HEADER HYDROLASE, LYASE/DNA 26-AUG-06 2I5W TITLE STRUCTURE OF HOGG1 CROSSLINKED TO DNA SAMPLING A NORMAL G ADJACENT TO TITLE 2 AN OXOG COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*GP*A)-3'; COMPND 3 CHAIN: E; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: 5'-D(P*CP*CP*AP*GP*(G42)P*TP*CP*TP*AP*C)-3'; COMPND 7 CHAIN: F; COMPND 8 ENGINEERED: YES; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: N-GLYCOSYLASE/DNA LYASE; COMPND 11 CHAIN: A; COMPND 12 FRAGMENT: 8-OXOGUANINE DNA GLYCOSYLASE, DNA-(APURINIC OR APYRIMIDINIC COMPND 13 SITE) LYASE, AP LYASE; COMPND 14 EC: 3.2.2.-, 4.2.99.18; COMPND 15 ENGINEERED: YES; COMPND 16 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: SYNTHESIZED BY SOLID PHASE DNA SYNTHESIS AND SOURCE 4 SUBSEQUENT MANIPULATIONS.; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 OTHER_DETAILS: SYNTHESIZED BY SOLID PHASE DNA SYNTHESIS; SOURCE 8 MOL_ID: 3; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: OGG1, MMH, MUTM, OGH1; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 14 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 15 EXPRESSION_SYSTEM_STRAIN: BL-21(DE3); SOURCE 16 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 17 EXPRESSION_SYSTEM_PLASMID: PET30 KEYWDS DISULFIDE CROSSLINK, PROTEIN-DNA COMPLEX, DNA GLYCOSYLASE, HYDROLASE, KEYWDS 2 LYASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.BANERJEE,G.L.VERDINE REVDAT 7 21-FEB-24 2I5W 1 REMARK REVDAT 6 20-OCT-21 2I5W 1 REMARK SEQADV LINK REVDAT 5 18-OCT-17 2I5W 1 REMARK REVDAT 4 13-JUL-11 2I5W 1 VERSN REVDAT 3 24-FEB-09 2I5W 1 VERSN REVDAT 2 07-NOV-06 2I5W 1 JRNL REVDAT 1 17-OCT-06 2I5W 0 JRNL AUTH A.BANERJEE,G.L.VERDINE JRNL TITL A NUCLEOBASE LESION REMODELS THE INTERACTION OF ITS NORMAL JRNL TITL 2 NEIGHBOR IN A DNA GLYCOSYLASE COMPLEX. JRNL REF PROC.NATL.ACAD.SCI.USA V. 103 15020 2006 JRNL REFN ISSN 0027-8424 JRNL PMID 17015827 JRNL DOI 10.1073/PNAS.0603644103 REMARK 2 REMARK 2 RESOLUTION. 2.60 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 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 : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.76 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 91.5 REMARK 3 NUMBER OF REFLECTIONS : 15478 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) : 0.226 REMARK 3 FREE R VALUE : 0.266 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 762 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.010 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.69 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 72.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1146 REMARK 3 BIN R VALUE (WORKING SET) : 0.3400 REMARK 3 BIN FREE R VALUE : 0.4420 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.10 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 49 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.063 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2429 REMARK 3 NUCLEIC ACID ATOMS : 452 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 49 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 57.55 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 9.25000 REMARK 3 B22 (A**2) : 9.25000 REMARK 3 B33 (A**2) : -18.49000 REMARK 3 B12 (A**2) : 17.36000 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) : 0.35 REMARK 3 ESD FROM SIGMAA (A) : 0.48 