HEADER HYDROLASE 20-JUL-06 2HRM TITLE CRYSTAL STRUCTURE OF DUTPASE COMPLEXED WITH SUBSTRATE ANALOGUE TITLE 2 METHYLENE-DUTP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYURIDINE 5'-TRIPHOSPHATE NUCLEOTIDOHYDROLASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: DUTPASE, DUTP PYROPHOSPHATASE; COMPND 5 EC: 3.6.1.23; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 GENE: DUT; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B KEYWDS JELLY ROLL, ENZYME-SUBSTRATE ANALOGUE LIGAND COMPLEX, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR O.BARABAS,J.KOVARI,R.TAPAI,B.G.VERTESSY REVDAT 6 30-AUG-23 2HRM 1 REMARK SEQADV REVDAT 5 24-JAN-18 2HRM 1 AUTHOR JRNL REVDAT 4 13-JUL-11 2HRM 1 VERSN REVDAT 3 24-FEB-09 2HRM 1 VERSN REVDAT 2 11-MAR-08 2HRM 1 JRNL REVDAT 1 31-JUL-07 2HRM 0 JRNL AUTH J.KOVARI,O.BARABAS,B.VARGA,A.BEKESI,F.TOLGYESI,J.FIDY, JRNL AUTH 2 J.NAGY,B.G.VERTESSY JRNL TITL METHYLENE SUBSTITUTION AT THE ALPHA-BETA BRIDGING POSITION JRNL TITL 2 WITHIN THE PHOSPHATE CHAIN OF DUDP PROFOUNDLY PERTURBS JRNL TITL 3 LIGAND ACCOMMODATION INTO THE DUTPASE ACTIVE SITE. JRNL REF PROTEINS V. 71 308 2008 JRNL REFN ISSN 0887-3585 JRNL PMID 17932923 JRNL DOI 10.1002/PROT.21757 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH O.BARABAS,V.PONGRACZ,J.KOVARI,M.WILMANNS,B.G.VERTESSY REMARK 1 TITL STRUCTURAL INSIGHTS INTO THE CATALYTIC MECHANISM OF REMARK 1 TITL 2 PHOSPHATE ESTER HYDROLYSIS BY DUTPASE. REMARK 1 REF J.BIOL.CHEM. V. 279 42907 2004 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 15208312 REMARK 1 DOI 10.1074/JBC.M406135200 REMARK 1 REFERENCE 2 REMARK 1 AUTH A.GONZALEZ,G.LARSSON,R.PERSSON,E.CEDERGREN-ZEPPEZAUER REMARK 1 TITL ATOMIC RESOLUTION STRUCTURE OF ESCHERICHIA COLI DUTPASE REMARK 1 TITL 2 DETERMINED AB INITIO REMARK 1 REF ACTA CRYSTALLOGR.,SECT.D V. 57 767 2001 REMARK 1 REFN ISSN 0907-4449 REMARK 1 PMID 11375495 REMARK 1 DOI 10.1107/S0907444901004255 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 18283 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 : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 987 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) : 1.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.75 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1325 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.57 REMARK 3 BIN R VALUE (WORKING SET) : 0.2640 REMARK 3 BIN FREE R VALUE SET COUNT : 68 REMARK 3 BIN FREE R VALUE : 0.2620 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1012 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 28 REMARK 3 SOLVENT ATOMS : 136 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : 28.27 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.05 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.02000 REMARK 3 B12 (A**2) : -0.01000 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): 0.088 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.087 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.063 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.355 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.967 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.962 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1099 ; 0.019 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1050 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1509 ; 1.677 ; 2.011 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2439 ; 0.861 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 147 ; 5.482 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 39 ;40.746 ;25.128 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 178 ;12.259 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 