PDB Short entry for 2W7P HEADER DNA BINDING PROTEIN 23-DEC-08 2W7P TITLE STRUCTURE AND ACTIVITY OF BYPASS SYNTHESIS BY HUMAN DNA POLYMERASE TITLE 2 KAPPA OPPOSITE THE 7,8-DIHYDRO-8-OXODEOXYGUANOSINE ADDUCT COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA POLYMERASE KAPPA; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: RESIDUES 19-526; COMPND 5 SYNONYM: DINB, DINP; COMPND 6 EC: 2.7.7.7; COMPND 7 ENGINEERED: YES; COMPND 8 OTHER_DETAILS: HUMAN DNA POLYMERASE KAPPA CATALYTIC CORE, RESIDUES COMPND 9 19-526; COMPND 10 MOL_ID: 2; COMPND 11 MOLECULE: 5'-D(*GP*GP*GP*GP*GP*AP*AP*GP*GP*AP*TP*TP*C)-3'; COMPND 12 CHAIN: E, P; COMPND 13 ENGINEERED: YES; COMPND 14 OTHER_DETAILS: PRIMER; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: 5'-D(TP*CP*AP*CP*8OGP*GP*AP*AP*TP*CP*CP*TP* COMPND 17 TP*CP*CP*CP*CP*C)-3'; COMPND 18 CHAIN: F, T; COMPND 19 ENGINEERED: YES; COMPND 20 OTHER_DETAILS: TEMPLATE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: POLK, DINB1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3)GOLD; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PBG101; SOURCE 11 MOL_ID: 2; SOURCE 12 SYNTHETIC: YES; SOURCE 13 MOL_ID: 3; SOURCE 14 SYNTHETIC: YES KEYWDS 8-OXO-2P-DEOXY-GUANOSINE-5P-MONOPHOSPHATE, TRANSLESION DNA KEYWDS 2 POLYMERASE, HUMAN DNA POLYMERASE KAPPA, DATP, DNA REPAIR, DNA KEYWDS 3 DAMAGE, DNA-BINDING PROTEIN, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR A.IRIMIA,M.EGLI REVDAT 4 13-DEC-23 2W7P 1 REMARK LINK REVDAT 3 25-AUG-09 2W7P 1 JRNL REVDAT 2 30-JUN-09 2W7P 1 JRNL REVDAT 1 16-JUN-09 2W7P 0 JRNL AUTH A.IRIMIA,R.L.EOFF,F.P.GUENGERICH,M.EGLI JRNL TITL STRUCTURAL AND FUNCTIONAL ELUCIDATION OF THE MECHANISM JRNL TITL 2 PROMOTING ERROR-PRONE SYNTHESIS BY HUMAN DNA POLYMERASE JRNL TITL 3 KAPPA OPPOSITE THE 7,8-DIHYDRO-8-OXO-2'-DEOXYGUANOSINE JRNL TITL 4 ADDUCT. JRNL REF J.BIOL.CHEM. V. 284 22467 2009 JRNL REFN ISSN 0021-9258 JRNL PMID 19542228 JRNL DOI 10.1074/JBC.M109.003905 REMARK 2 REMARK 2 RESOLUTION. 3.71 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.2 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.71 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.65 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 5450614.550 REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.9 REMARK 3 NUMBER OF REFLECTIONS : 23026 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 SET) : 0.236 REMARK 3 FREE R VALUE : 0.273 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1113 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.008 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.93 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 86.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 3261 REMARK 3 BIN R VALUE (WORKING SET) : 0.3510 REMARK 3 BIN FREE R VALUE : 0.3860 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 158 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.031 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6913 REMARK 3 NUCLEIC ACID ATOMS : 1136 REMARK 3 HETEROGEN ATOMS : 64 REMARK 3 SOLVENT ATOMS : 12 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 62.50 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 95.