HEADER HYDROLASE 16-JAN-07 2OKE TITLE HIGH RESOLUTION CRYSTAL STRUCTURES OF VACCINIA VIRUS DUTPASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYURIDINE 5'-TRIPHOSPHATE NUCLEOTIDOHYDROLASE; COMPND 3 CHAIN: A, B, C; 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: VACCINIA VIRUS; SOURCE 3 ORGANISM_TAXID: 10245; SOURCE 4 GENE: DUT; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)PLYSS; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS FOLD, JELLY-ROLL, SUPERFAMILY, DUTPASE-LIKE, FORMS TIGHT TRIMER KEYWDS 2 THROUGH AN ADDITIONAL BETA-SHEET IN EACH SUBUNIT, SUBUNIT BETA- KEYWDS 3 SHEETS ARE ORTHOGONALLY PACKED AROUND THE THREE-FOLD AXIS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR N.SCHORMANN,D.CHATTOPADHYAY REVDAT 4 30-AUG-23 2OKE 1 REMARK REVDAT 3 20-OCT-21 2OKE 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 2OKE 1 VERSN REVDAT 1 01-MAY-07 2OKE 0 JRNL AUTH A.SAMAL,N.SCHORMANN,W.J.COOK,L.J.DELUCAS,D.CHATTOPADHYAY JRNL TITL STRUCTURES OF VACCINIA VIRUS DUTPASE AND ITS NUCLEOTIDE JRNL TITL 2 COMPLEXES. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 63 571 2007 JRNL REFN ISSN 0907-4449 JRNL PMID 17452782 JRNL DOI 10.1107/S0907444907007871 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.3.0011 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) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 13.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 13164 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) : 0.222 REMARK 3 R VALUE (WORKING SET) : 0.220 REMARK 3 FREE R VALUE : 0.274 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 694 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) : 2.50 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.56 REMARK 3 REFLECTION IN BIN (WORKING SET) : 910 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.86 REMARK 3 BIN R VALUE (WORKING SET) : 0.2950 REMARK 3 BIN FREE R VALUE SET COUNT : 52 REMARK 3 BIN FREE R VALUE : 0.3790 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2889 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 90 REMARK 3 SOLVENT ATOMS : 120 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : UNVERIFIED REMARK 3 FROM WILSON PLOT (A**2) : 27.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.37 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.31000 REMARK 3 B22 (A**2) : 0.31000 REMARK 3 B33 (A**2) : -0.46000 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): 1.148 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.344 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.268 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 22.307 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.912 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.854 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3039 ; 0.006 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4124 ; 1.058 ; 2.018 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 366 ; 4.990 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 135 ;33.093 ;23.333 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 504 ;14.787 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 27 ;18.825 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 438 ; 0.060 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2289 ; 0.003 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1273 ; 0.180 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2029 ; 0.308 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 187 ; 0.151 ; 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): 34 ; 0.145 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 3 ; 0.097 ; 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): 1878 ; 0.217 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2958 ; 0.399 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1314 ; 0.663 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1166 ; 1.240 ; 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 : 3 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 9 A 131 REMARK 3 ORIGIN FOR THE GROUP (A): -0.576 -34.88 -34.8830 REMARK 3 T TENSOR REMARK 3 T11: -0.0585 T22: 0.0826 REMARK 3 T33: 0.1395 T12: -0.0686 REMARK 3 T13: 0.0041 T23: -0.0245 REMARK 3 L TENSOR REMARK 3 L11: 1.4588 L22: 1.1011 REMARK 3 L33: 1.2101 L12: 0.2105 REMARK 3 L13: 0.0039 L23: 0.4737 REMARK 3 S TENSOR REMARK 3 S11: 0.0356 S12: 0.0306 S13: -0.0663 REMARK 3 S21: -0.2656 S22: 0.0816 S23: 0.0083 REMARK 3 S31: 0.0339 S32: -0.1529 S33: 0.2209 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 : B 9 B 131 REMARK 3 ORIGIN FOR THE GROUP (A): NULL NULL NULL REMARK 3 T TENSOR REMARK 3 T11: -0.0330 T22: -0.0004 REMARK 3 T33: 0.1465 T12: 0.0170 REMARK 3 T13: 0.0029 T23: -0.0146 REMARK 3 L TENSOR REMARK 3 L11: 2.4983 L22: 0.7237 REMARK 3 L33: 1.1257 L12: -0.1300 REMARK 3 L13: -0.1888 L23: -0.0120 REMARK 3 S TENSOR REMARK 3 S11: -0.0350 S12: -0.0277 S13: 0.0627 REMARK 3 S21: 0.0752 S22: -0.0925 S23: 0.0829 REMARK 3 S31: 0.0142 S32: 0.0206 S33: 0.0739 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 : C 9 C 131 REMARK 3 ORIGIN FOR THE GROUP (A): NULL NULL NULL REMARK 3 T TENSOR REMARK 3 T11: -0.0234 T22: -0.0010 REMARK 3 T33: 0.1700 T12: -0.0067 REMARK 3 T13: -0.0019 T23: -0.0169 REMARK 3 L TENSOR REMARK 3 L11: 1.6454 L22: 0.1347 REMARK 3 L33: 1.4077 L12: -0.0589 REMARK 3 L13: -0.8472 L23: 0.1253 REMARK 3 S TENSOR REMARK 3 S11: -0.0226 S12: -0.0274 S13: 0.0501 REMARK 3 S21: 0.0827 S22: -0.1214 S23: -0.0456 REMARK 3 S31: -0.0235 S32: -0.0310 S33: 0.1468 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 2OKE COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-JAN-07. REMARK 100 THE DEPOSITION ID IS D_1000041245. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-FEB-06 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 7.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : GRAPHITE REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : D*TREK REMARK 200 DATA SCALING SOFTWARE : D*TREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 14156 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.500 REMARK 200 RESOLUTION RANGE LOW (A) : 19.720 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.3 REMARK 200 DATA REDUNDANCY : 2.800 REMARK 200 R MERGE (I) : 0.13200 REMARK 200 R SYM (I) : 0.13200 REMARK 200 FOR THE DATA SET : 5.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.59 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.60 REMARK 200 R MERGE FOR SHELL (I) : 0.34600 REMARK 200 R SYM FOR SHELL (I) : 0.34600 REMARK 200 FOR SHELL : 2.700 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: PDB ENTRY 2OKD REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 42.