HEADER TRANSFERASE 28-APR-03 1P61 TITLE STRUCTURE OF HUMAN DCK COMPLEXED WITH 2'-DEOXYCYTIDINE AND ADP, P 43 TITLE 2 21 2 SPACE GROUP COMPND MOL_ID: 1; COMPND 2 MOLECULE: DEOXYCYTIDINE KINASE; COMPND 3 CHAIN: 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 4 14-FEB-24 1P61 1 REMARK SEQADV REVDAT 3 13-JUL-11 1P61 1 VERSN REVDAT 2 24-FEB-09 1P61 1 VERSN REVDAT 1 01-JUL-03 1P61 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. 2.21 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) : 2.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 13671 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) : 0.227 REMARK 3 R VALUE (WORKING SET) : 0.222 REMARK 3 FREE R VALUE : 0.280 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1537 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) : 2.21 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.27 REMARK 3 REFLECTION IN BIN (WORKING SET) : 878 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.6520 REMARK 3 BIN FREE R VALUE SET COUNT : 100 REMARK 3 BIN FREE R VALUE : 0.6660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1869 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 131 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.17000 REMARK 3 B22 (A**2) : 2.17000 REMARK 3 B33 (A**2) : -4.34000 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): 0.314 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.251 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.153 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.278 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.925 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1961 ; 0.021 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): 1713 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2668 ; 1.885 ; 1.962 REMARK 3 BOND ANGLES OTHERS (DEGREES): 3981 ; 0.915 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 227 ; 7.942 ; 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): 288 ; 0.097 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2159 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 414 ; 0.007 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 422 ; 0.219 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1948 ; 0.250 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): 1151 ; 0.095 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 98 ; 0.194 ; 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): 13 ; 0.279 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 57 ; 0.300 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.395 ; 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): 1141 ; 1.097 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1834 ; 2.000 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 820 ; 2.658 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 834 ; 4.250 ; 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 1P61 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-APR-03. REMARK 100 THE DEPOSITION ID IS D_1000019051. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 21-MAR-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) : 0.9552 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 : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15208 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 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 : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.06400 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 28.2000 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) : 2.30 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) : 0.15600 REMARK 200 <I/SIGMA(I)> FOR SHELL : 7.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.52 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.44 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 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 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 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -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 46.97300 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 40.00050 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 40.00050 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 70.45950 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 40.00050 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 40.00050 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 