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 25.20000 REMARK 3 B22 (A**2) : -47.35000 REMARK 3 B33 (A**2) : 22.15000 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.48 REMARK 3 ESD FROM SIGMAA (A) : 1.00 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.58 REMARK 3 ESD FROM C-V SIGMAA (A) : 1.00 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.500 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.00 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.960 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.190 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.160 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.450 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.540 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.25 REMARK 3 BSOL : 13.45 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : DNA-RNA1.PARAM REMARK 3 PARAMETER FILE 3 : DATP.PARAM REMARK 3 PARAMETER FILE 4 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 5 : ION.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA1.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : DATP.TOP REMARK 3 TOPOLOGY FILE 5 : ION.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT MODEL USED REMARK 4 REMARK 4 2W7P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-DEC-08. REMARK 100 THE DEPOSITION ID IS D_1290038455. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-OCT-07 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-F REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.00 REMARK 200 MONOCHROMATOR : DIAMOND 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23041 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.710 REMARK 200 RESOLUTION RANGE LOW (A) : 44.650 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.9 REMARK 200 DATA REDUNDANCY : 5.400 REMARK 200 R MERGE (I) : 0.15000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 10.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.93 REMARK 200 COMPLETENESS FOR SHELL (%) : 86.4 REMARK 200 DATA REDUNDANCY IN SHELL : 5.50 REMARK 200 R MERGE FOR SHELL (I) : 0.62000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.900 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 2W7O REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 75.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 4.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 70 MM NACL,1.35 MM KCL, 2.1 MM REMARK 280 NA2HPO4, 0.75 MM KH2PO4, PH 7.4, 5 MM GLYCEROL, 0.5 MM EDTA, 0.5 REMARK 280 MM DTT, 2.5 MM 2-MERCHAPTOETHANOL, 0.05% NONIDET P-40, 2.5 MM REMARK 280 CACL2, 2.5 MM DATP, 11% PEG5000MME, 0.1 M AMMONIUM ACETATE,10 MM REMARK 280 MES PH 6.5, PH 7.0 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 59.60400 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 59.60400 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 83.91450 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 110.42350 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 83.91450 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 110.42350 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 59.60400 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 83.91450 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 110.42350 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 59.60400 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 83.91450 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 110.42350 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 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: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26750 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -63.