HEADER TRANSFERASE 03-MAR-08 2VPP TITLE DROSOPHILA MELANOGASTER DEOXYRIBONUCLEOSIDE KINASE SUCCESSFULLY TITLE 2 ACTIVATES GEMCITABINE IN TRANSDUCED CANCER CELL LINES COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYNUCLEOSIDE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 1-230; COMPND 5 SYNONYM: DEOXYRIBONUCLEOSIDE KINASE, DM-DNK, MULTISPECIFIC COMPND 6 DEOXYNUCLEOSIDE KINASE; COMPND 7 EC: 2.7.1.145; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DROSOPHILA MELANOGASTER; SOURCE 3 ORGANISM_COMMON: FRUIT FLY; SOURCE 4 ORGANISM_TAXID: 7227; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PGEX-2T KEYWDS KINASE, CANCER, TRANSFERASE, ATP-BINDING, PHOSPHOPROTEIN, NUCLEOSIDE KEYWDS 2 ANALOGS, NUCLEOTIDE-BINDING, STRUCTURE-FUNCTION RELATIONSHIP, KEYWDS 3 GEMCITABINE, GENE THERAPY, DNA SYNTHESIS EXPDTA X-RAY DIFFRACTION AUTHOR W.KNECHT,N.E.MIKKELSEN,A.CLAUSEN,M.WILLER,Z.GOJKOVIC,J.PISKUR REVDAT 3 13-DEC-23 2VPP 1 REMARK REVDAT 2 14-APR-09 2VPP 1 JRNL REVDAT 1 24-MAR-09 2VPP 0 JRNL AUTH W.KNECHT,N.E.MIKKELSEN,A.CLAUSEN,M.WILLER,H.EKLUND, JRNL AUTH 2 Z.GOJKOVIC,J.PISKUR JRNL TITL DROSOPHILA MELANOGASTER DEOXYRIBONUCLEOSIDE KINASE ACTIVATES JRNL TITL 2 GEMCITABINE. JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 382 430 2009 JRNL REFN ISSN 0006-291X JRNL PMID 19285960 JRNL DOI 10.1016/J.BBRC.2009.03.041 REMARK 2 REMARK 2 RESOLUTION. 2.20 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) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.5 REMARK 3 NUMBER OF REFLECTIONS : 24968 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) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1324 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) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1843 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2600 REMARK 3 BIN FREE R VALUE SET COUNT : 99 REMARK 3 BIN FREE R VALUE : 0.3520 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3109 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 46 REMARK 3 SOLVENT ATOMS : 239 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.25 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -3.05000 REMARK 3 B22 (A**2) : 1.10000 REMARK 3 B33 (A**2) : 1.95000 REMARK 3 B12 (A**2) : 0.00000 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): 0.254 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.210 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.152 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.005 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.934 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.908 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3226 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4364 ; 1.377 ; 1.975 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 366 ; 6.189 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 159 ;31.891 ;23.836 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 597 ;16.477 