23.48650 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 40.00050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 40.00050 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 70.45950 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 40.00050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 40.00050 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 23.48650 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 46.97300 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: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 4840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -19.0 KCAL/MOL 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 -1.000000 0.000000 80.00100 REMARK 350 BIOMT2 2 -1.000000 0.000000 0.000000 80.00100 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 46.97300 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 B 424 LIES ON A SPECIAL POSITION. REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 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 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 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 GLU B 46 CG CD OE1 OE2 REMARK 470 THR B 64 OG1 CG2 REMARK 470 GLU B 87 CG CD OE1 OE2 REMARK 470 ASN B 113 CG OD1 ND2 REMARK 470 LYS B 115 CG CD CE NZ REMARK 470 LYS B 117 CG CD CE NZ REMARK 470 ASP B 118 CG OD1 OD2 REMARK 470 GLU B 120 CG CD OE1 OE2 REMARK 470 LYS B 121 CG CD CE NZ REMARK 470 LYS B 222 CG CD CE NZ REMARK 470 LYS B 245 CB CG CD CE NZ 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 B 355 O HOH B 394 1.81 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 B 173 CB - CG - OD2 ANGL. DEV. = 5.7 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 LYS B 115 42.58 34.54 REMARK 500 LYS B 117 -155.49 -64.26 REMARK 500 ASP B 118 -77.47 68.98 REMARK 500 ALA B 119 -65.74 53.44 REMARK 500 GLU B 120 -76.01 118.10 REMARK 500 LYS B 121 62.57 -112.62 REMARK 500 ARG B 128 -179.37 61.17 REMARK 500 ILE B 136 -68.48 -97.34 REMARK 500 GLN B 168 -56.32 50.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LYS B 115 LEU B 116 147.69 REMARK 500 LEU B 116 LYS B 117 143.47 REMARK 500 LYS B 117 ASP B 118 -147.80 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 B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DCZ B 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1P5Z RELATED DB: PDB REMARK 900 COMPLEXED WITH CYTARABINE REMARK 900 RELATED ID: 1P60 RELATED DB: PDB REMARK 900 COMPLEXED WITH 2'-DEOXYCYTIDINE AND ADP REMARK 900 RELATED ID: 1P62 RELATED DB: PDB REMARK 900 COMPLEXED WITH GEMCITABINE DBREF 1P61 B 1 260 UNP P27707 DCK_HUMAN 1 260 SEQADV 1P61 GLY B -2 UNP P27707 CLONING ARTIFACT SEQADV 1P61 SER B -1 UNP P27707 CLONING ARTIFACT SEQADV 1P61 HIS B 0 UNP P27707 CLONING ARTIFACT 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 B 301 27 HET DCZ B 302 16 HETNAM ADP ADENOSINE-5'-DIPHOSPHATE HETNAM DCZ 2'-DEOXYCYTIDINE FORMUL 2 ADP C10 H15 N5 O10 P2 FORMUL 3 DCZ C9 H13 N3 O4 FORMUL 4 HOH *131(H2 O) HELIX 1 1 GLY B 33 CYS B 45 1 13 HELIX 2 2 PRO B 54 ASN B 60 1 7 HELIX 3 3 ASN B 80 LYS B 88 1 9 HELIX 4 4 LYS B 88 ASN B 113 1 26 HELIX 5 5 SER B 129 ILE B 136 1 8 HELIX 6 6 ILE B 136 SER B 144 1 9 HELIX 7 7 ASN B 148 GLY B 167 1 20 HELIX 8 8 THR B 181 GLY B 193 1 13 HELIX 9 9 ARG B 194 GLN B 198 5 5 HELIX 10 10 PRO B 201 LEU B 217 1 17 HELIX 11 11 PHE B 225 GLU B 230 5 6 HELIX 12 12 ASP B 241 THR B 259 1 19 SHEET 1 A 5 TRP B 48 VAL B 51 0 SHEET 2 A 5 VAL B 123 GLU B 127 1 O VAL B 123 N GLU B 49 SHEET 3 A 5 LYS B 22 GLU B 27 1 N LYS B 22 O LEU B 124 SHEET 4 A 5 GLY B 174 GLN B 179 1 O ILE B 176 N GLU B 27 SHEET 5 A 5 ILE B 233 ASP B 237 1 O LEU B 234 N TYR B 177 SITE 1 AC1 21 ALA B 31 ALA B 32 GLY B 33 LYS B 34 SITE 2 AC1 21 SER B 35 THR B 36 ARG B 188 ARG B 192 SITE 3 AC1 21 TYR B 210 GLU B 213 HIS B 218 VAL B 238 SITE 4 AC1 21 GLU B 240 ASP B 241 PHE B 242 HOH B 310 SITE 5 AC1 21 HOH B 311 HOH B 325 HOH B 326 HOH B 341 SITE 6 AC1 21 HOH B 346 SITE 1 AC2 15 ILE B 30 GLU B 53 VAL B 55 TRP B 58 SITE 2 AC2 15 LEU B 82 MET B 85 TYR B 86 PHE B 96 SITE 3 AC2 15 GLN B 97 ARG B 128 ASP B 133 PHE B 137 SITE 4 AC2 15 GLU B 197 HOH B 303 HOH B 323 CRYST1 80.001 80.001 93.946 90.00 90.00 90.00 P 43 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 0.012500 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012500 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010644 0.00000