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) : 0.44 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.59 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.200 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 20.90 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.840 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.990 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 3.170 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 5.970 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 8.440 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : CNS BULK SOLVENT MODEL USED REMARK 3 KSOL : 0.34 REMARK 3 BSOL : 36.54 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 : CNS_TOPPAR:PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CNS_TOPPAR:DNA-RNA_REP.PARAM REMARK 3 PARAMETER FILE 3 : CNS_TOPPAR:WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : CNS_TOPPAR:ION.PARAM REMARK 3 PARAMETER FILE 5 : OXO_GOL_PAR.TXT REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : DNA-RNA.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : OXO_GOL_TOP.TXT REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2I5W COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-SEP-06. REMARK 100 THE DEPOSITION ID IS D_1000039176. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-SEP-05 REMARK 200 TEMPERATURE (KELVIN) : 77 REMARK 200 PH : 6.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK, HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16760 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 200 DATA REDUNDANCY : 7.800 REMARK 200 R MERGE (I) : 0.12800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.69 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 4.80 REMARK 200 R MERGE FOR SHELL (I) : 0.44600 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.53 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.04 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16-18% PEG 8000, 150 MM CACL2, 100 MM REMARK 280 SOD. CACODYLATE PH 6.0, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 277K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 65 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/6 REMARK 290 6555 X-Y,X,Z+5/6 REMARK 290 7555 Y,X,-Z+2/3 REMARK 290 8555 X-Y,-Y,-Z REMARK 290 9555 -X,-X+Y,-Z+1/3 REMARK 290 10555 -Y,-X,-Z+1/6 REMARK 290 11555 -X+Y,Y,-Z+1/2 REMARK 290 12555 X,X-Y,-Z+5/6 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 141.23200 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 70.61600 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 105.92400 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 35.30800 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 176.54000 REMARK 290 SMTRY1 7 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 7 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 141.23200 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 9 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 9 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 9 0.000000 0.000000 -1.000000 70.61600 REMARK 290 SMTRY1 10 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 10 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 -1.000000 35.30800 REMARK 290 SMTRY1 11 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 11 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 -1.000000 105.92400 REMARK 290 SMTRY1 12 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 12 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 12 0.000000 0.000000 -1.000000 176.54000 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: E, F, 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 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 CA CA A 324 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 A 80 REMARK 465 ASP A 81 REMARK 465 LYS A 82 REMARK 465 SER A 83 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 ARG A 30 NE CZ NH1 NH2 REMARK 470 GLU A 94 CD OE1 OE2 REMARK 470 GLU A 122 CD OE1 OE2 REMARK 470 GLN A 125 CG CD OE1 NE2 REMARK 470 LYS A 126 CG CD CE NZ REMARK 470 GLN A 164 CG CD OE1 NE2 REMARK 470 ARG A 206 CZ NH1 NH2 REMARK 470 GLN A 227 CG CD OE1 NE2 REMARK 470 GLU A 230 OE1 OE2 REMARK 470 SER A 286 OG REMARK 470 GLN A 287 CG CD OE1 NE2 REMARK 470 LYS A 289 CG CD CE NZ REMARK 470 SER A 305 OG REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 DC F 20 P DC F 20 OP3 -0.086 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 SER A 18 -8.47 -179.69 REMARK 500 THR A 19 49.08 -162.18 REMARK 500 SER A 41 33.34 -91.67 REMARK 500 THR A 69 -97.32 -100.70 REMARK 500 GLU A 70 -35.89 -137.17 REMARK 500 SER A 86 146.76 -176.58 REMARK 500 ARG A 87 157.13 -49.72 REMARK 500 GLN A 101 59.74 36.04 REMARK 500 LEU A 170 -80.12 -93.74 REMARK 500 ASP A 174 -127.55 56.53 REMARK 500 GLU A 218 -38.83 -148.16 REMARK 500 THR A 284 -67.46 -105.65 REMARK 500 THR A 285 -77.35 -60.26 REMARK 500 PRO A 309 -29.83 -39.51 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 F 61 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC F 26 OP1 REMARK 620 2 DC F 26 OP2 57.2 REMARK 620 3 CYS A 241 O 148.4 153.5 REMARK 620 4 LEU A 243 O 73.0 122.7 77.2 REMARK 620 5 VAL A 246 O 95.1 78.8 89.2 79.3 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A 324 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 372 O REMARK 620 2 HOH A 372 O 117.1 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 CA F 61 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 324 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 325 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YQK RELATED DB: PDB REMARK 900 HOGG1 CROSSLINKED TO DNA SAMPLING AN UNDAMAGED G REMARK 900 RELATED ID: 1EBM RELATED DB: PDB REMARK 900 HOGG1 COMPLEXED WITH OXOG CONTAINING DNA REMARK 900 RELATED ID: 1KO9 RELATED DB: PDB REMARK 900 STRUCTURE OF NATIVE HOGG1 DBREF 2I5W A 12 323 UNP O15527 OGG1_HUMAN 12 323 DBREF 2I5W E 1 12 PDB 2I5W 2I5W 1 12 DBREF 2I5W F 20 29 PDB 2I5W 2I5W 20 29 SEQADV 2I5W SER A 9 UNP O15527 CLONING ARTIFACT SEQADV 2I5W GLU A 10 UNP O15527 CLONING ARTIFACT SEQADV 2I5W PHE A 11 UNP O15527 CLONING ARTIFACT SEQADV 2I5W CYS A 149 UNP O15527 ASN 149 ENGINEERED MUTATION SEQRES 1 E 12 DG DG DT DA DG DA DC DC DT DG DG DA SEQRES 1 F 10 DC DC DA DG 8OG DT DC DT DA DC SEQRES 1 A 315 SER GLU PHE GLY HIS ARG THR LEU ALA SER THR PRO ALA SEQRES 2 A 315 LEU TRP ALA SER ILE PRO CYS PRO ARG SER GLU LEU ARG SEQRES 3 A 315 LEU ASP LEU VAL LEU PRO SER GLY GLN SER PHE ARG TRP SEQRES 4 A 315 ARG GLU GLN SER PRO ALA HIS TRP SER GLY VAL LEU ALA SEQRES 5 A 315 ASP GLN VAL TRP THR LEU THR GLN THR GLU GLU GLN LEU SEQRES 6 A 315 HIS CYS THR VAL TYR ARG GLY ASP LYS SER GLN ALA SER SEQRES 7 