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 23 ;15.493 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 475 ; 0.100 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2389 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1470 ; 0.194 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2137 ; 0.303 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 224 ; 0.165 ; 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): 46 ; 0.230 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 14 ; 0.201 ; 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): 1915 ; 0.764 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3017 ; 1.314 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1518 ; 1.882 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1347 ; 2.961 ; 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 : 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. REMARK 4 REMARK 4 2VPP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 03-MAR-08. REMARK 100 THE DEPOSITION ID IS D_1290035529. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 08-OCT-06 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.934000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24968 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 2.260 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 200 DATA REDUNDANCY : 3.100 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL 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) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 3.10 REMARK 200 R MERGE FOR SHELL (I) : 0.34000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1J90 REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.5 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X+1/2,Y+1/2,-Z REMARK 290 4555 X+1/2,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 60.05300 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.14900 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 60.05300 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.14900 REMARK 290 SMTRY3 4 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 3100 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21690 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 ALA A 2 REMARK 465 GLU A 3 REMARK 465 ALA A 4 REMARK 465 ALA A 5 REMARK 465 SER A 6 REMARK 465 CYS A 7 REMARK 465 ALA A 8 REMARK 465 ARG A 9 REMARK 465 LYS A 10 REMARK 465 GLY A 11 REMARK 465 THR A 12 REMARK 465 LYS A 13 REMARK 465 TYR A 14 REMARK 465 ALA A 15 REMARK 465 GLU A 16 REMARK 465 GLY A 17 REMARK 465 GLN A 198 REMARK 465 SER A 199 REMARK 465 CYS A 200 REMARK 465 ASN A 210 REMARK 465 LEU A 211 REMARK 465 GLU A 212 REMARK 465 ASN A 213 REMARK 465 ILE A 214 REMARK 465 GLY A 215 REMARK 465 THR A 216 REMARK 465 GLU A 217 REMARK 465 TYR A 218 REMARK 465 GLN A 219 REMARK 465 ARG A 220 REMARK 465 SER A 221 REMARK 465 GLU A 222 REMARK 465 SER A 223 REMARK 465 SER A 224 REMARK 465 ILE A 225 REMARK 465 PHE A 226 REMARK 465 ASP A 227 REMARK 