HEADER HYDROLASE 02-MAY-03 1OGH TITLE STRUCTURE OF THE BIFUNCTIONAL DCTP DEAMINASE-DUTPASE FROM TITLE 2 METHANOCALDOCOCCUS JANNASCHII COMPND MOL_ID: 1; COMPND 2 MOLECULE: BIFUNCTIONAL DEAMINASE/DIPHOSPHATASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: MJDCD-DUT, DCD/DUT, (INCLUDES\: DEOXYCYTIDINE TRIPHOSPHATE COMPND 5 DEAMINASE, (DCTP DEAMINASE), DEOXYURIDINE 5'-TRIPHOSPHATE COMPND 6 NUCLEOTIDOHYDROLASE, (DUTPASE, DUTP PYROPHOSPHATASE)); COMPND 7 EC: 3.5.4.13, 3.6.1.23; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: METHANOCALDOCOCCUS JANNASCHII; SOURCE 3 ORGANISM_TAXID: 2190; SOURCE 4 ATCC: 43067; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET3A/MJ0430 KEYWDS BIFUNCTIONAL ENZYME, NUCLEOTIDE METABOLISM, DCTP DEAMINASE, DUTPASE, KEYWDS 2 HOMOTRIMER, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR E.JOHANSSON,O.BJORNBERG,P.O.NYMAN,S.LARSEN REVDAT 5 06-MAR-19 1OGH 1 REMARK REVDAT 4 17-JAN-18 1OGH 1 REMARK REVDAT 3 24-FEB-09 1OGH 1 VERSN REVDAT 2 24-JUL-03 1OGH 1 JRNL REVDAT 1 05-JUN-03 1OGH 0 JRNL AUTH E.JOHANSSON,O.BJORNBERG,P.O.NYMAN,S.LARSEN JRNL TITL STRUCTURE OF THE BIFUNCTIONAL DCTP DEAMINASE-DUTPASE FROM JRNL TITL 2 METHANOCALDOCOCCUS JANNASCHII AND ITS RELATION TO OTHER JRNL TITL 3 HOMOTRIMERIC DUTPASES JRNL REF J.BIOL.CHEM. V. 278 27916 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 12756253 JRNL DOI 10.1074/JBC.M304361200 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH O.BJORNBERG,J.NEUHARD,P.NYMAN REMARK 1 TITL A BIFUNCTIONAL DCTP DEAMINASE-DUTP NUCLEOTIDOHYDROLASE FROM REMARK 1 TITL 2 THE HYPERTHERMOPHILIC ARCHAEON METHANOCALDOCOCCUS JANNASCHII REMARK 1 REF J.BIOL.CHEM. V. 278 20667 2003 REMARK 1 REFN ISSN 0021-9258 REMARK 1 PMID 12670946 REMARK 1 DOI 10.1074/JBC.M213010200 REMARK 2 REMARK 2 RESOLUTION. 1.88 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.24 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) : 1.88 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.65 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 35449 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) : 0.148 REMARK 3 R VALUE (WORKING SET) : 0.147 REMARK 3 FREE R VALUE : 0.184 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1861 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) : 1.88 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.93 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2573 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1580 REMARK 3 BIN FREE R VALUE SET COUNT : 134 REMARK 3 BIN FREE R VALUE : 0.2190 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2879 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 398 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 15.66 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.110 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.108 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.061 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.009 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.946 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3020 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2772 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4095 ; 1.637 ; 1.969 REMARK 3 BOND ANGLES OTHERS (DEGREES): 6491 ; 0.926 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 354 ; 6.816 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): NULL ; NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 472 ; 0.176 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3249 ; 0.007 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 600 ; 0.003 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 498 ; 0.193 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3113 ; 0.243 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1874 ; 0.086 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 273 ; 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): 41 ; 0.363 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 222 ; 0.310 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 84 ; 0.295 ; 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): 1785 ; 1.020 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2942 ; 1.936 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1235 ; 2.947 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1153 ; 4.887 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : A B REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 35 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 A 1 A 1 4 REMARK 3 1 B 1 B 1 4 REMARK 3 2 A 3 A 4 4 REMARK 3 2 B 3 B 4 4 REMARK 3 3 A 6 A 6 6 REMARK 3 3 B 6 B 6 6 REMARK 3 4 A 7 A 8 4 REMARK 3 4 B 7 B 8 4 REMARK 3 5 A 9 A 9 6 REMARK 3 5 B 9 B 9 6 REMARK 3 6 A 10 A 19 4 REMARK 3 6 B 10 B 19 4 REMARK 3 7 A 20 A 20 6 REMARK 3 7 B 20 B 20 6 REMARK 3 8 A 21 A 22 4 REMARK 3 8 B 21 B 22 4 REMARK 3 9 A 23 A 25 6 REMARK 3 9 B 23 B 25 6 REMARK 3 10 A 26 A 40 4 REMARK 3 10 B 26 B 40 4 REMARK 3 11 A 42 A 42 6 REMARK 3 11 B 42 B 42 6 REMARK 3 12 A 44 A 44 6 REMARK 3 12 B 44 B 44 6 REMARK 3 13 A 45 A 47 5 REMARK 3 13 B 45 B 47 5 REMARK 3 14 A 48 A 48 6 REMARK 3 14 B 48 B 48 6 REMARK 3 15 A 49 A 50 4 REMARK 3 15 B 49 B 50 4 REMARK 3 16 A 52 A 52 5 REMARK 3 16 B 52 B 52 5 REMARK 3 17 A 53 A 53 6 REMARK 3 17 B 53 B 53 6 REMARK 3 18 A 54 A 55 5 REMARK 3 18 B 54 B 55 5 REMARK 3 19 A 57 A 57 4 REMARK 3 19 B 57 B 57 4 REMARK 3 20 A 58 A 59 6 REMARK 3 20 B 58 B 59 6 REMARK 3 21 A 60 A 61 4 REMARK 3 21 B 60 B 61 4 REMARK 3 22 A 62 A 63 6 REMARK 3 22 B 62 B 63 6 REMARK 3 23 A 64 A 72 4 REMARK 3 23 B 64 B 72 4 REMARK 3 24 A 73 A 73 5 REMARK 3 24 B 73 B 73 5 REMARK 3 25 A 74 A 86 4 REMARK 3 25 B 74 B 86 4 REMARK 3 26 A 87 A 87 6 REMARK 3 26 B 87 B 87 6 REMARK 3 27 A 88 A 89 4 REMARK 3 27 B 88 B 89 4 REMARK 3 28 A 91 A 95 4 REMARK 3 28 B 91 B 95 4 REMARK 3 29 A 97 A 121 4 REMARK 3 29 B 97 B 121 4 REMARK 3 30 A 122 A 122 6 REMARK 3 30 B 122 B 122 6 REMARK 3 31 A 123 A 125 4 REMARK 3 31 B 123 B 125 4 REMARK 3 32 A 127 A 150 4 REMARK 3 32 B 127 B 150 4 REMARK 3 33 A 151 A 151 6 REMARK 3 33 B 151 B 151 6 REMARK 3 34 A 152 A 173 4 REMARK 3 34 B 152 B 173 4 REMARK 3 35 A 300 A 395 4 REMARK 3 35 B 300 B 395 4 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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.THE FINAL 29 AND 23 RESIDUES FOR CHAINS A AND B REMARK 3 RESPECTIVELY WERE NOT SEEN IN THE ELECTRON DENSITY MAP. THE REMARK 3 FUNCTIONAL UNIT OF THE MODEL IS A HOMOTRIMER. THE TWO CHAINS REMARK 3 EACH GIVE RISE TO A HOMOTRIMER BY MEANS OF REMARK 4 REMARK 4 1OGH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 02-MAY-03. REMARK 100 THE DEPOSITION ID IS D_1290012689. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 18-NOV-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.50 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) : 1.098 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 37385 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.880 REMARK 200 RESOLUTION RANGE LOW (A) : 45.