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.14 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG2000 MME, 0.1M TRIS, PH 7.0, REMARK 280 VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K, PH 7.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 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 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 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 33.40000 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 16.70000 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 25.05000 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 8.35000 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 41.75000 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 ASYMMETRIC UNIT CONTAINS A HOMO-TRIMER WITH MONOMERS REMARK 300 RELATED BY NON-CRYSTALLOGRAPHIC SYMMETRY. THIS HOMO-TRIMER REMARK 300 CONSTITUTES THE BIOLOGICAL ASSEMBLY. 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 REMARK 350 TOTAL BURIED SURFACE AREA: 11110 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15330 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -42.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 1 REMARK 465 PHE A 2 REMARK 465 ASN A 3 REMARK 465 MET A 4 REMARK 465 ASN A 5 REMARK 465 ILE A 6 REMARK 465 ASN A 7 REMARK 465 SER A 8 REMARK 465 ASP A 132 REMARK 465 SER A 133 REMARK 465 THR A 134 REMARK 465 ASN A 135 REMARK 465 ARG A 136 REMARK 465 GLY A 137 REMARK 465 ASP A 138 REMARK 465 GLN A 139 REMARK 465 GLY A 140 REMARK 465 PHE A 141 REMARK 465 GLY A 142 REMARK 465 SER A 143 REMARK 465 THR A 144 REMARK 465 GLY A 145 REMARK 465 LEU A 146 REMARK 465 ARG A 147 REMARK 465 MET B 1 REMARK 465 PHE B 2 REMARK 465 ASN B 3 REMARK 465 MET B 4 REMARK 465 ASN B 5 REMARK 465 ILE B 6 REMARK 465 ASN B 7 REMARK 465 SER B 8 REMARK 465 ASP B 132 REMARK 465 SER B 133 REMARK 465 THR B 134 REMARK 465 ASN B 135 REMARK 465 ARG B 136 REMARK 465 GLY B 137 REMARK 465 ASP B 138 REMARK 465 GLN B 139 REMARK 465 GLY B 140 REMARK 465 PHE B 141 REMARK 465 GLY B 142 REMARK 465 SER B 143 REMARK 465 THR B 144 REMARK 465 GLY B 145 REMARK 465 LEU B 146 REMARK 465 ARG B 147 REMARK 465 MET C 1 REMARK 465 PHE C 2 REMARK 465 ASN C 3 REMARK 465 MET C 4 REMARK 465 ASN C 5 REMARK 465 ILE C 6 REMARK 465 ASN C 7 REMARK 465 SER C 8 REMARK 465 ASP C 132 REMARK 465 SER C 133 REMARK 465 THR C 134 REMARK 465 ASN C 135 REMARK 465 ARG C 136 REMARK 465 GLY C 137 REMARK 465 ASP C 138 REMARK 465 GLN C 139 REMARK 465 GLY C 140 REMARK 465 PHE C 141 REMARK 465 GLY C 142 REMARK 465 SER C 143 REMARK 465 THR C 144 REMARK 465 GLY C 145 REMARK 465 LEU C 146 REMARK 465 ARG C 147 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 ASN A 17 6.06 -69.24 REMARK 500 TYR B 122 77.10 -112.22 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 300 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN B 25 OE1 REMARK 620 2 HOH B 333 O 135.9 REMARK 620 3 DUP C 202 O1G 77.0 138.3 REMARK 620 4 DUP C 202 N3A 91.8 125.6 61.4 REMARK 620 5 DUP C 202 O1B 146.7 74.6 85.3 54.9 REMARK 620 N 1 2 3 4 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 300 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DUP A 200 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DUP B 201 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DUP C 202 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO C 401 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2OKD RELATED DB: PDB REMARK 900 APO-ENZYME OF VACCINIA VIRUS DUTPASE REMARK 900 RELATED ID: 2OKB RELATED DB: PDB REMARK 900 N-TERMINALLY TRUNCATED VERSION OF VACCINIA VIRUS DUTPASE REMARK 900 RELATED ID: 2OL1 RELATED DB: PDB REMARK 900 HIGH RESOLUTION CRYSTAL STRUCTURES OF VACCINIA VIRUS DUTPASE REMARK 900 RELATED ID: 2OL0 RELATED DB: PDB REMARK 900 HIGH RESOLUTION CRYSTAL STRUCTURES OF VACCINIA VIRUS DUTPASE DBREF 2OKE A 1 147 GB 29692147 AAO89320 1 147 DBREF 2OKE B 1 147 GB 29692147 AAO89320 1 147 DBREF 2OKE C 1 147 GB 29692147 AAO89320 1 147 SEQADV 2OKE GLY A 28 UNP 29692147 PHE 28 ENGINEERED MUTATION SEQADV 2OKE GLY B 28 UNP 29692147 PHE 28 ENGINEERED MUTATION SEQADV 2OKE GLY C 28 UNP 29692147 PHE 28 ENGINEERED MUTATION SEQRES 1 A 147 MET PHE ASN MET ASN ILE ASN SER PRO VAL ARG PHE VAL SEQRES 2 A 147 LYS GLU THR ASN ARG ALA LYS SER PRO THR ARG GLN SER SEQRES 3 A 147 PRO GLY ALA ALA GLY TYR ASP LEU TYR SER ALA TYR ASP SEQRES 4 A 147 TYR THR ILE PRO PRO GLY GLU ARG GLN LEU ILE LYS THR SEQRES 5 A 147 ASP ILE SER MET SER MET PRO LYS PHE CYS TYR GLY ARG SEQRES 6 A 147 ILE ALA PRO ARG SER GLY LEU SER LEU LYS GLY ILE ASP SEQRES 7 A 147 ILE GLY GLY GLY VAL ILE ASP GLU ASP TYR ARG GLY ASN SEQRES 8 A 147 ILE GLY VAL ILE LEU ILE ASN ASN GLY LYS CYS THR PHE SEQRES 9 A 147 ASN VAL ASN THR GLY ASP ARG ILE ALA GLN LEU ILE TYR SEQRES 10 A 147 GLN ARG ILE TYR TYR PRO GLU LEU GLU GLU VAL GLN SER SEQRES 11 A 147 LEU ASP SER THR ASN ARG GLY ASP GLN GLY PHE GLY SER SEQRES 12 A 147 THR GLY LEU ARG SEQRES 1 B 147 MET PHE ASN MET ASN ILE ASN SER PRO VAL ARG PHE VAL SEQRES 2 B 147 LYS GLU THR ASN ARG ALA LYS SER PRO THR ARG GLN SER SEQRES 3 B 147 PRO GLY ALA ALA GLY TYR ASP LEU TYR SER ALA TYR ASP SEQRES 4 B 147 TYR THR ILE PRO PRO GLY GLU ARG GLN LEU ILE LYS THR SEQRES 5 B 147 ASP ILE SER MET SER MET PRO LYS PHE CYS TYR GLY ARG SEQRES 6 B 147 ILE ALA PRO ARG SER GLY LEU SER LEU LYS GLY ILE ASP SEQRES 7 B 147 ILE GLY GLY GLY VAL ILE ASP GLU ASP TYR ARG GLY ASN SEQRES 8 B 147 ILE GLY VAL ILE LEU ILE ASN ASN GLY LYS CYS THR PHE SEQRES 9 B 147 ASN VAL ASN THR GLY ASP ARG ILE ALA GLN LEU ILE TYR SEQRES 10 B 147 GLN ARG ILE TYR TYR PRO GLU LEU GLU GLU VAL GLN SER SEQRES 11 B 147 LEU ASP SER THR ASN ARG GLY ASP GLN GLY PHE GLY SER SEQRES 12 B 147 THR GLY LEU ARG SEQRES 1 C 147 MET PHE ASN MET ASN ILE ASN SER PRO VAL ARG PHE VAL SEQRES 2 C 147 LYS GLU THR ASN ARG ALA LYS SER PRO THR ARG GLN SER SEQRES 3 C 147 PRO GLY ALA ALA GLY TYR ASP LEU TYR SER ALA TYR ASP SEQRES 4 C 147 TYR THR ILE PRO PRO GLY GLU ARG GLN LEU ILE LYS THR SEQRES 5 C 147 ASP ILE SER MET SER MET PRO LYS PHE CYS TYR GLY ARG SEQRES 6 C 147 ILE ALA PRO ARG SER GLY LEU SER LEU LYS GLY ILE ASP SEQRES 7 C 147 ILE GLY GLY GLY VAL ILE ASP GLU ASP TYR ARG GLY ASN SEQRES 8 C 147 ILE GLY VAL ILE LEU ILE ASN ASN GLY LYS CYS THR PHE SEQRES 9 C 147 ASN VAL ASN THR GLY ASP ARG ILE ALA GLN LEU ILE TYR SEQRES 10 C 147 GLN ARG ILE TYR TYR PRO GLU LEU GLU GLU VAL GLN SER SEQRES 11 C 147 LEU ASP SER THR ASN ARG GLY ASP GLN GLY PHE GLY SER SEQRES 12 C 147 THR GLY LEU ARG HET CL A 301 1 HET DUP A 200 28 HET MG B 300 1 HET DUP B 201 28 HET DUP C 202 28 HET EDO C 401 4 HETNAM CL CHLORIDE ION HETNAM DUP 2'-DEOXYURIDINE 5'-ALPHA,BETA-IMIDO-TRIPHOSPHATE HETNAM MG MAGNESIUM ION HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 4 CL CL 1- FORMUL 5 DUP 3(C9 H16 N3 O13 P3) FORMUL 6 MG MG 2+ FORMUL 9 EDO C2 H6 O2 FORMUL 10 HOH *120(H2 O) HELIX 1 1 ARG A 69 LYS A 75 1 7 HELIX 2 2 ARG B 69 LYS B 75 1 7 HELIX 3 3 ARG C 69 LYS C 75 1 7 SHEET 1 A 3 ILE A 54 MET A 56 0 SHEET 2 A 3 VAL A 10 LYS A 14 -1 N VAL A 13 O SER A 55 SHEET 3 A 3 LEU B 125 GLU B 127 1 O GLU B 126 N PHE A 12 SHEET 1 B 4 TYR A 32 TYR A 35 0 SHEET 2 B 4 ARG A 111 ARG A 119 -1 O LEU A 115 N TYR A 32 SHEET 3 B 4 ARG B 111 TYR B 121 -1 O TYR B 121 N TYR A 117 SHEET 4 B 4 TYR B 32 TYR B 35 -1 N TYR B 32 O LEU B 115 SHEET 1 C 6 VAL A 83 ILE A 84 0 SHEET 2 C 6 CYS A 62 ALA A 67 -1 N GLY A 64 O ILE A 84 SHEET 3 C 6 ARG A 111 ARG A 119 -1 O GLN A 114 N ALA A 67 SHEET 4 C 6 ARG B 111 TYR B 121 -1 O TYR B 121 N TYR A 117 SHEET 5 C 6 CYS B 62 ALA B 67 -1 N ALA B 67 O GLN B 114 SHEET 6 C 6 VAL B 83 ILE B 84 -1 O ILE B 84 N GLY B 64 SHEET 1 D 2 TYR A 40 ILE A 42 0 SHEET 2 D 2 PHE A 104 VAL A 106 -1 O PHE A 104 N ILE A 42 SHEET 1 E 3 ARG A 47 LYS A 51 0 SHEET 2 E 3 GLY A 93 ASN A 98 -1 O VAL A 94 N ILE A 50 SHEET 3 E 3 ILE A 77 GLY A 80 -1 N ASP A 78 O ILE A 97 SHEET 1 F 3 LEU A 125 GLU A 127 0 SHEET 2 F 3 VAL C 10 LYS C 14 1 O VAL C 10 N GLU A 126 SHEET 3 F 3 ILE C 54 SER C 57 -1 O SER C 55 N VAL C 13 SHEET 1 G 3 ILE B 54 MET B 56 0 SHEET 2 G 3 VAL B 10 LYS B 14 -1 N VAL B 13 O SER B 55 SHEET 3 G 3 LEU C 125 GLU C 127 1 O GLU C 126 N VAL B 10 SHEET 1 H 2 TYR B 40 ILE B 42 0 SHEET 2 H 2 PHE B 104 VAL B 106 -1 O VAL B 106 N TYR B 40 SHEET 1 I 3 GLU B 46 LYS B 51 0 SHEET 2 I 3 GLY B 93 ASN B 98 -1 O LEU B 96 N GLN B 48 SHEET 3 I 3 ILE B 77 GLY B 80 -1 N GLY B 80 O ILE B 95 SHEET 1 J 4 TYR C 32 TYR C 35 0 SHEET 2 J 4 ARG C 111 ARG C 119 -1 O LEU C 115 N TYR C 32 SHEET 3 J 4 CYS C 62 ALA C 67 -1 N ARG C 65 O ILE C 116 SHEET 4 J 4 VAL C 83 ILE C 84 -1 O ILE C 84 N GLY C 64 SHEET 1 K 2 TYR C 40 ILE C 42 0 SHEET 2 K 2 PHE C 104 VAL C 106 -1 O PHE C 104 N ILE C 42 SHEET 1 L 3 GLU C 46 LYS C 51 0 SHEET 2 L 3 GLY C 93 ASN C 98 -1 O VAL C 94 N ILE C 50 SHEET 3 L 3 ILE C 77 GLY C 80 -1 N ASP C 78 O ILE C 97 LINK OE1 GLN B 25 MG MG B 300 1555 1555 2.49 LINK MG MG B 300 O HOH B 333 1555 1555 3.15 LINK MG MG B 300 O1G DUP C 202 1555 1555 2.35 LINK MG MG B 300 N3A DUP C 202 1555 1555 2.85 LINK MG MG B 300 O1B DUP C 202 1555 1555 2.77 SITE 1 AC1 2 GLN B 25 DUP C 202 SITE 1 AC2 5 TYR A 63 GLN A 118 GLN B 118 ARG C 65 SITE 2 AC2 5 GLN C 118 SITE 1 AC3 16 GLY A 80 GLY A 82 VAL A 83 ILE A 84 SITE 2 AC3 16 ASP A 85 TYR A 88 ASN A 91 GLY A 93 SITE 3 AC3 16 HOH A 309 HOH A 330 GLU B 46 ARG C 69 SITE 4 AC3 16 SER C 70 ARG C 111 HOH C 441 HOH C 444 SITE 1 AC4 14 ARG A 69 SER A 70 GLY A 71 GLN A 114 SITE 2 AC4 14 GLY B 82 VAL B 83 ILE B 84 ASP B 85 SITE 3 AC4 14 TYR B 88 ASN B 91 GLY B 93 HOH B 302 SITE 4 AC4 14 HOH B 319 HOH B 345 SITE 1 AC5 16 GLN B 25 ASP B 33 ARG B 69 SER B 70 SITE 2 AC5 16 ARG B 111 GLN B 114 MG B 300 GLY C 82 SITE 3 AC5 16 VAL C 83 ILE C 84 ASP C 85 TYR C 88 SITE 4 AC5 16 GLY C 93 ILE C 95 HOH C 405 HOH C 443 SITE 1 AC6 5 ASN B 99 ARG C 47 ILE C 97 ASN C 99 SITE 2 AC6 5 HOH C 424 CRYST1 120.460 120.460 50.100 90.00 90.00 120.00 P 65 18 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 0.008302 0.004793 0.000000 0.00000 SCALE2 0.000000 0.009586 0.000000 0.00000 SCALE3 0.000000 0.000000 0.019960 0.00000