465 ALA A 228 REMARK 465 ILE A 229 REMARK 465 SER A 230 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 GLU B 3 REMARK 465 ALA B 4 REMARK 465 ALA B 5 REMARK 465 SER B 6 REMARK 465 CYS B 7 REMARK 465 ALA B 8 REMARK 465 ARG B 9 REMARK 465 LYS B 10 REMARK 465 GLY B 11 REMARK 465 THR B 12 REMARK 465 LYS B 13 REMARK 465 TYR B 14 REMARK 465 ALA B 15 REMARK 465 GLU B 16 REMARK 465 GLY B 17 REMARK 465 THR B 18 REMARK 465 GLN B 19 REMARK 465 ALA B 168 REMARK 465 ARG B 169 REMARK 465 GLN B 198 REMARK 465 SER B 199 REMARK 465 CYS B 200 REMARK 465 ALA B 207 REMARK 465 ASP B 208 REMARK 465 LEU B 209 REMARK 465 ASN B 210 REMARK 465 LEU B 211 REMARK 465 GLU B 212 REMARK 465 ASN B 213 REMARK 465 ILE B 214 REMARK 465 GLY B 215 REMARK 465 THR B 216 REMARK 465 GLU B 217 REMARK 465 TYR B 218 REMARK 465 GLN B 219 REMARK 465 ARG B 220 REMARK 465 SER B 221 REMARK 465 GLU B 222 REMARK 465 SER B 223 REMARK 465 SER B 224 REMARK 465 ILE B 225 REMARK 465 PHE B 226 REMARK 465 ASP B 227 REMARK 465 ALA B 228 REMARK 465 ILE B 229 REMARK 465 SER B 230 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 OE2 GLU A 55 OE2 GLU A 55 2665 2.15 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 PRO A 53 42.01 -73.03 REMARK 500 ARG A 105 -173.39 58.31 REMARK 500 ARG A 195 -43.07 72.71 REMARK 500 LYS B 44 10.82 -69.02 REMARK 500 ARG B 105 176.71 60.83 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 GEO A 1210 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GEO B 1207 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 1211 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 B 1208 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ZM7 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D. MELANOGASTER DEOXYRIBONUCLEOSIDEKINASE REMARK 900 MUTANT N64D IN COMPLEX WITH DTTP REMARK 900 RELATED ID: 2VP5 RELATED DB: PDB REMARK 900 STRUCTURAL STUDIES OF NUCLEOSIDE ANALOG AND FEEDBACK INHIBITOR REMARK 900 BINDING TO DROSOPHILA MELANOGASTER MULTISUBSTRATE REMARK 900 DEOXYRIBONUCLEOSIDE KINASE REMARK 900 RELATED ID: 1ZMX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF D. MELANOGASTER DEOXYRIBONUCLEOSIDEKINASE N64D REMARK 900 MUTANT IN COMPLEX WITH THYMIDINE REMARK 900 RELATED ID: 2VP4 RELATED DB: PDB REMARK 900 STRUCTURAL STUDIES OF NUCLEOSIDE ANALOG AND FEEDBACK INHIBITOR REMARK 900 BINDING TO DROSOPHILA MELANOGASTER MULTISUBSTRATE REMARK 900 DEOXYRIBONUCLEOSIDE KINASE REMARK 900 RELATED ID: 1J90 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF DROSOPHILA DEOXYRIBONUCLEOSIDE KINASE REMARK 900 RELATED ID: 2VP0 RELATED DB: PDB REMARK 900 STRUCTURAL STUDIES OF NUCLEOSIDE ANALOG AND FEEDBACK INHIBITOR REMARK 900 BINDING TO DROSOPHILA MELANOGASTER MULTISUBSTRATE REMARK 900 DEOXYRIBONUCLEOSIDE KINASE REMARK 900 RELATED ID: 2JCS RELATED DB: PDB REMARK 900 ACTIVE SITE MUTANT OF DNK FROM D. MELANOGASTER WITH DTTP BOUND REMARK 900 RELATED ID: 1OT3 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF DROSOPHILA