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, P, T 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 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 6000 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26090 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -59.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, E, F 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 19 REMARK 465 GLY A 20 REMARK 465 LEU A 21 REMARK 465 ASN A 22 REMARK 465 ASP A 23 REMARK 465 ASN A 24 REMARK 465 LYS A 25 REMARK 465 ALA A 26 REMARK 465 GLY A 27 REMARK 465 MET A 28 REMARK 465 GLU A 29 REMARK 465 GLY A 30 REMARK 465 LEU A 31 REMARK 465 ASP A 32 REMARK 465 MET A 225 REMARK 465 GLY A 226 REMARK 465 SER A 227 REMARK 465 SER A 228 REMARK 465 VAL A 229 REMARK 465 GLU A 230 REMARK 465 ASN A 231 REMARK 465 ASP A 232 REMARK 465 ASN A 233 REMARK 465 PRO A 234 REMARK 465 GLY A 235 REMARK 465 LYS A 236 REMARK 465 GLU A 237 REMARK 465 VAL A 238 REMARK 465 ASN A 239 REMARK 465 LYS A 240 REMARK 465 LEU A 241 REMARK 465 SER A 242 REMARK 465 GLU A 243 REMARK 465 HIS A 244 REMARK 465 GLU A 245 REMARK 465 ARG A 246 REMARK 465 SER A 247 REMARK 465 ILE A 248 REMARK 465 SER A 249 REMARK 465 PRO A 250 REMARK 465 LEU A 251 REMARK 465 LEU A 252 REMARK 465 PHE A 253 REMARK 465 GLU A 254 REMARK 465 GLU A 255 REMARK 465 SER A 256 REMARK 465 PRO A 257 REMARK 465 SER A 258 REMARK 465 ASP A 259 REMARK 465 VAL A 260 REMARK 465 GLN A 261 REMARK 465 PRO A 262 REMARK 465 PRO A 263 REMARK 465 GLY A 264 REMARK 465 ASP A 265 REMARK 465 PRO A 266 REMARK 465 PHE A 267 REMARK 465 GLN A 268 REMARK 465 VAL A 269 REMARK 465 ASN A 270 REMARK 465 PHE A 271 REMARK 465 GLU A 272 REMARK 465 GLU A 273 REMARK 465 GLN A 274 REMARK 465 ASN A 275 REMARK 465 ASN A 276 REMARK 465 PRO A 277 REMARK 465 GLN A 278 REMARK 465 ILE A 279 REMARK 465 LEU A 280 REMARK 465 GLN A 281 REMARK 465 ARG A 522 REMARK 465 LYS A 523 REMARK 465 HIS A 524 REMARK 465 GLN A 525 REMARK 465 GLN A 526 REMARK 465 MET B 19 REMARK 465 GLY B 20 REMARK 465 LEU B 21 REMARK 465 ASN B 22 REMARK 465 ASP B 23 REMARK 465 ASN B 24 REMARK 465 LYS B 25 REMARK 465 ALA B 26 REMARK 465 GLY B 27 REMARK 465 MET B 28 REMARK 465 GLU B 29 REMARK 465 GLY B 30 REMARK 465 LEU B 31 REMARK 465 ASP B 32 REMARK 465 LYS B 224 REMARK 465 MET B 225 REMARK 465 GLY B 226 REMARK 465 SER B 227 REMARK 465 SER B 228 REMARK 465 VAL B 229 REMARK 465 GLU B 230 REMARK 465 ASN B 231 REMARK 465 ASP B 232 REMARK 465 ASN B 233 REMARK 465 PRO B 234 REMARK 465 GLY B 235 REMARK 465 LYS B 236 REMARK 465 GLU B 237 REMARK 465 VAL B 238 REMARK 465 ASN B 239 REMARK 465 LYS B 240 REMARK 465 LEU B 241 REMARK 465 SER B 242 REMARK 465 GLU B 243 REMARK 465 HIS B 244 REMARK 465 GLU B 245 REMARK 465 ARG B 246 