ARG A 21 -49.57 73.09 REMARK 500 HIS A 218 -72.18 67.40 REMARK 500 ALA A 242 -81.95 -110.62 REMARK 500 ASN A 248 105.83 -163.79 REMARK 500 GLN A 292 32.33 -141.11 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 673 DISTANCE = 6.90 ANGSTROMS REMARK 525 HOH A 674 DISTANCE = 7.84 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FNR A 401 DBREF 4XP7 A 1 340 UNP Q9NX74 DUS2L_HUMAN 1 340 SEQADV 4XP7 GLY A -5 UNP Q9NX74 EXPRESSION TAG SEQADV 4XP7 SER A -4 UNP Q9NX74 EXPRESSION TAG SEQADV 4XP7 HIS A -3 UNP Q9NX74 EXPRESSION TAG SEQADV 4XP7 MET A -2 UNP Q9NX74 EXPRESSION TAG SEQADV 4XP7 ALA A -1 UNP Q9NX74 EXPRESSION TAG SEQADV 4XP7 SER A 0 UNP Q9NX74 EXPRESSION TAG SEQRES 1 A 346 GLY SER HIS MET ALA SER MET ILE LEU ASN SER LEU SER SEQRES 2 A 346 LEU CYS TYR HIS ASN LYS LEU ILE LEU ALA PRO MET VAL SEQRES 3 A 346 ARG VAL GLY THR LEU PRO MET ARG LEU LEU ALA LEU ASP SEQRES 4 A 346 TYR GLY ALA ASP ILE VAL TYR CSO GLU GLU LEU ILE ASP SEQRES 5 A 346 LEU LYS MET ILE GLN CYS LYS ARG VAL VAL ASN GLU VAL SEQRES 6 A 346 LEU SER THR VAL ASP PHE VAL ALA PRO ASP ASP ARG VAL SEQRES 7 A 346 VAL PHE ARG THR CYS GLU ARG GLU GLN ASN ARG VAL VAL SEQRES 8 A 346 PHE GLN MET GLY THR SER ASP ALA GLU ARG ALA LEU ALA SEQRES 9 A 346 VAL ALA ARG LEU VAL GLU ASN ASP VAL ALA GLY ILE ASP SEQRES 10 A 346 VAL ASN MET GLY CYS PRO LYS GLN TYR SER THR LYS GLY SEQRES 11 A 346 GLY MET GLY ALA ALA LEU LEU SER ASP PRO ASP LYS ILE SEQRES 12 A 346 GLU LYS ILE LEU SER THR LEU VAL LYS GLY THR ARG ARG SEQRES 13 A 346 PRO VAL THR CYS LYS ILE ARG ILE LEU PRO SER LEU GLU SEQRES 14 A 346 ASP THR LEU SER LEU VAL LYS ARG ILE GLU ARG THR GLY SEQRES 15 A 346 ILE ALA ALA ILE ALA VAL HIS GLY ARG LYS ARG GLU GLU SEQRES 16 A 346 ARG PRO GLN HIS PRO VAL SER CYS GLU VAL ILE LYS ALA SEQRES 17 A 346 ILE ALA ASP THR LEU SER ILE PRO VAL ILE ALA ASN GLY SEQRES 18 A 346 GLY SER HIS ASP HIS ILE GLN GLN TYR SER ASP ILE GLU SEQRES 19 A 346 ASP PHE ARG GLN ALA THR ALA ALA SER SER VAL MET VAL SEQRES 20 A 346 ALA ARG ALA ALA MET TRP ASN PRO SER ILE PHE LEU LYS SEQRES 21 A 346 GLU GLY LEU ARG PRO LEU GLU GLU VAL MET GLN LYS TYR SEQRES 22 A 346 ILE ARG TYR ALA VAL GLN TYR ASP ASN HIS TYR THR ASN SEQRES 23 A 346 THR LYS TYR CYS LEU CYS GLN MET LEU ARG GLU GLN LEU SEQRES 24 A 346 GLU SER PRO GLN GLY ARG LEU LEU HIS ALA ALA GLN SER SEQRES 25 A 346 SER ARG GLU ILE CYS GLU ALA PHE GLY LEU GLY ALA PHE SEQRES 26 A 346 TYR GLU GLU THR THR GLN GLU LEU ASP ALA GLN GLN ALA SEQRES 