DEOXYRIBONUCLEOTIDE KINASECOMPLEXED REMARK 900 WITH THE SUBSTRATE DEOXYTHYMIDINE REMARK 900 RELATED ID: 2VP6 RELATED DB: PDB REMARK 900 STRUCTURAL STUDIES OF NUCLEOSIDE ANALOG AND FEEDBACK INHIBITOR REMARK 900 BINDING TO DROSOPHILA MELANOGASTER MULTISUBSTRATE REMARK 900 DEOXYRIBONUCLEOSIDE KINASE REMARK 900 RELATED ID: 1OE0 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF DROSOPHILA DEOXYRIBONUCLEOSIDE KINASE IN REMARK 900 COMPLEX WITH DTTP REMARK 900 RELATED ID: 2VP2 RELATED DB: PDB REMARK 900 STRUCTURAL STUDIES OF NUCLEOSIDE ANALOG AND FEEDBACK INHIBITOR REMARK 900 BINDING TO DROSOPHILA MELANOGASTER MULTISUBSTRATE REMARK 900 DEOXYRIBONUCLEOSIDE KINASE REMARK 900 RELATED ID: 2VP9 RELATED DB: PDB REMARK 900 STRUCTURAL STUDIES OF NUCLEOSIDE ANALOG AND FEEDBACK INHIBITOR REMARK 900 BINDING TO DROSOPHILA MELANOGASTER MULTISUBSTRATE REMARK 900 DEOXYRIBONUCLEOSIDE KINASE DBREF 2VPP A 1 230 UNP Q9XZT6 DNK_DROME 1 230 DBREF 2VPP B 1 230 UNP Q9XZT6 DNK_DROME 1 230 SEQRES 1 A 230 MET ALA GLU ALA ALA SER CYS ALA ARG LYS GLY THR LYS SEQRES 2 A 230 TYR ALA GLU GLY THR GLN PRO PHE THR VAL LEU ILE GLU SEQRES 3 A 230 GLY ASN ILE GLY SER GLY LYS THR THR TYR LEU ASN HIS SEQRES 4 A 230 PHE GLU LYS TYR LYS ASN ASP ILE CYS LEU LEU THR GLU SEQRES 5 A 230 PRO VAL GLU LYS TRP ARG ASN VAL ASN GLY VAL ASN LEU SEQRES 6 A 230 LEU GLU LEU MET TYR LYS ASP PRO LYS LYS TRP ALA MET SEQRES 7 A 230 PRO PHE GLN SER TYR VAL THR LEU THR MET LEU GLN SER SEQRES 8 A 230 HIS THR ALA PRO THR ASN LYS LYS LEU LYS ILE MET GLU SEQRES 9 A 230 ARG SER ILE PHE SER ALA ARG TYR CYS PHE VAL GLU ASN SEQRES 10 A 230 MET ARG ARG ASN GLY SER LEU GLU GLN GLY MET TYR ASN SEQRES 11 A 230 THR LEU GLU GLU TRP TYR LYS PHE ILE GLU GLU SER ILE SEQRES 12 A 230 HIS VAL GLN ALA ASP LEU ILE ILE TYR LEU ARG THR SER SEQRES 13 A 230 PRO GLU VAL ALA TYR GLU ARG ILE ARG GLN ARG ALA ARG SEQRES 14 A 230 SER GLU GLU SER CYS VAL PRO LEU LYS TYR LEU GLN GLU SEQRES 15 A 230 LEU HIS GLU LEU HIS GLU ASP TRP LEU ILE HIS GLN ARG SEQRES 16 A 230 ARG PRO GLN SER CYS LYS VAL LEU VAL LEU ASP ALA ASP SEQRES 17 A 230 LEU ASN LEU GLU ASN ILE GLY THR GLU TYR GLN ARG SER SEQRES 18 A 230 GLU SER SER ILE PHE ASP ALA ILE SER SEQRES 1 B 230 MET ALA GLU ALA ALA SER CYS ALA ARG LYS GLY THR LYS SEQRES 2 B 230 TYR ALA GLU GLY THR GLN PRO PHE THR VAL LEU ILE GLU SEQRES 3 B 230 GLY ASN ILE GLY SER GLY LYS THR THR TYR LEU ASN HIS SEQRES 4 B 230 PHE GLU LYS TYR LYS ASN ASP ILE CYS LEU LEU THR GLU SEQRES 5 B 230 PRO VAL GLU LYS TRP ARG ASN VAL ASN GLY VAL ASN LEU SEQRES 6 B 230 LEU GLU LEU MET TYR LYS ASP PRO LYS LYS TRP ALA MET SEQRES 7 B 230 PRO PHE GLN SER TYR VAL THR LEU THR MET LEU GLN SER SEQRES 8 B 230 HIS THR ALA PRO THR ASN LYS LYS LEU LYS ILE MET GLU SEQRES 9 B 230 ARG SER ILE PHE SER ALA ARG TYR CYS PHE VAL GLU ASN SEQRES 10 B 230 MET ARG ARG ASN GLY SER LEU GLU GLN GLY MET TYR ASN SEQRES 11 B 230 THR LEU GLU GLU TRP TYR LYS PHE ILE GLU GLU SER ILE SEQRES 12 B 230 HIS VAL GLN