REMARK 465 SER B 247 REMARK 465 ILE B 248 REMARK 465 SER B 249 REMARK 465 PRO B 250 REMARK 465 LEU B 251 REMARK 465 LEU B 252 REMARK 465 PHE B 253 REMARK 465 GLU B 254 REMARK 465 GLU B 255 REMARK 465 SER B 256 REMARK 465 PRO B 257 REMARK 465 SER B 258 REMARK 465 ASP B 259 REMARK 465 VAL B 260 REMARK 465 GLN B 261 REMARK 465 PRO B 262 REMARK 465 PRO B 263 REMARK 465 GLY B 264 REMARK 465 ASP B 265 REMARK 465 PRO B 266 REMARK 465 PHE B 267 REMARK 465 GLN B 268 REMARK 465 VAL B 269 REMARK 465 ASN B 270 REMARK 465 PHE B 271 REMARK 465 GLU B 272 REMARK 465 GLU B 273 REMARK 465 GLN B 274 REMARK 465 ASN B 275 REMARK 465 ASN B 276 REMARK 465 PRO B 277 REMARK 465 GLN B 278 REMARK 465 ILE B 279 REMARK 465 LEU B 280 REMARK 465 GLN B 281 REMARK 465 ARG B 522 REMARK 465 LYS B 523 REMARK 465 HIS B 524 REMARK 465 GLN B 525 REMARK 465 GLN B 526 REMARK 465 DG E 1 REMARK 465 DG E 2 REMARK 465 DT F 1 REMARK 465 DC F 17 REMARK 465 DC F 18 REMARK 465 DT T 1 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 ASP A 521 CA C O CB CG OD1 OD2 REMARK 470 ASP B 521 CA C O CB CG OD1 OD2 REMARK 470 DG E 3 P OP1 OP2 REMARK 470 DC F 2 P OP1 OP2 REMARK 470 DC T 2 P OP1 OP2 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 C PHE A 500 CD PRO A 501 1.68 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 PRO A 501 C - N - CA ANGL. DEV. = 54.1 DEGREES REMARK 500 PRO A 501 C - N - CD ANGL. DEV. = -55.5 DEGREES REMARK 500 PRO B 121 C - N - CA ANGL. DEV. = 9.3 DEGREES REMARK 500 PRO B 127 C - N - CA ANGL. DEV. = 13.0 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 A 35 39.43 -82.99 REMARK 500 THR A 44 -35.66 -142.73 REMARK 500 LYS A 45 -73.46 -21.83 REMARK 500 SER A 47 130.50 -8.17 REMARK 500 ALA A 72 -13.67 -39.12 REMARK 500 SER A 76 1.74 -59.20 REMARK 500 GLN A 78 -33.73 -39.30 REMARK 500 GLN A 85 -72.37 -48.98 REMARK 500 VAL A 86 -70.22 -40.90 REMARK 500 LEU A 99 44.77 -89.26 REMARK 500 GLU A 122 -22.28 -36.90 REMARK 500 LEU A 123 -74.97 -81.55 REMARK 500 LYS A 124 -72.00 41.28 REMARK 500 ALA A 129 124.05 178.62 REMARK 500 ARG A 145 -7.53 -55.54 REMARK 500 VAL A 148 107.64 -59.13 REMARK 500 PRO A 153 134.80 -35.67 REMARK 500 LYS A 158 -9.47 -59.19 REMARK 500 CYS A 161 71.86 -150.21 REMARK 500 ASP A 187 11.18 -58.79 REMARK 500 ASP A 189 107.29 -164.07 REMARK 500 ASN A 191 58.37 -114.17 REMARK 500 MET A 193 122.82 51.92 REMARK 500 ALA A 200 145.55 -170.97 REMARK 500 ASN A 203 67.69 -112.48 REMARK 500 ILE A 204 14.96 -63.51 REMARK 500 GLU A 210 30.66 -79.21 REMARK 500 ASN A 213 68.96 -103.00 REMARK 500 PRO A 215 -175.15 -62.46 REMARK 500 ILE A 223 -107.57 -82.08 REMARK 500 GLN A 303 46.60 -74.36 REMARK 500 LYS A 304 12.66 -169.96 REMARK 500 THR A 305 -26.70 -162.62 REMARK 500 THR A 306 -12.24 85.23 REMARK 500 ASN A 330 75.05 36.54 REMARK 500 LEU A 336 172.37 -55.62 REMARK 500 GLN A 340 -45.02 -29.46 REMARK 500 SER A 355 36.42 -67.01 REMARK 500 GLN A 378 38.63 -96.02 REMARK 500 GLN A 379 15.42 -142.92 REMARK 500 LEU A 386 -30.53 -135.17 REMARK 500 SER A 388 154.72 -34.01 REMARK 500 THR A 390 -16.87 -44.19 REMARK 500 THR A 405 23.40 -144.15 REMARK 500 THR A 408 -75.25 -33.24 REMARK 500 ARG A 409 155.78 82.99 REMARK 500 ASP A 410 72.18 74.73 REMARK 500 ARG A 413 121.65 79.10 REMARK 500 MET A 416 125.75 -176.13 REMARK 500 ARG A 420 139.17 179.98 REMARK 500 REMARK 500 THIS ENTRY HAS 155 RAMACHANDRAN OUTLIERS. 