HEADER TRANSFERASE 28-APR-03 1P60 TITLE STRUCTURE OF HUMAN DCK COMPLEXED WITH 2'-DEOXYCYTIDINE AND ADP, SPACE TITLE 2 GROUP C 2 2 21 COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYCYTIDINE KINASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DCK; COMPND 5 EC: 2.7.1.74; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: DCK; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET14B KEYWDS NUCLEOSIDE KINASE, P-LOOP, DEOXYCYTIDINE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR E.SABINI,S.ORT,C.MONNERJAHN,M.KONRAD,A.LAVIE REVDAT 3 14-FEB-24 1P60 1 REMARK SEQADV REVDAT 2 24-FEB-09 1P60 1 VERSN REVDAT 1 01-JUL-03 1P60 0 JRNL AUTH E.SABINI,S.ORT,C.MONNERJAHN,M.KONRAD,A.LAVIE JRNL TITL STRUCTURE OF HUMAN DCK SUGGESTS STRATEGIES TO IMPROVE JRNL TITL 2 ANTICANCER AND ANTIVIRAL THERAPY JRNL REF NAT.STRUCT.BIOL. V. 10 513 2003 JRNL REFN ISSN 1072-8368 JRNL PMID 12808445 JRNL DOI 10.1038/NSB942 REMARK 2 REMARK 2 RESOLUTION. 1.96 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) : 1.96 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 35428 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) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.161 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 3936 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) : 1.97 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.02 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2361 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1960 REMARK 3 BIN FREE R VALUE SET COUNT : 245 REMARK 3 BIN FREE R VALUE : 0.2590 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3805 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 86 REMARK 3 SOLVENT ATOMS : 333 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 25.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 26.10 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.05000 REMARK 3 B22 (A**2) : 0.43000 REMARK 3 B33 (A**2) : -0.38000 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): 0.157 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.144 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.089 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.090 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.963 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4005 ; 0.020 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 3511 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5444 ; 1.922 ; 1.966 REMARK 3 BOND ANGLES OTHERS (DEGREES): 8180 ; 1.254 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 464 ; 6.220 ; 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): 590 ; 0.107 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 4389 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 831 ; 0.007 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 795 ; 0.216 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 3999 ; 0.245 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 2240 ; 0.089 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 289 ; 0.191 ; 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): 18 ; 0.300 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 57 ; 0.294 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 25 ; 0.401 ; 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): 2330 ; 1.158 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3753 ; 2.104 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1675 ; 2.893 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1691 ; 4.522 ; 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 : BABINET MODEL WITH 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 1P60 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 29-APR-03. REMARK 100 THE DEPOSITION ID IS D_1000019050. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-DEC-01 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-D REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9000 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 : NULL REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39365 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.960 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.04500 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 23.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.96 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.29100 REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.97 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.24 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.95-1.0M CITRATE TRISODIUM DIHYDRATE, REMARK 280 100MM HEPES, 5MM DEOXYCYTIDINE, 5MM ADP, 5MM MGCL2,5MM DTT, PH REMARK 280 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 298.0K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 78.78250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 78.78250 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 26.35700 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 66.40400 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 26.35700 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 66.40400 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 78.78250 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 26.35700 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 66.40400 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 78.78250 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 26.35700 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 66.40400 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5020 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 10160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 40390 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -36.0 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 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 132.80800 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 157.56500 REMARK 350 APPLY THE FOLLOWING TO CHAINS: B REMARK 350 BIOMT1 3 1.000000 0.000000 0.000000 26.35700 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 -66.40400 REMARK 350 BIOMT3 3 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 26.35700 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 199.21200 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 157.56500 REMARK 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -52.0 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 350 BIOMT1 2 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 132.80800 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 157.56500 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 -2 REMARK 465 SER A -1 REMARK 465 HIS A 0 REMARK 465 MET A 1 REMARK 465 ALA A 2 REMARK 465 THR A 3 REMARK 465 PRO A 4 REMARK 465 PRO A 5 REMARK 465 LYS A 6 REMARK 465 ARG A 7 REMARK 465 SER A 8 REMARK 465 CYS A 9 REMARK 465 PRO A 10 REMARK 465 SER A 11 REMARK 465 PHE A 12 REMARK 465 SER A 13 REMARK 465 ALA A 14 REMARK 465 SER A 15 REMARK 465 SER A 16 REMARK 465 GLU A 17 REMARK 465 GLY A 18 REMARK 465 GLY B -2 REMARK 465 SER B -1 REMARK 465 HIS B 0 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 THR B 3 REMARK 465 PRO B 4 REMARK 465 PRO B 5 REMARK 465 LYS B 6 REMARK 465 ARG B 7 REMARK 465 SER B 8 REMARK 465 CYS B 9 REMARK 465 PRO B 10 REMARK 465 SER B 11 REMARK 465 PHE B 12 REMARK 465 SER B 13 REMARK 465 ALA B 14 REMARK 465 SER B 15 REMARK 465 SER B 16 REMARK 465 GLU B 17 REMARK 465 GLY B 18 REMARK 465 THR B 19 REMARK 465 GLN B 62 REMARK 465 SER B 63 REMARK 465 THR B 64 REMARK 465 GLN B 65 REMARK 465 ASP B 66 REMARK 465 GLU B 67 REMARK 465 PHE B 68 REMARK 465 GLU B 69 REMARK 465 GLU B 70 REMARK 465 LEU B 71 REMARK 465 THR B 72 REMARK 465 MET B 73 REMARK 465 SER B 74 REMARK 465 GLN B 75 REMARK 465 LYS B 76 REMARK 465 ASN B 77 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 THR A 19 OG1 CG2 REMARK 470 GLN A 43 CG CD OE1 NE2 REMARK 470 GLU A 46 CG CD OE1 OE2 REMARK 470 LYS A 76 CG CD CE NZ REMARK 470 LYS A 117 CB CG CD CE NZ REMARK 470 ASP A 118 CB CG OD1 OD2 REMARK 470 LYS A 121 CG CD CE NZ REMARK 470 ASN A 164 CG OD1 ND2 REMARK 470 GLN A 168 CG CD OE1 NE2 REMARK 470 GLN A 229 CG CD OE1 NE2 REMARK 470 GLU A 251 CG CD OE1 OE2 REMARK 470 ARG B 20 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 46 CG CD OE1 OE2 REMARK 470 ARG B 57 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 113 CG OD1 ND2 REMARK 470 LYS B 117 CG CD CE NZ REMARK 470 ASP B 118 CB CG OD1 OD2 REMARK 470 LYS B 121 CG CD CE NZ REMARK 470 ASN B 164 CG OD1 ND2 REMARK 470 TYR B 190 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 ASN B 195 CG OD1 ND2 REMARK 470 LYS B 222 CG CD CE NZ REMARK 470 LYS B 243 CG CD CE NZ REMARK 470 ASP B 244 CG OD1 OD2 REMARK 470 GLU B 247 CG CD OE1 OE2 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 A 471 O HOH B 595 1.87 REMARK 500 OE1 GLU B 171 O HOH B 600 2.07 REMARK 500 O2 DCZ B 502 O HOH B 631 2.17 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 O HOH A 536 O HOH A 536 3756 1.19 REMARK 500 O HOH A 518 O HOH B 535 5545 1.87 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 173 CB - CG - OD2 ANGL. DEV. = 6.4 DEGREES REMARK 500 ARG A 194 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG A 194 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP A 244 CB - CG - OD2 ANGL. DEV. = 5.4 DEGREES REMARK 500 MET B 162 CG - SD - CE ANGL. DEV. = -12.8 DEGREES REMARK 500 ASP B 173 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG B 219 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ASP B 226 CB - CG - OD2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP B 237 CB - CG - OD2 ANGL. DEV. = 5.6 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 PRO A 54 42.20 -73.19 REMARK 500 LYS A 88 76.57 -150.18 REMARK 500 ARG A 128 168.37 74.18 REMARK 500 ILE A 136 -66.66 -101.69 REMARK 500 LEU A 217 -61.89 -104.06 REMARK 500 ASN B 60 81.98 -150.59 REMARK 500 LYS B 115 -70.40 -4.94 REMARK 500 ASP B 118 30.24 146.55 REMARK 500 GLU B 120 -85.65 -60.50 REMARK 500 ARG B 128 -174.14 64.64 REMARK 500 ILE B 