27 A 346 ARG LEU SER ALA LYS THR SER GLU MODRES 4XP7 CSO A 41 CYS MODIFIED RESIDUE HET CSO A 41 13 HET FNR A 401 31 HETNAM CSO S-HYDROXYCYSTEINE HETNAM FNR 1-DEOXY-1-(7,8-DIMETHYL-2,4-DIOXO-3,4-DIHYDRO-2H- HETNAM 2 FNR BENZO[G]PTERIDIN-1-ID-10(5H)-YL)-5-O-PHOSPHONATO-D- HETNAM 3 FNR RIBITOL HETSYN FNR TWO ELECTRON REDUCED FLAVIN MONONUCLEOTIDE FORMUL 1 CSO C3 H7 N O3 S FORMUL 2 FNR C17 H23 N4 O9 P FORMUL 3 HOH *194(H2 O) HELIX 1 AA1 THR A 24 TYR A 34 1 11 HELIX 2 AA2 ASP A 46 ILE A 50 1 5 HELIX 3 AA3 CYS A 77 GLN A 81 5 5 HELIX 4 AA4 ASP A 92 GLU A 104 1 13 HELIX 5 AA5 ASN A 105 VAL A 107 5 3 HELIX 6 AA6 ALA A 129 SER A 132 5 4 HELIX 7 AA7 ASP A 133 THR A 148 1 16 HELIX 8 AA8 SER A 161 ARG A 174 1 14 HELIX 9 AA9 SER A 196 LEU A 207 1 12 HELIX 10 AB1 GLN A 223 ALA A 235 1 13 HELIX 11 AB2 ALA A 242 ASN A 248 1 7 HELIX 12 AB3 PRO A 249 LEU A 253 5 5 HELIX 13 AB4 PRO A 259 TYR A 274 1 16 HELIX 14 AB5 HIS A 277 LEU A 289 1 13 HELIX 15 AB6 SER A 295 ALA A 304 1 10 HELIX 16 AB7 SER A 306 PHE A 314 1 9 HELIX 17 AB8 LEU A 316 LEU A 334 1 19 HELIX 18 AB9 SER A 335 SER A 339 5 5 SHEET 1 AA110 LEU A 44 ILE A 45 0 SHEET 2 AA110 VAL A 84 GLY A 89 1 O GLY A 89 N LEU A 44 SHEET 3 AA110 GLY A 109 ASN A 113 1 O ASP A 111 N PHE A 86 SHEET 4 AA110 VAL A 152 ILE A 158 1 O THR A 153 N ILE A 110 SHEET 5 AA110 ALA A 179 LYS A 186 1 O HIS A 183 N ILE A 156 SHEET 6 AA110 VAL A 211 ASN A 214 1 O ILE A 212 N VAL A 182 SHEET 7 AA110 SER A 238 VAL A 241 1 O SER A 238 N ALA A 213 SHEET 8 AA110 LEU A 14 LEU A 16 1 N ILE A 15 O VAL A 241 SHEET 9 AA110 ILE A 38 TYR A 40 1 O ILE A 38 N LEU A 16 SHEET 10 AA110 VAL A 84 GLY A 89 1 O VAL A 85 N VAL A 39 SHEET 1 AA2 3 LYS A 53 ASN A 57 0 SHEET 2 AA2 3 THR A 62 VAL A 66 -1 O ASP A 64 N VAL A 55 SHEET 3 AA2 3 VAL A 72 THR A 76 -1 O PHE A 74 N PHE A 65 LINK C TYR A 40 N ACSO A 41 1555 1555 1.33 LINK C TYR A 40 N BCSO A 41 1555 1555 1.33 LINK C ACSO A 41 N GLU A 42 1555 1555 1.34 LINK C BCSO A 41 N GLU A 42 1555 1555 1.33 SITE 1 AC1 17 ALA A 17 PRO A 18 MET A 19 VAL A 20 SITE 2 AC1 17 GLU A 43 GLN A 87 ASN A 113 LYS A 155 SITE 3 AC1 17 HIS A 183 ASN A 214 GLY A 215 GLY A 216 SITE 4 AC1 17 SER A 217 ALA A 242 ARG A 243 HOH A 520 SITE 5 AC1 17 HOH A 586 CRYST1 46.252 49.562 69.612 90.00 95.71 90.00 P 1 21 1 2 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 0.021621 0.000000 0.002163 0.00000 SCALE2 0.000000 0.020177 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014437 0.00000