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 ASN B 282 SER B 283 108.89 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 DT P 12 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1522 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 107 OD2 REMARK 620 2 ASP A 325 OD1 88.8 REMARK 620 3 ASP A 325 OD2 112.9 45.4 REMARK 620 4 DTP A1521 O1B 65.2 89.2 68.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1523 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A 108 O REMARK 620 2 ASP A 198 OD2 111.2 REMARK 620 3 DTP A1521 O3' 165.8 80.3 REMARK 620 4 DTP A1521 O3B 99.5 98.3 86.5 REMARK 620 5 DTP A1521 O2B 91.8 52.9 102.0 52.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B1523 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 107 OD1 REMARK 620 2 MET B 108 O 69.7 REMARK 620 3 ASP B 198 OD2 77.0 104.8 REMARK 620 4 DTP B1521 O3A 75.0 136.5 90.9 REMARK 620 5 DTP B1521 O2B 64.6 90.4 130.5 50.9 REMARK 620 6 DTP B1521 O2G 137.6 107.4 139.5 82.4 73.3 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA B1522 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 325 OD1 REMARK 620 2 DTP B1521 O2A 121.0 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DTP A 1521 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE DTP B 1521 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1522 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 1523 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 1522 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA B 1523 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1T94 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE CATALYTIC CORE OF HUMAN DNAPOLYMERASE KAPPA REMARK 900 RELATED ID: 2W7O RELATED DB: PDB REMARK 900 STRUCTURE AND ACTIVITY OF BYPASS SYNTHESIS BY HUMAN DNA POLYMERASE REMARK 900 KAPPA OPPOSITE THE 7,8-DIHYDRO-8-OXODEOXYGUANOSINE ADDUCT DBREF 2W7P A 19 526 UNP Q9UBT6 POLK_HUMAN 19 526 DBREF 2W7P B 19 526 UNP Q9UBT6 POLK_HUMAN 19 526 DBREF 2W7P P 1 13 PDB 2W7P 2W7P 1 13 DBREF 2W7P T 1 18 PDB 2W7P 2W7P 1 18 DBREF 2W7P E 1 13 PDB 2W7P 2W7P 1 13 DBREF 2W7P F 1 18 PDB 2W7P 2W7P 1 18 SEQRES 1 A 508 MET GLY LEU ASN ASP ASN LYS ALA GLY MET GLU GLY LEU SEQRES 2 A 508 ASP LYS GLU LYS ILE ASN LYS ILE ILE MET GLU ALA THR SEQRES 3 A 508 LYS GLY SER ARG PHE TYR GLY ASN GLU LEU LYS LYS GLU SEQRES 4 A 508 LYS GLN VAL ASN GLN ARG ILE GLU ASN MET MET GLN GLN SEQRES 5 A 508 LYS ALA GLN ILE THR SER GLN GLN LEU ARG LYS ALA GLN SEQRES 6 A 508 LEU GLN VAL ASP ARG PHE ALA MET GLU LEU GLU GLN SER SEQRES 7 A 508 ARG ASN LEU SER ASN THR ILE VAL HIS ILE ASP MET ASP SEQRES 8 A 508 ALA PHE TYR ALA ALA VAL GLU MET ARG ASP ASN PRO GLU SEQRES 9 A 508 LEU LYS ASP LYS PRO ILE ALA VAL GLY SER MET SER MET SEQRES 10 A 508 LEU SER THR SER ASN TYR HIS ALA ARG ARG PHE GLY VAL SEQRES 11 A 508 ARG ALA ALA MET PRO GLY PHE ILE ALA LYS ARG LEU CYS SEQRES 12 A 508 PRO GLN LEU ILE ILE VAL PRO PRO ASN PHE ASP LYS TYR SEQRES 13 A 508 ARG ALA VAL SER LYS GLU VAL LYS GLU ILE LEU ALA ASP SEQRES 14 A 508 TYR ASP PRO ASN PHE MET