136 -67.57 -108.22 REMARK 500 PHE B 166 -86.76 -99.87 REMARK 500 LEU B 217 -62.02 -107.92 REMARK 500 LYS B 245 10.95 -143.88 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 ADP A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DCZ A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ADP B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DCZ B 502 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1P5Z RELATED DB: PDB REMARK 900 COMPLEXED WITH CYTARABINE REMARK 900 RELATED ID: 1P61 RELATED DB: PDB REMARK 900 COMPLEXED WITH 2'-DEOXYCYTIDINE REMARK 900 RELATED ID: 1P62 RELATED DB: PDB REMARK 900 COMPLEXED WITH GEMCITABINE DBREF 1P60 A 1 260 UNP P27707 DCK_HUMAN 1 260 DBREF 1P60 B 1 260 UNP P27707 DCK_HUMAN 1 260 SEQADV 1P60 GLY A -2 UNP P27707 CLONING ARTIFACT SEQADV 1P60 SER A -1 UNP P27707 CLONING ARTIFACT SEQADV 1P60 HIS A 0 UNP P27707 CLONING ARTIFACT SEQADV 1P60 GLY B -2 UNP P27707 CLONING ARTIFACT SEQADV 1P60 SER B -1 UNP P27707 CLONING ARTIFACT SEQADV 1P60 HIS B 0 UNP P27707 CLONING ARTIFACT SEQRES 1 A 263 GLY SER HIS MET ALA THR PRO PRO LYS ARG SER CYS PRO SEQRES 2 A 263 SER PHE SER ALA SER SER GLU GLY THR ARG ILE LYS LYS SEQRES 3 A 263 ILE SER ILE GLU GLY ASN ILE ALA ALA GLY LYS SER THR SEQRES 4 A 263 PHE VAL ASN ILE LEU LYS GLN LEU CYS GLU ASP TRP GLU SEQRES 5 A 263 VAL VAL PRO GLU PRO VAL ALA ARG TRP CYS ASN VAL GLN SEQRES 6 A 263 SER THR GLN ASP GLU PHE GLU GLU LEU THR MET SER GLN SEQRES 7 A 263 LYS ASN GLY GLY ASN VAL LEU GLN MET MET TYR GLU LYS SEQRES 8 A 263 PRO GLU ARG TRP SER PHE THR PHE GLN THR TYR ALA CYS SEQRES 9 A 263 LEU SER ARG ILE ARG ALA GLN LEU ALA SER LEU ASN GLY SEQRES 10 A 263 LYS LEU LYS ASP ALA GLU LYS PRO VAL LEU PHE PHE GLU SEQRES 11 A 263 ARG SER VAL TYR SER ASP ARG TYR ILE PHE ALA SER ASN SEQRES 12 A 263 LEU TYR GLU SER GLU CYS MET ASN GLU THR GLU TRP THR SEQRES 13 A 263 ILE TYR GLN ASP TRP HIS ASP TRP MET ASN ASN GLN PHE SEQRES 14 A 263 GLY GLN SER LEU GLU LEU ASP GLY ILE ILE TYR LEU GLN SEQRES 15 A 263 ALA THR PRO GLU THR CYS LEU HIS ARG ILE TYR LEU ARG SEQRES 16 A 263 GLY ARG ASN GLU GLU GLN GLY ILE PRO LEU GLU TYR LEU SEQRES 17 A 263 GLU LYS LEU HIS TYR LYS HIS GLU SER TRP LEU LEU HIS SEQRES 18 A 263 ARG THR LEU LYS THR ASN PHE ASP TYR LEU GLN GLU VAL SEQRES 19 A 263 PRO ILE LEU THR LEU ASP VAL ASN GLU ASP PHE LYS ASP SEQRES 20 A 263 LYS TYR GLU SER LEU VAL GLU LYS VAL LYS GLU PHE LEU SEQRES 21 A 263 SER THR LEU SEQRES 1 B 263 GLY SER HIS MET ALA THR PRO PRO LYS ARG SER CYS PRO SEQRES 2 B 263 SER PHE SER ALA SER SER GLU GLY THR ARG ILE LYS LYS SEQRES 3 B 263 ILE SER ILE GLU GLY ASN ILE ALA ALA GLY LYS SER THR SEQRES 4 B 263 PHE VAL ASN ILE LEU LYS GLN LEU CYS GLU ASP TRP GLU SEQRES 5 B 263 VAL VAL PRO GLU PRO VAL ALA ARG TRP CYS ASN VAL GLN SEQRES 6 B 263 SER THR GLN ASP GLU PHE GLU GLU LEU THR MET SER GLN SEQRES 7 B 263 LYS ASN GLY GLY ASN VAL LEU GLN MET MET TYR GLU LYS SEQRES 8 B 263 PRO GLU ARG TRP SER PHE THR PHE GLN THR TYR ALA CYS SEQRES 9 B 263 LEU SER ARG ILE ARG ALA GLN LEU ALA SER LEU ASN GLY SEQRES 10 B 263 LYS LEU LYS ASP ALA GLU LYS PRO VAL LEU PHE PHE GLU SEQRES 11 B 263 ARG SER VAL TYR SER ASP ARG TYR ILE PHE ALA SER ASN SEQRES 12 B 263 LEU TYR GLU SER GLU CYS MET ASN GLU THR GLU TRP THR SEQRES 13 B 263 ILE TYR GLN ASP TRP HIS ASP TRP MET ASN ASN GLN PHE SEQRES 14 B 263 GLY GLN SER