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 11.20 REMARK 200 R MERGE (I) : 0.04200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 52.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.88 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.92 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.13600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 21.00 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SIRAS REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3MG/ML PROTEIN VAPOUR DIFFUSION WITH REMARK 280 MOTHER LIQUOR: 5% PEG8000, 0.1 M TRIS-HCL, PH8.5, PH 8.50, VAPOR REMARK 280 DIFFUSION REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 3 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 5555 Z,X,Y REMARK 290 6555 Z+1/2,-X+1/2,-Y REMARK 290 7555 -Z+1/2,-X,Y+1/2 REMARK 290 8555 -Z,X+1/2,-Y+1/2 REMARK 290 9555 Y,Z,X REMARK 290 10555 -Y,Z+1/2,-X+1/2 REMARK 290 11555 Y+1/2,-Z+1/2,-X REMARK 290 12555 -Y+1/2,-Z,X+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 -1.000000 0.000000 0.000000 55.53000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 55.53000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 55.53000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 55.53000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 55.53000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 55.53000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY2 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY1 6 0.000000 0.000000 1.000000 55.53000 REMARK 290 SMTRY2 6 -1.000000 0.000000 0.000000 55.53000 REMARK 290 SMTRY3 6 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY1 7 0.000000 0.000000 -1.000000 55.53000 REMARK 290 SMTRY2 7 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 1.000000 0.000000 55.53000 REMARK 290 SMTRY1 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY2 8 1.000000 0.000000 0.000000 55.53000 REMARK 290 SMTRY3 8 0.000000 -1.000000 0.000000 55.53000 REMARK 290 SMTRY1 9 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 9 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY3 9 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 0.000000 1.000000 55.53000 REMARK 290 SMTRY3 10 -1.000000 0.000000 0.000000 55.53000 REMARK 290 SMTRY1 11 0.000000 1.000000 0.000000 55.53000 REMARK 290 SMTRY2 11 0.000000 0.000000 -1.000000 55.53000 REMARK 290 SMTRY3 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY1 12 0.000000 -1.000000 0.000000 55.53000 REMARK 290 SMTRY2 12 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY3 12 1.000000 0.000000 0.000000 55.53000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PQS 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 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT2 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT3 3 1.000000 0.000000 0.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 APPLY THE FOLLOWING TO CHAINS: B 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 0.000000 0.000000 1.000000 55.53000 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 55.53000 REMARK 350 BIOMT3 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT1 3 0.000000 -1.000000 0.000000 55.53000 REMARK 350 BIOMT2 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT3 3 1.000000 0.000000 0.000000 -55.53000 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 A2106 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2156 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2116 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2117 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 THE PROTEIN IS A BIFUNCTIONAL ENZYME THAT CATALYZES TWO REMARK 400 CONSECUTIVE REACTIONS TO PRODUCE DUMP FROM DCTP IN A TWO REMARK 400 STEP REACTION. THE FIRST REACTION STEP IS A DEAMINATION REMARK 400 STEP THAT PRODUCES DUTP FROM DCTP. IN THE SECOND LEG, REMARK 400 DUTP IS DEPHOSPHORYLATED TO GENERATE DUMP. MEMBER OF REMARK 400 THE DE NOVO THYMIDYLATE SYNTHESIS PATHWAY. 