ALA MET SER LEU ASP GLU ALA SEQRES 15 A 508 TYR LEU ASN ILE THR LYS HIS LEU GLU GLU ARG GLN ASN SEQRES 16 A 508 TRP PRO GLU ASP LYS ARG ARG TYR PHE ILE LYS MET GLY SEQRES 17 A 508 SER SER VAL GLU ASN ASP ASN PRO GLY LYS GLU VAL ASN SEQRES 18 A 508 LYS LEU SER GLU HIS GLU ARG SER ILE SER PRO LEU LEU SEQRES 19 A 508 PHE GLU GLU SER PRO SER ASP VAL GLN PRO PRO GLY ASP SEQRES 20 A 508 PRO PHE GLN VAL ASN PHE GLU GLU GLN ASN ASN PRO GLN SEQRES 21 A 508 ILE LEU GLN ASN SER VAL VAL PHE GLY THR SER ALA GLN SEQRES 22 A 508 GLU VAL VAL LYS GLU ILE ARG PHE ARG ILE GLU GLN LYS SEQRES 23 A 508 THR THR LEU THR ALA SER ALA GLY ILE ALA PRO ASN THR SEQRES 24 A 508 MET LEU ALA LYS VAL CYS SER ASP LYS ASN LYS PRO ASN SEQRES 25 A 508 GLY GLN TYR GLN ILE LEU PRO ASN ARG GLN ALA VAL MET SEQRES 26 A 508 ASP PHE ILE LYS ASP LEU PRO ILE ARG LYS VAL SER GLY SEQRES 27 A 508 ILE GLY LYS VAL THR GLU LYS MET LEU LYS ALA LEU GLY SEQRES 28 A 508 ILE ILE THR CYS THR GLU LEU TYR GLN GLN ARG ALA LEU SEQRES 29 A 508 LEU SER LEU LEU PHE SER GLU THR SER TRP HIS TYR PHE SEQRES 30 A 508 LEU HIS ILE SER LEU GLY LEU GLY SER THR HIS LEU THR SEQRES 31 A 508 ARG ASP GLY GLU ARG LYS SER MET SER VAL GLU ARG THR SEQRES 32 A 508 PHE SER GLU ILE ASN LYS ALA GLU GLU GLN TYR SER LEU SEQRES 33 A 508 CYS GLN GLU LEU CYS SER GLU LEU ALA GLN ASP LEU GLN SEQRES 34 A 508 LYS GLU ARG LEU LYS GLY ARG THR VAL THR ILE LYS LEU SEQRES 35 A 508 LYS ASN VAL ASN PHE GLU VAL LYS THR ARG ALA SER THR SEQRES 36 A 508 VAL SER SER VAL VAL SER THR ALA GLU GLU ILE PHE ALA SEQRES 37 A 508 ILE ALA LYS GLU LEU LEU LYS THR GLU ILE ASP ALA ASP SEQRES 38 A 508 PHE PRO HIS PRO LEU ARG LEU ARG LEU MET GLY VAL ARG SEQRES 39 A 508 ILE SER SER PHE PRO ASN GLU GLU ASP ARG LYS HIS GLN SEQRES 40 A 508 GLN SEQRES 1 B 508 MET GLY LEU ASN ASP ASN LYS ALA GLY MET GLU GLY LEU SEQRES 2 B 508 ASP LYS GLU LYS ILE ASN LYS ILE ILE MET GLU ALA THR SEQRES 3 B 508 LYS GLY SER ARG PHE TYR GLY ASN GLU LEU LYS LYS GLU SEQRES 4 B 508 LYS GLN VAL ASN GLN ARG ILE GLU ASN MET MET GLN GLN SEQRES 5 B 508 LYS ALA GLN ILE THR SER GLN GLN LEU ARG LYS ALA GLN SEQRES 6 B 508 LEU GLN VAL ASP ARG PHE ALA MET GLU LEU GLU GLN SER SEQRES 7 B 508 ARG ASN LEU SER ASN THR ILE VAL HIS ILE ASP MET ASP SEQRES 8 B 508 ALA PHE TYR ALA ALA VAL GLU MET ARG ASP ASN PRO GLU SEQRES 9 B 508 LEU LYS ASP LYS PRO ILE ALA VAL GLY SER MET SER MET SEQRES 10 B 508 LEU SER THR SER ASN TYR HIS ALA ARG ARG PHE GLY VAL SEQRES 11 B 508 ARG ALA ALA MET PRO GLY PHE ILE ALA LYS ARG LEU CYS SEQRES 12 B 508 PRO GLN LEU ILE ILE VAL PRO PRO ASN PHE ASP LYS TYR SEQRES 13 B 508 ARG ALA VAL SER LYS GLU VAL LYS GLU ILE LEU ALA ASP SEQRES 14 B 508 TYR ASP PRO ASN PHE MET ALA MET SER LEU ASP GLU ALA SEQRES 15 B 508 TYR LEU ASN ILE THR LYS HIS LEU GLU GLU ARG GLN ASN SEQRES 16 B 508 TRP PRO GLU ASP LYS ARG ARG TYR PHE ILE LYS MET GLY SEQRES 17 B 508 SER SER VAL GLU ASN ASP ASN PRO GLY LYS GLU VAL ASN SEQRES 18 B 508 LYS LEU SER GLU HIS GLU ARG SER ILE SER PRO LEU LEU SEQRES 19 B 508 PHE GLU GLU SER PRO SER ASP VAL GLN PRO PRO GLY ASP SEQRES 20 B 508 PRO PHE GLN VAL ASN PHE GLU GLU GLN ASN ASN PRO GLN SEQRES 21 B 508 ILE LEU GLN ASN SER VAL VAL PHE GLY THR SER ALA GLN SEQRES 22 