LEU GLU LEU ASP GLY ILE ILE TYR LEU GLN SEQRES 15 B 263 ALA THR PRO GLU THR CYS LEU HIS ARG ILE TYR LEU ARG SEQRES 16 B 263 GLY ARG ASN GLU GLU GLN GLY ILE PRO LEU GLU TYR LEU SEQRES 17 B 263 GLU LYS LEU HIS TYR LYS HIS GLU SER TRP LEU LEU HIS SEQRES 18 B 263 ARG THR LEU LYS THR ASN PHE ASP TYR LEU GLN GLU VAL SEQRES 19 B 263 PRO ILE LEU THR LEU ASP VAL ASN GLU ASP PHE LYS ASP SEQRES 20 B 263 LYS TYR GLU SER LEU VAL GLU LYS VAL LYS GLU PHE LEU SEQRES 21 B 263 SER THR LEU HET ADP A 401 27 HET DCZ A 402 16 HET ADP B 501 27 HET DCZ B 502 16 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM DCZ 2'-DEOXYCYTIDINE FORMUL 3 ADP 2(C10 H15 N5 O10 P2) FORMUL 4 DCZ 2(C9 H13 N3 O4) FORMUL 7 HOH *333(H2 O) HELIX 1 1 GLY A 33 LYS A 42 1 10 HELIX 2 2 GLN A 43 CYS A 45 5 3 HELIX 3 3 PRO A 54 ASN A 60 1 7 HELIX 4 4 PHE A 68 THR A 72 5 5 HELIX 5 5 ASN A 80 LYS A 88 1 9 HELIX 6 6 LYS A 88 LYS A 115 1 28 HELIX 7 7 SER A 129 ILE A 136 1 8 HELIX 8 8 ILE A 136 SER A 144 1 9 HELIX 9 9 ASN A 148 GLU A 171 1 24 HELIX 10 10 THR A 181 GLY A 193 1 13 HELIX 11 11 ARG A 194 GLN A 198 5 5 HELIX 12 12 PRO A 201 LEU A 217 1 17 HELIX 13 13 PHE A 225 GLU A 230 5 6 HELIX 14 14 ASP A 241 LEU A 260 1 20 HELIX 15 15 GLY B 33 LYS B 42 1 10 HELIX 16 16 GLN B 43 CYS B 45 5 3 HELIX 17 17 PRO B 54 ASN B 60 1 7 HELIX 18 18 ASN B 80 LYS B 88 1 9 HELIX 19 19 LYS B 88 GLY B 114 1 27 HELIX 20 20 SER B 129 ILE B 136 1 8 HELIX 21 21 ILE B 136 SER B 144 1 9 HELIX 22 22 ASN B 148 PHE B 166 1 19 HELIX 23 23 THR B 181 GLY B 193 1 13 HELIX 24 24 ARG B 194 GLN B 198 5 5 HELIX 25 25 PRO B 201 LEU B 217 1 17 HELIX 26 26 PHE B 225 VAL B 231 5 7 HELIX 27 27 LYS B 245 THR B 259 1 15 SHEET 1 A 5 TRP A 48 VAL A 51 0 SHEET 2 A 5 VAL A 123 GLU A 127 1 O PHE A 125 N GLU A 49 SHEET 3 A 5 LYS A 22 GLU A 27 1 N ILE A 26 O PHE A 126 SHEET 4 A 5 GLY A 174 GLN A 179 1 O ILE A 176 N SER A 25 SHEET 5 A 5 ILE A 233 ASP A 237 1 O LEU A 236 N TYR A 177 SHEET 1 B 5 TRP B 48 VAL B 51 0 SHEET 2 B 5 VAL B 123 GLU B 127 1 O PHE B 125 N GLU B 49 SHEET 3 B 5 LYS B 22 GLU B 27 1 N LYS B 22 O LEU B 124 SHEET 4 B 5 GLY B 174 GLN B 179 1 O LEU B 178 N GLU B 27 SHEET 5 B 5 ILE B 233 ASP B 237 1 O LEU B 236 N TYR B 177 SITE 1 AC1 20 ALA A 31 ALA A 32 GLY A 33 LYS A 34 SITE 2 AC1 20 SER A 35 THR A 36 ARG A 188 ARG A 192 SITE 3 AC1 20 GLU A 240 ASP A 241 PHE A 242 HOH A 436 SITE 4 AC1 20 HOH A 439 HOH A 448 HOH A 454 HOH A 469 SITE 5 AC1 20 HOH A 477 HOH A 583 ASP B 241 PHE B 242 SITE 1 AC2 15 ILE A 30 GLU A 53 TRP A 58 LEU A 82 SITE 2 AC2 15 MET A 85 TYR A 86 PHE A 96 GLN A 97 SITE 3 AC2 15 ARG A 128 ASP A 133 PHE A 137 GLU A 197 SITE 4 AC2 15 HOH A 405 HOH A 477 HOH A 596 SITE 1 AC3 19 ASP A 241 LYS A 243 HOH A 436 HOH A 495 SITE 2 AC3 19 ALA B 31 ALA B 32 GLY B 33 LYS B 34 SITE 3 AC3 19 SER B 35 THR B 36 ARG B 188 ARG B 192 SITE 4 AC3 19 GLU B 240 ASP B 241 PHE B 242 TYR B 246 SITE 5 AC3 19 HOH B 519 HOH B 554 HOH B 573 SITE 1 AC4 13 GLU B 53 VAL B 55 TRP B 58 MET B 85 SITE 2 AC4 13 TYR B 86 PHE B 96 GLN B 97 ARG B 128 SITE 3 AC4 13 ASP B 133 PHE B 137 GLU B 197 HOH B 518 SITE 4 AC4 13 HOH B 631 CRYST1 52.714 132.808 157.565 90.00 90.00 90.00 C 2 2 21 16 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 0.018970 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007530 0.000000 0.00000 SCALE3 0.000000 0.000000 0.006347 0.00000