ALA ASP LEU ILE ILE TYR LEU ARG THR SER SEQRES 13 B 230 PRO GLU VAL ALA TYR GLU ARG ILE ARG GLN ARG ALA ARG SEQRES 14 B 230 SER GLU GLU SER CYS VAL PRO LEU LYS TYR LEU GLN GLU SEQRES 15 B 230 LEU HIS GLU LEU HIS GLU ASP TRP LEU ILE HIS GLN ARG SEQRES 16 B 230 ARG PRO GLN SER CYS LYS VAL LEU VAL LEU ASP ALA ASP SEQRES 17 B 230 LEU ASN LEU GLU ASN ILE GLY THR GLU TYR GLN ARG SER SEQRES 18 B 230 GLU SER SER ILE PHE ASP ALA ILE SER HET GEO A1210 18 HET SO4 A1211 5 HET GEO B1207 18 HET SO4 B1208 5 HETNAM GEO GEMCITABINE HETNAM SO4 SULFATE ION HETSYN GEO 2',2'-DIFLUORODEOXYCYTIDINE FORMUL 3 GEO 2(C9 H11 F2 N3 O4) FORMUL 4 SO4 2(O4 S 2-) FORMUL 7 HOH *239(H2 O) HELIX 1 1 GLY A 32 HIS A 39 1 8 HELIX 2 2 PHE A 40 LYS A 44 5 5 HELIX 3 3 PRO A 53 ARG A 58 1 6 HELIX 4 4 ASN A 64 ASP A 72 1 9 HELIX 5 5 ASP A 72 THR A 93 1 22 HELIX 6 6 SER A 106 CYS A 113 1 8 HELIX 7 7 CYS A 113 ASN A 121 1 9 HELIX 8 8 GLU A 125 ILE A 143 1 19 HELIX 9 9 SER A 156 GLN A 166 1 11 HELIX 10 10 PRO A 176 ILE A 192 1 17 HELIX 11 11 GLY B 32 HIS B 39 1 8 HELIX 12 12 PHE B 40 TYR B 43 5 4 HELIX 13 13 PRO B 53 ASN B 59 1 7 HELIX 14 14 ASN B 64 ASP B 72 1 9 HELIX 15 15 ASP B 72 ALA B 94 1 23 HELIX 16 16 SER B 106 CYS B 113 1 8 HELIX 17 17 CYS B 113 ASN B 121 1 9 HELIX 18 18 GLU B 125 ILE B 143 1 19 HELIX 19 19 SER B 156 GLN B 166 1 11 HELIX 20 20 PRO B 176 ILE B 192 1 17 SHEET 1 AA 5 ILE A 47 LEU A 50 0 SHEET 2 AA 5 LEU A 100 GLU A 104 1 O LEU A 100 N CYS A 48 SHEET 3 AA 5 PHE A 21 GLY A 27 1 O PHE A 21 N LYS A 101 SHEET 4 AA 5 LEU A 149 ARG A 154 1 O LEU A 149 N LEU A 24 SHEET 5 AA 5 VAL A 202 ASP A 206 1 O LEU A 203 N TYR A 152 SHEET 1 BA 5 ILE B 47 LEU B 50 0 SHEET 2 BA 5 LEU B 100 GLU B 104 1 O LEU B 100 N CYS B 48 SHEET 3 BA 5 PHE B 21 GLY B 27 1 O PHE B 21 N LYS B 101 SHEET 4 BA 5 LEU B 149 LEU B 153 1 O LEU B 149 N LEU B 24 SHEET 5 BA 5 VAL B 202 LEU B 205 1 O LEU B 203 N TYR B 152 CISPEP 1 GLN A 194 ARG A 195 0 27.00 SITE 1 AC1 16 ILE A 29 GLU A 52 TRP A 57 MET A 69 SITE 2 AC1 16 TYR A 70 PHE A 80 GLN A 81 VAL A 84 SITE 3 AC1 16 ARG A 105 ALA A 110 PHE A 114 GLU A 172 SITE 4 AC1 16 HOH A2050 HOH A2071 HOH A2119 HOH A2137 SITE 1 AC2 15 ILE B 29 GLU B 52 TRP B 57 MET B 69 SITE 2 AC2 15 TYR B 70 PHE B 80 GLN B 81 VAL B 84 SITE 3 AC2 15 ARG B 105 ALA B 110 PHE B 114 GLU B 172 SITE 4 AC2 15 HOH B2040 HOH B2088 HOH B2100 SITE 1 AC3 8 GLY A 30 SER A 31 GLY A 32 LYS A 33 SITE 2 AC3 8 THR A 34 ARG A 167 HOH A2137 HOH A2138 SITE 1 AC4 10 ASN B 28 GLY B 30 SER B 31 GLY B 32 SITE 2 AC4 10 LYS B 33 THR B 34 ARG B 167 HOH B2099 SITE 3 AC4 10 HOH B2100 HOH B2101 CRYST1 120.106 62.298 68.078 90.00 90.00 90.00 P 21 21 2 8 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 0.008326 0.000000 0.000000 0.00000 SCALE2 0.000000 0.016052 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014689 0.00000 MTRIX1 1 -0.997000 0.004062 -0.076960 152.00000 1 MTRIX2 1 -0.015930 -0.987900 0.154200 29.49000 1 MTRIX3 1 -0.075400 0.155000 0.985000 3.65100 1