B 508 GLU VAL VAL LYS GLU ILE ARG PHE ARG ILE GLU GLN LYS SEQRES 23 B 508 THR THR LEU THR ALA SER ALA GLY ILE ALA PRO ASN THR SEQRES 24 B 508 MET LEU ALA LYS VAL CYS SER ASP LYS ASN LYS PRO ASN SEQRES 25 B 508 GLY GLN TYR GLN ILE LEU PRO ASN ARG GLN ALA VAL MET SEQRES 26 B 508 ASP PHE ILE LYS ASP LEU PRO ILE ARG LYS VAL SER GLY SEQRES 27 B 508 ILE GLY LYS VAL THR GLU LYS MET LEU LYS ALA LEU GLY SEQRES 28 B 508 ILE ILE THR CYS THR GLU LEU TYR GLN GLN ARG ALA LEU SEQRES 29 B 508 LEU SER LEU LEU PHE SER GLU THR SER TRP HIS TYR PHE SEQRES 30 B 508 LEU HIS ILE SER LEU GLY LEU GLY SER THR HIS LEU THR SEQRES 31 B 508 ARG ASP GLY GLU ARG LYS SER MET SER VAL GLU ARG THR SEQRES 32 B 508 PHE SER GLU ILE ASN LYS ALA GLU GLU GLN TYR SER LEU SEQRES 33 B 508 CYS GLN GLU LEU CYS SER GLU LEU ALA GLN ASP LEU GLN SEQRES 34 B 508 LYS GLU ARG LEU LYS GLY ARG THR VAL THR ILE LYS LEU SEQRES 35 B 508 LYS ASN VAL ASN PHE GLU VAL LYS THR ARG ALA SER THR SEQRES 36 B 508 VAL SER SER VAL VAL SER THR ALA GLU GLU ILE PHE ALA SEQRES 37 B 508 ILE ALA LYS GLU LEU LEU LYS THR GLU ILE ASP ALA ASP SEQRES 38 B 508 PHE PRO HIS PRO LEU ARG LEU ARG LEU MET GLY VAL ARG SEQRES 39 B 508 ILE SER SER PHE PRO ASN GLU GLU ASP ARG LYS HIS GLN SEQRES 40 B 508 GLN SEQRES 1 E 13 DG DG DG DG DG DA DA DG DG DA DT DT DC SEQRES 1 F 18 DT DC DA DC 8OG DG DA DA DT DC DC DT DT SEQRES 2 F 18 DC DC DC DC DC SEQRES 1 P 13 DG DG DG DG DG DA DA DG DG DA DT DT DC SEQRES 1 T 18 DT DC DA DC 8OG DG DA DA DT DC DC DT DT SEQRES 2 T 18 DC DC DC DC DC MODRES 2W7P 8OG F 5 DG MODRES 2W7P 8OG T 5 DG HET 8OG F 5 23 HET 8OG T 5 23 HET DTP A1521 30 HET CA A1522 1 HET CA A1523 1 HET DTP B1521 30 HET CA B1522 1 HET CA B1523 1 HETNAM 8OG 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETNAM DTP 2'-DEOXYADENOSINE 5'-TRIPHOSPHATE HETNAM CA CALCIUM ION HETSYN 8OG 8-OXO-7,8-DIHYDRO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE FORMUL 4 8OG 2(C10 H14 N5 O8 P) FORMUL 7 DTP 2(C10 H16 N5 O12 P3) FORMUL 8 CA 4(CA 2+) FORMUL 13 HOH *12(H2 O) HELIX 1 1 ILE A 36 MET A 41 1 6 HELIX 2 2 SER A 47 GLN A 73 1 27 HELIX 3 3 GLN A 77 SER A 96 1 20 HELIX 4 4 ALA A 110 ASN A 120 1 11 HELIX 5 5 ASN A 140 ARG A 145 1 6 HELIX 6 6 PRO A 153 CYS A 161 1 9 HELIX 7 7 ASN A 170 ASP A 187 1 18 HELIX 8 8 ILE A 204 GLU A 210 1 7 HELIX 9 9 GLU A 216 LYS A 218 5 3 HELIX 10 10 SER A 289 GLN A 303 1 15 HELIX 11 11 ASN A 316 ASN A 327 1 12 HELIX 12 12 ASN A 338 LYS A 347 1 10 HELIX 13 13 ILE A 351 VAL A 354 5 4 HELIX 14 14 GLY A 358 ALA A 367 1 10 HELIX 15 15 THR A 372 GLN A 378 1 7 HELIX 16 16 GLN A 379 SER A 384 1 6 HELIX 17 17 SER A 388 GLY A 401 1 14 HELIX 18 18 LYS A 427 LEU A 446 1 20 HELIX 19 19 THR A 480 ASP A 499 1 20 HELIX 20 20 LYS B 35 LYS B 45 1 11 HELIX 21 21 PHE B 49 ALA B 72 1 24 HELIX 22 22 THR B 75 SER B 96 1 22 HELIX 23 23 PHE B 111 ASP B 119 1 9 HELIX 24 24 ASN B 140 ARG B 145 1 6 HELIX 25 25 PRO B 153 CYS B 161 1 9 HELIX 26 26 ASN B 170 ASP B 189 1 20 HELIX 27 27 THR B 205 ARG B 211 1 7 HELIX 28 28 SER B 289 LYS B 304 1 16 HELIX 29 29 ASN B 316 ASP B 325 1 10 HELIX 30 30 ASN B 338 ILE B 346 1 9 HELIX 31 31 GLY B 358 ALA B 367 1 10 HELIX 32 32 THR B 372 GLN B 379 1 8 HELIX 33 33 GLN B 379 SER B 384 1 6 