A 315 ARG PRO THR PRO ASP GLU LEU GLU ALA VAL ARG LYS TYR SEQRES 8 A 315 PHE GLN LEU ASP VAL THR LEU ALA GLN LEU TYR HIS HIS SEQRES 9 A 315 TRP GLY SER VAL ASP SER HIS PHE GLN GLU VAL ALA GLN SEQRES 10 A 315 LYS PHE GLN GLY VAL ARG LEU LEU ARG GLN ASP PRO ILE SEQRES 11 A 315 GLU CYS LEU PHE SER PHE ILE CYS SER SER CYS ASN ASN SEQRES 12 A 315 ILE ALA ARG ILE THR GLY MET VAL GLU ARG LEU CYS GLN SEQRES 13 A 315 ALA PHE GLY PRO ARG LEU ILE GLN LEU ASP ASP VAL THR SEQRES 14 A 315 TYR HIS GLY PHE PRO SER LEU GLN ALA LEU ALA GLY PRO SEQRES 15 A 315 GLU VAL GLU ALA HIS LEU ARG LYS LEU GLY LEU GLY TYR SEQRES 16 A 315 ARG ALA ARG TYR VAL SER ALA SER ALA ARG ALA ILE LEU SEQRES 17 A 315 GLU GLU GLN GLY GLY LEU ALA TRP LEU GLN GLN LEU ARG SEQRES 18 A 315 GLU SER SER TYR GLU GLU ALA HIS LYS ALA LEU CYS ILE SEQRES 19 A 315 LEU PRO GLY VAL GLY THR LYS VAL ALA ASP CYS ILE CYS SEQRES 20 A 315 LEU MET ALA LEU ASP LYS PRO GLN ALA VAL PRO VAL ASP SEQRES 21 A 315 VAL HIS MET TRP HIS ILE ALA GLN ARG ASP TYR SER TRP SEQRES 22 A 315 HIS PRO THR THR SER GLN ALA LYS GLY PRO SER PRO GLN SEQRES 23 A 315 THR ASN LYS GLU LEU GLY ASN PHE PHE ARG SER LEU TRP SEQRES 24 A 315 GLY PRO TYR ALA GLY TRP ALA GLN ALA VAL LEU PHE SER SEQRES 25 A 315 ALA ASP LEU MODRES 2I5W 8OG F 24 DG HET 8OG F 24 23 HET CA F 61 1 HET CA A 324 1 HET GOL A 325 6 HETNAM 8OG 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETNAM CA CALCIUM ION HETNAM GOL GLYCEROL HETSYN 8OG 8-OXO-7,8-DIHYDRO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 8OG C10 H14 N5 O8 P FORMUL 4 CA 2(CA 2+) FORMUL 6 GOL C3 H8 O3 FORMUL 7 HOH *49(H2 O) HELIX 1 1 THR A 19 TRP A 23 5 5 HELIX 2 2 ARG A 34 LEU A 39 1 6 HELIX 3 3 THR A 89 PHE A 100 1 12 HELIX 4 4 THR A 105 ASP A 117 1 13 HELIX 5 5 ASP A 117 GLN A 125 1 9 HELIX 6 6 LYS A 126 GLN A 128 5 3 HELIX 7 7 ASP A 136 SER A 147 1 12 HELIX 8 8 ASN A 151 GLY A 167 1 17 HELIX 9 9 SER A 183 GLY A 189 1 7 HELIX 10 10 GLU A 191 LYS A 198 1 8 HELIX 11 11 TYR A 203 GLU A 218 1 16 HELIX 12 12 GLY A 220 LEU A 228 1 9 HELIX 13 13 SER A 232 CYS A 241 1 10 HELIX 14 14 GLY A 247 ALA A 258 1 12 HELIX 15 15 ASP A 268 SER A 280 1 13 HELIX 16 16 SER A 292 GLY A 308 1 17 HELIX 17 17 TYR A 310 ASP A 322 1 13 SHEET 1 A 5 ALA A 24 PRO A 27 0 SHEET 2 A 5 GLN A 72 TYR A 78 -1 O CYS A 75 N ALA A 24 SHEET 3 A 5 GLN A 62 GLN A 68 -1 N VAL A 63 O TYR A 78 SHEET 4 A 5 HIS A 54 LEU A 59 -1 N TRP A 55 O LEU A 66 SHEET 5 A 5 ARG A 48 SER A 51 -1 N ARG A 48 O SER A 56 SHEET 1 B 2 ARG A 169 LEU A 173 0 SHEET 2 B 2 VAL A 176 HIS A 179 -1 O TYR A 178 N LEU A 170 LINK O3' DG F 23 P 8OG F 24 1555 1555 1.61 LINK O3' 8OG F 24 P DT F 25 1555 1555 1.61 LINK OP1 DC F 26 CA CA F 61 1555 1555 2.62 LINK OP2 DC F 26 CA CA F 61 1555 1555 2.73 LINK CA CA F 61 O CYS A 241 1555 1555 2.47 LINK CA CA F 61 O LEU A 243 1555 1555 3.16 LINK CA CA F 61 O VAL A 246 1555 1555 2.61 LINK CA CA A 324 O HOH A 372 1555 1555 2.90 LINK CA CA A 324 O HOH A 372 1555 10665 2.91 SITE 1 AC1 4 CYS A 241 LEU A 243 VAL A 246 DC F 26 SITE 1 AC2 1 HOH A 372 SITE 1 AC3 5 ARG A 46 GLU A 160 THR A 177 TYR A 178 SITE 2 AC3 5 HIS A 179 CRYST1 91.524 91.524 211.848 90.00 90.00 120.00 P 65 2 2 12 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 0.010926 0.006308 0.000000 0.00000 SCALE2 0.000000 0.012616 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004720 0.00000