4 ;20.198 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 181 ; 0.112 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1207 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 196 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 125 ; 0.190 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 880 ; 0.182 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 478 ; 0.158 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 591 ; 0.081 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 69 ; 0.173 ; 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): 8 ; 0.135 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 63 ; 0.213 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 13 ; 0.170 ; 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): 736 ; 1.702 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 286 ; 0.116 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1137 ; 2.926 ; 6.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 425 ; 5.330 ;10.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 366 ; 6.903 ;20.000 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 137 REMARK 3 RESIDUE RANGE : A 777 A 777 REMARK 3 ORIGIN FOR THE GROUP (A): 27.5011 15.8307 4.9283 REMARK 3 T TENSOR REMARK 3 T11: -0.0331 T22: -0.0276 REMARK 3 T33: -0.0179 T12: 0.0056 REMARK 3 T13: -0.0027 T23: -0.0299 REMARK 3 L TENSOR REMARK 3 L11: 0.6900 L22: 0.8166 REMARK 3 L33: 0.3262 L12: 0.3476 REMARK 3 L13: 0.0289 L23: 0.0508 REMARK 3 S TENSOR REMARK 3 S11: -0.0312 S12: 0.0368 S13: -0.0444 REMARK 3 S21: -0.0241 S22: -0.0454 S23: 0.0599 REMARK 3 S31: 0.0226 S32: -0.0542 S33: 0.0766 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 REMARK 4 REMARK 4 2HRM COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 26-JUL-06. REMARK 100 THE DEPOSITION ID IS D_1000038681. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : EMBL/DESY, HAMBURG REMARK 200 BEAMLINE : BW7B REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.8500 REMARK 200 MONOCHROMATOR : SI [111] REMARK 200 OPTICS : MIRROR 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 : 19276 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 3.160 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04800 REMARK 200 FOR THE DATA SET : 14.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 3.19 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.45700 REMARK 200 FOR SHELL : 2.400 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: 1EUW REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.17 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.2M SODIUM ACETATE, REMARK 280 0.1M TRIS, PH 7.8, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE REMARK 280 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 7555 Y,X,-Z REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z REMARK 290 10555 -Y,-X,-Z+1/2 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+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 -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 0.00000 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 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 50.77900 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 50.77900 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 50.77900 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 50.77900 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 50.77900 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 50.77900 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: THE BIOLOGICAL ASSEMBLY IS A TRIMER GENERATED FROM THE REMARK 300 MONOMER IN THE ASYMMETRIC UNIT BY THE OPERATIONS: 1-Y,1+X-Y,Z AND - REMARK 300 X+Y,1-X,Z 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 12570 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15660 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 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 350 BIOMT1 2 -0.500000 -0.866025 0.000000 75.65000 REMARK 350 BIOMT2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -0.500000 0.866025 0.000000 37.82500 REMARK 350 BIOMT2 3 -0.866025 -0.500000 0.000000 65.51482 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 875 LIES ON A SPECIAL POSITION. 