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 176 REMARK 465 TYR A 177 REMARK 465 SER A 178 REMARK 465 GLU A 179 REMARK 465 ARG A 180 REMARK 465 LYS A 181 REMARK 465 THR A 182 REMARK 465 SER A 183 REMARK 465 LYS A 184 REMARK 465 TYR A 185 REMARK 465 ALA A 186 REMARK 465 TYR A 187 REMARK 465 GLN A 188 REMARK 465 LYS A 189 REMARK 465 SER A 190 REMARK 465 VAL A 191 REMARK 465 MET A 192 REMARK 465 PRO A 193 REMARK 465 SER A 194 REMARK 465 LEU A 195 REMARK 465 ILE A 196 REMARK 465 HIS A 197 REMARK 465 LEU A 198 REMARK 465 ASP A 199 REMARK 465 ASN A 200 REMARK 465 HIS A 201 REMARK 465 LYS A 202 REMARK 465 LYS A 203 REMARK 465 ASP A 204 REMARK 465 THR B 182 REMARK 465 SER B 183 REMARK 465 LYS B 184 REMARK 465 TYR B 185 REMARK 465 ALA B 186 REMARK 465 TYR B 187 REMARK 465 GLN B 188 REMARK 465 LYS B 189 REMARK 465 SER B 190 REMARK 465 VAL B 191 REMARK 465 MET B 192 REMARK 465 PRO B 193 REMARK 465 SER B 194 REMARK 465 LEU B 195 REMARK 465 ILE B 196 REMARK 465 HIS B 197 REMARK 465 LEU B 198 REMARK 465 ASP B 199 REMARK 465 ASN B 200 REMARK 465 HIS B 201 REMARK 465 LYS B 202 REMARK 465 LYS B 203 REMARK 465 ASP B 204 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH B 2157 O HOH B 2158 1.72 REMARK 500 O ASP A 174 O HOH A 2212 1.96 REMARK 500 O HOH B 2075 O HOH B 2077 2.15 REMARK 500 O HOH A 2002 O HOH A 2049 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 CE2 TYR A 43 O HOH A 2167 9555 1.58 REMARK 500 O HOH A 2152 O HOH B 2111 11556 1.85 REMARK 500 CD2 TYR A 43 O HOH A 2167 9555 2.11 REMARK 500 O HOH A 2124 O HOH B 2126 5555 2.17 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 ASP A 5 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP A 33 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 174 CB - CG - OD2 ANGL. DEV. = 5.9 DEGREES REMARK 500 REMARK 500 REMARK: NULL 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 CYS A 30 43.94 -157.13 REMARK 500 ASN A 63 -45.27 -133.85 REMARK 500 ASP A 150 -69.23 -131.16 REMARK 500 CYS B 30 39.89 -152.28 REMARK 500 ASN B 63 -38.13 -149.85 REMARK 500 ASP B 150 -70.03 -134.30 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 A2014 DISTANCE = 6.24 ANGSTROMS REMARK 525 HOH A2084 DISTANCE = 6.41 ANGSTROMS REMARK 525 HOH B2004 DISTANCE = 6.18 ANGSTROMS DBREF 1OGH A 1 204 UNP Q57872 DCD_METJA 1 204 DBREF 1OGH B 1 204 UNP Q57872 DCD_METJA 1 204 SEQRES 1 A 204 MET ILE LEU SER ASP LYS ASP ILE ILE ASP TYR VAL THR SEQRES 2 A 204 SER LYS ARG ILE ILE ILE LYS PRO PHE ASN LYS ASP PHE SEQRES 3 A 204 VAL GLY PRO CYS SER TYR ASP VAL THR LEU GLY ASP GLU SEQRES 4 A 204 PHE ILE ILE TYR ASP ASP GLU VAL TYR ASP LEU SER LYS SEQRES 5 A 204 GLU LEU ASN TYR LYS ARG ILE LYS ILE LYS ASN SER ILE SEQRES 6 A 204 LEU VAL CYS PRO LEU ASN TYR ASN LEU THR GLU GLU LYS SEQRES 7 A 204 ILE ASN TYR PHE LYS GLU LYS TYR ASN VAL ASP TYR VAL SEQRES 8 A 204 VAL GLU GLY GLY VAL LEU GLY THR THR ASN GLU TYR ILE SEQRES 9 A 204 GLU LEU PRO ASN ASP ILE SER ALA GLN TYR GLN GLY ARG SEQRES 10 A 204 SER SER LEU GLY ARG VAL PHE LEU THR SER HIS GLN THR SEQRES 11 A 204 ALA GLY TRP ILE ASP ALA