HELIX 34 34 SER B 388 SER B 399 1 12 HELIX 35 35 LYS B 427 GLN B 447 1 21 HELIX 36 36 LYS B 448 ARG B 450 5 3 HELIX 37 37 THR B 480 ASP B 499 1 20 SHEET 1 AA 4 GLU A 199 ASN A 203 0 SHEET 2 AA 4 ILE A 103 MET A 108 -1 O VAL A 104 N LEU A 202 SHEET 3 AA 4 ALA A 309 ALA A 314 -1 O SER A 310 N ASP A 107 SHEET 4 AA 4 GLN A 332 GLN A 334 1 O TYR A 333 N ILE A 313 SHEET 1 AB 3 LEU A 136 THR A 138 0 SHEET 2 AB 3 ILE A 128 GLY A 131 -1 O VAL A 130 N SER A 137 SHEET 3 AB 3 ILE A 165 VAL A 167 1 O ILE A 165 N ALA A 129 SHEET 1 AC 2 ARG A 220 PHE A 222 0 SHEET 2 AC 2 SER A 283 VAL A 285 -1 O VAL A 284 N TYR A 221 SHEET 1 AD 4 MET A 416 ILE A 425 0 SHEET 2 AD 4 LEU A 506 SER A 514 -1 O LEU A 506 N ILE A 425 SHEET 3 AD 4 THR A 455 ASN A 462 -1 O THR A 455 N SER A 514 SHEET 4 AD 4 THR A 469 THR A 473 -1 O ARG A 470 N ILE A 458 SHEET 1 BA 5 MET B 193 ALA B 194 0 SHEET 2 BA 5 GLU B 199 LEU B 202 -1 O TYR B 201 N MET B 193 SHEET 3 BA 5 ILE B 103 MET B 108 -1 O VAL B 104 N LEU B 202 SHEET 4 BA 5 ALA B 309 ALA B 314 -1 O SER B 310 N ASP B 107 SHEET 5 BA 5 GLN B 332 GLN B 334 1 O TYR B 333 N ILE B 313 SHEET 1 BB 2 VAL B 130 GLY B 131 0 SHEET 2 BB 2 LEU B 136 THR B 138 -1 N SER B 137 O VAL B 130 SHEET 1 BC 4 SER B 415 ILE B 425 0 SHEET 2 BC 4 LEU B 506 SER B 514 -1 O LEU B 506 N ILE B 425 SHEET 3 BC 4 THR B 455 LYS B 461 -1 O THR B 455 N SER B 514 SHEET 4 BC 4 ALA B 471 THR B 473 -1 O SER B 472 N VAL B 456 LINK O3' DC F 4 P 8OG F 5 1555 1555 1.60 LINK O3' 8OG F 5 P DG F 6 1555 1555 1.62 LINK O3' DC T 4 P 8OG T 5 1555 1555 1.60 LINK O3' 8OG T 5 P DG T 6 1555 1555 1.60 LINK OD2 ASP A 107 CA CA A1522 1555 1555 2.92 LINK O MET A 108 CA CA A1523 1555 1555 2.68 LINK OD2 ASP A 198 CA CA A1523 1555 1555 2.69 LINK OD1 ASP A 325 CA CA A1522 1555 1555 2.78 LINK OD2 ASP A 325 CA CA A1522 1555 1555 2.92 LINK O1B DTP A1521 CA CA A1522 1555 1555 3.12 LINK O3' DTP A1521 CA CA A1523 1555 1555 3.14 LINK O3B DTP A1521 CA CA A1523 1555 1555 2.89 LINK O2B DTP A1521 CA CA A1523 1555 1555 2.91 LINK OD1 ASP B 107 CA CA B1523 1555 1555 2.59 LINK O MET B 108 CA CA B1523 1555 1555 2.66 LINK OD2 ASP B 198 CA CA B1523 1555 1555 2.81 LINK OD1 ASP B 325 CA CA B1522 1555 1555 2.91 LINK O2A DTP B1521 CA CA B1522 1555 1555 2.81 LINK O3A DTP B1521 CA CA B1523 1555 1555 3.06 LINK O2B DTP B1521 CA CA B1523 1555 1555 2.79 LINK O2G DTP B1521 CA CA B1523 1555 1555 2.77 CISPEP 1 LYS A 328 PRO A 329 0 0.12 SITE 1 AC1 16 ASP A 107 MET A 108 ASP A 109 ALA A 110 SITE 2 AC1 16 SER A 137 THR A 138 TYR A 141 ARG A 144 SITE 3 AC1 16 ALA A 150 ASP A 198 ASP A 325 LYS A 328 SITE 4 AC1 16 CA A1522 CA A1523 DC P 13 8OG T 5 SITE 1 AC2 13 ASP B 107 ALA B 110 SER B 137 THR B 138 SITE 2 AC2 13 ARG B 144 ALA B 151 ASP B 198 ASP B 325 SITE 3 AC2 13 LYS B 328 CA B1522 CA B1523 DC E 13 SITE 4 AC2 13 8OG F 5 SITE 1 AC3 3 ASP A 107 ASP A 325 DTP A1521 SITE 1 AC4 4 ASP A 107 MET A 108 ASP A 198 DTP A1521 SITE 1 AC5 3 ASP B 107 ASP B 325 DTP B1521 SITE 1 AC6 4 ASP B 107 MET B 108 ASP B 198 DTP B1521 CRYST1 167.829 220.847 119.208 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 0.005958 0.000000 0.000000 0.00000 SCALE2 0.000000 0.004528 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008389 0.00000