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 ALA A 138 REMARK 465 THR A 139 REMARK 465 ASP A 140 REMARK 465 ARG A 141 REMARK 465 GLY A 142 REMARK 465 GLU A 143 REMARK 465 GLY A 144 REMARK 465 GLY A 145 REMARK 465 PHE A 146 REMARK 465 GLY A 147 REMARK 465 HIS A 148 REMARK 465 SER A 149 REMARK 465 GLY A 150 REMARK 465 ARG A 151 REMARK 465 GLN A 152 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 MET A 1 CG SD CE REMARK 470 LYS A 4 CD CE NZ REMARK 470 LYS A 8 NZ REMARK 470 LYS A 16 CE NZ REMARK 470 LYS A 77 CD CE NZ REMARK 470 GLU A 115 OE1 OE2 REMARK 470 ARG A 116 CZ NH1 NH2 REMARK 470 GLU A 134 CD OE1 OE2 REMARK 470 ASP A 137 CG OD1 OD2 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 LYS A 16 -100.77 -129.34 REMARK 500 ALA A 60 -31.07 71.50 REMARK 500 LEU A 85 -55.45 72.16 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 UC5 A 777 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2HR6 RELATED DB: PDB REMARK 900 DUTPASE IN COMPLEX WITH SUBSTRATE ANALOGUE DUDP AND MANGANESE DBREF 2HRM A 2 152 UNP P06968 DUT_ECOLI 1 151 SEQADV 2HRM MET A 1 UNP P06968 CLONING ARTIFACT SEQRES 1 A 152 MET MET LYS LYS ILE ASP VAL LYS ILE LEU ASP PRO ARG SEQRES 2 A 152 VAL GLY LYS GLU PHE PRO LEU PRO THR TYR ALA THR SER SEQRES 3 A 152 GLY SER ALA GLY LEU ASP LEU ARG ALA CYS LEU ASN ASP SEQRES 4 A 152 ALA VAL GLU LEU ALA PRO GLY ASP THR THR LEU VAL PRO SEQRES 5 A 152 THR GLY LEU ALA ILE HIS ILE ALA ASP PRO SER LEU ALA SEQRES 6 A 152 ALA MET MET LEU PRO ARG SER GLY LEU GLY HIS LYS HIS SEQRES 7 A 152 GLY ILE VAL LEU GLY ASN LEU VAL GLY LEU ILE ASP SER SEQRES 8 A 152 ASP TYR GLN GLY GLN LEU MET ILE SER VAL TRP ASN ARG SEQRES 9 A 152 GLY GLN ASP SER PHE THR ILE GLN PRO GLY GLU ARG ILE SEQRES 10 A 152 ALA GLN MET ILE PHE VAL PRO VAL VAL GLN ALA GLU PHE SEQRES 11 A 152 ASN LEU VAL GLU ASP PHE ASP ALA THR ASP ARG GLY GLU SEQRES 12 A 152 GLY GLY PHE GLY HIS SER GLY ARG GLN HET UC5 A 777 24 HET EDO A 301 4 HETNAM UC5 2'-DEOXY-5'-O-[(S)-HYDROXY(PHOSPHONOMETHYL) HETNAM 2 UC5 PHOSPHORYL]URIDINE HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 UC5 C10 H16 N2 O10 P2 FORMUL 3 EDO C2 H6 O2 FORMUL 4 HOH *136(H2 O) HELIX 1 1 ARG A 71 GLY A 79 1 9 SHEET 1 A 4 ASP A 6 ILE A 9 0 SHEET 2 A 4 THR A 48 HIS A 58 -1 O ALA A 56 N LYS A 8 SHEET 3 A 4 GLN A 96 ASN A 103 -1 O ILE A 99 N VAL A 51 SHEET 4 A 4 ILE A 80 LEU A 82 -1 N VAL A 81 O TRP A 102 SHEET 1 B 4 LEU A 31 ARG A 34 0 SHEET 2 B 4 ARG A 116 PRO A 124 -1 O ILE A 117 N LEU A 33 SHEET 3 B 4 LEU A 64 PRO A 70 -1 N LEU A 69 O GLN A 119 SHEET 4 B 4 GLY A 87 ILE A 89 -1 O ILE A 89 N ALA A 66 SHEET 1 C 2 VAL A 41 LEU A 43 0 SHEET 2 C 2 PHE A 109 ILE A 111 -1 O ILE A 111 N VAL A 41 SITE 1 AC1 14 ARG A 71 SER A 72 GLY A 73 ASN A 84 SITE 2 AC1 14 GLY A 87 LEU A 88 ILE A 89 ASP A 90 SITE 3 AC1 14 TYR A 93 MET A 98 HOH A 778 HOH A 786 SITE 4 AC1 14 HOH A 814 HOH A 820 SITE 1 AC2 3 HIS A 76 GLN A 106 ASP A 107 CRYST1 75.650 75.650 101.558 90.00 90.00 120.00 P 63 2 2 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 0.013219 0.007632 0.000000 0.00000 SCALE2 0.000000 0.015264 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009847 0.00000