GLY PHE LYS GLY LYS ILE THR SEQRES 12 A 204 LEU GLU ILE VAL ALA PHE ASP LYS PRO VAL ILE LEU TYR SEQRES 13 A 204 LYS ASN GLN ARG ILE GLY GLN LEU ILE PHE SER LYS LEU SEQRES 14 A 204 LEU SER PRO ALA ASP VAL GLY TYR SER GLU ARG LYS THR SEQRES 15 A 204 SER LYS TYR ALA TYR GLN LYS SER VAL MET PRO SER LEU SEQRES 16 A 204 ILE HIS LEU ASP ASN HIS LYS LYS ASP SEQRES 1 B 204 MET ILE LEU SER ASP LYS ASP ILE ILE ASP TYR VAL THR SEQRES 2 B 204 SER LYS ARG ILE ILE ILE LYS PRO PHE ASN LYS ASP PHE SEQRES 3 B 204 VAL GLY PRO CYS SER TYR ASP VAL THR LEU GLY ASP GLU SEQRES 4 B 204 PHE ILE ILE TYR ASP ASP GLU VAL TYR ASP LEU SER LYS SEQRES 5 B 204 GLU LEU ASN TYR LYS ARG ILE LYS ILE LYS ASN SER ILE SEQRES 6 B 204 LEU VAL CYS PRO LEU ASN TYR ASN LEU THR GLU GLU LYS SEQRES 7 B 204 ILE ASN TYR PHE LYS GLU LYS TYR ASN VAL ASP TYR VAL SEQRES 8 B 204 VAL GLU GLY GLY VAL LEU GLY THR THR ASN GLU TYR ILE SEQRES 9 B 204 GLU LEU PRO ASN ASP ILE SER ALA GLN TYR GLN GLY ARG SEQRES 10 B 204 SER SER LEU GLY ARG VAL PHE LEU THR SER HIS GLN THR SEQRES 11 B 204 ALA GLY TRP ILE ASP ALA GLY PHE LYS GLY LYS ILE THR SEQRES 12 B 204 LEU GLU ILE VAL ALA PHE ASP LYS PRO VAL ILE LEU TYR SEQRES 13 B 204 LYS ASN GLN ARG ILE GLY GLN LEU ILE PHE SER LYS LEU SEQRES 14 B 204 LEU SER PRO ALA ASP VAL GLY TYR SER GLU ARG LYS THR SEQRES 15 B 204 SER LYS TYR ALA TYR GLN LYS SER VAL MET PRO SER LEU SEQRES 16 B 204 ILE HIS LEU ASP ASN HIS LYS LYS ASP FORMUL 3 HOH *398(H2 O) HELIX 1 1 SER A 4 SER A 14 1 11 HELIX 2 2 ASN A 23 PHE A 26 5 4 HELIX 3 3 THR A 75 ASN A 87 1 13 HELIX 4 4 ARG A 117 ARG A 122 1 6 HELIX 5 5 SER B 4 SER B 14 1 11 HELIX 6 6 ASN B 23 PHE B 26 5 4 HELIX 7 7 THR B 75 ASN B 87 1 13 HELIX 8 8 ARG B 117 ARG B 122 1 6 SHEET 1 AA 4 ILE A 18 LYS A 20 0 SHEET 2 AA 4 VAL A 96 GLU A 105 -1 O TYR A 103 N LYS A 20 SHEET 3 AA 4 LYS A 139 ALA A 148 -1 O GLY A 140 N ILE A 104 SHEET 4 AA 4 LEU A 125 THR A 126 -1 O THR A 126 N VAL A 147 SHEET 1 AB 4 TYR A 32 THR A 35 0 SHEET 2 AB 4 ARG A 160 LYS A 168 -1 N ILE A 161 O VAL A 34 SHEET 3 AB 4 ILE A 110 GLY A 116 -1 O SER A 111 N SER A 167 SHEET 4 AB 4 TRP A 133 ILE A 134 -1 O ILE A 134 N ALA A 112 SHEET 1 AC 2 GLU A 39 TYR A 43 0 SHEET 2 AC 2 TYR A 56 LYS A 60 -1 O LYS A 57 N ILE A 42 SHEET 1 AD 3 TYR A 90 GLU A 93 0 SHEET 2 AD 3 SER A 64 CYS A 68 1 O LEU A 66 N VAL A 92 SHEET 3 AD 3 VAL A 153 TYR A 156 -1 O VAL A 153 N VAL A 67 SHEET 1 BA 4 ILE B 18 LYS B 20 0 SHEET 2 BA 4 VAL B 96 GLU B 105 -1 O TYR B 103 N LYS B 20 SHEET 3 BA 4 LYS B 139 ALA B 148 -1 O GLY B 140 N ILE B 104 SHEET 4 BA 4 LEU B 125 THR B 126 -1 O THR B 126 N VAL B 147 SHEET 1 BB 4 TYR B 32 THR B 35 0 SHEET 2 BB 4 ARG B 160 LYS B 168 -1 N ILE B 161 O VAL B 34 SHEET 3 BB 4 ILE B 110 GLY B 116 -1 O SER B 111 N SER B 167 SHEET 4 BB 4 TRP B 133 ILE B 134 -1 O ILE B 134 N ALA B 112 SHEET 1 BC 2 GLU B 39 TYR B 43 0 SHEET 2 BC 2 TYR B 56 LYS B 60 -1 O LYS B 57 N ILE B 42 SHEET 1 BD 3 TYR B 90 GLU B 93 0 SHEET 2 BD 3 SER B 64 CYS B 68 1 O LEU B 66 N VAL B 92 SHEET 3 BD 3 VAL B 153 TYR B 156 -1 O VAL B 153 N VAL B 67 CISPEP 1 LYS A 20 PRO A 21 0 -5.81 CISPEP 2 LYS B 20 PRO B 21 0 -6.44 CRYST1 111.060 111.060 111.060 90.00 90.00 90.00 P 21 3 24 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 0.009004 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009004 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009004 0.00000 MTRIX1 1 0.777800 0.540500 -0.320900 12.25010 1 MTRIX2 1 -0.538900 0.310700 -0.783000 43.82620 1 MTRIX3 1 -0.323500 0.781900 0.532900 -42.99800 1