HEADER LYASE/DNA 02-MAR-20 6W0R TITLE HUMAN 8-OXOGUANINE GLYCOSYLASE INTERROGATING FULLY INTRAHELICAL TITLE 2 UNDAMAGED DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: N-GLYCOSYLASE/DNA LYASE; COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.2.-,4.2.99.18; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: DNA (5'-D(P*CP*AP*GP*GP*TP*C)-3'); COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: DNA (5'-D(P*CP*CP*TP*GP*G)-3'); COMPND 13 CHAIN: C; COMPND 14 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: OGG1, MMH, MUTM, OGH1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 15 ORGANISM_TAXID: 9606 KEYWDS HOGG1, 8-OXOG, ENCOUNTER COMPLEX, INTERROGATION COMPLEX, DNA BINDING KEYWDS 2 PROTEIN, LYASE-DNA COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR U.SHIGDEL,G.VERDINE REVDAT 2 11-OCT-23 6W0R 1 REMARK REVDAT 1 23-SEP-20 6W0R 0 JRNL AUTH U.K.SHIGDEL,V.OVCHINNIKOV,S.J.LEE,J.A.SHIH,M.KARPLUS,K.NAM, JRNL AUTH 2 G.L.VERDINE JRNL TITL THE TRAJECTORY OF INTRAHELICAL LESION RECOGNITION AND JRNL TITL 2 EXTRUSION BY THE HUMAN 8-OXOGUANINE DNA GLYCOSYLASE. JRNL REF NAT COMMUN V. 11 4437 2020 JRNL REFN ESSN 2041-1723 JRNL PMID 32895378 JRNL DOI 10.1038/S41467-020-18290-2 REMARK 2 REMARK 2 RESOLUTION. 2.35 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 21448 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) : 0.210 REMARK 3 R VALUE (WORKING SET) : 0.208 REMARK 3 FREE R VALUE : 0.249 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.120 REMARK 3 FREE R VALUE TEST SET COUNT : 1099 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) : 2.35 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.40 REMARK 3 REFLECTION IN BIN (WORKING SET) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2850 REMARK 3 BIN FREE R VALUE SET COUNT : NULL REMARK 3 BIN FREE R VALUE : 0.3160 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2461 REMARK 3 NUCLEIC ACID ATOMS : 225 REMARK 3 HETEROGEN ATOMS : 22 REMARK 3 SOLVENT ATOMS : 114 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.73 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): NULL REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.300 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): NULL REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : NULL REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): NULL ; NULL ; NULL REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 8 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 9 A 323 REMARK 3 RESIDUE RANGE : B 21 B 26 REMARK 3 RESIDUE RANGE : C 6 C 10 REMARK 3 RESIDUE RANGE : A 401 A 401 REMARK 3 RESIDUE RANGE : B 101 B 101 REMARK 3 RESIDUE RANGE : A 402 A 404 REMARK 3 RESIDUE RANGE : A 501 A 611 REMARK 3 RESIDUE RANGE : B 201 B 203 REMARK 3 ORIGIN FOR THE GROUP (A): 3.137 -23.294 -1.879 REMARK 3 T TENSOR REMARK 3 T11: 0.2278 T22: 0.1486 REMARK 3 T33: 0.2292 T12: 0.0236 REMARK 3 T13: 0.0174 T23: 0.0166 REMARK 3 L TENSOR REMARK 3 L11: 1.1937 L22: 0.0405 REMARK 3 L33: 1.1035 L12: -0.0030 REMARK 3 L13: 0.3188 L23: 0.1935 REMARK 3 S TENSOR REMARK 3 S11: 0.0417 S12: -0.1076 S13: -0.1688 REMARK 3 S21: 0.0016 S22: 0.0040 S23: -0.0396 REMARK 3 S31: 0.1106 S32: -0.0025 S33: 0.0017 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.11 REMARK 3 ION PROBE RADIUS : NULL REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6W0R COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-MAR-20. REMARK 100 THE DEPOSITION ID IS D_1000247430. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 14-FEB-13 REMARK 200 TEMPERATURE (KELVIN) : 103 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9792 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 : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21524 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.350 REMARK 200 RESOLUTION RANGE LOW (A) : 44.460 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 5.800 REMARK 200 R MERGE (I) : 0.17000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.35 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.47 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.98900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 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: PHASER REMARK 200 STARTING MODEL: 1EBM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.99 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200 MM NH4NO3, AND 20 % POLYETHYLENE REMARK 280 GLYCOL 3350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K 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 140.35933 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 70.17967 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 105.26950 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 35.08983 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 175.44917 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 140.35933 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 70.17967 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 35.08983 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 105.26950 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 175.44917 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2590 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 15410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 GLY A 80 REMARK 465 ASP A 81 REMARK 465 LYS A 82 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 GLN A 84 CG CD OE1 NE2 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 THR A 69 -167.84 -100.46 REMARK 500 GLN A 121 -37.95 -33.91 REMARK 500 LEU A 170 -75.46 -107.64 REMARK 500 ASP A 174 -120.30 49.68 REMARK 500 ASP A 322 -70.60 -54.08 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 NA A 401 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 241 O REMARK 620 2 LEU A 243 O 99.0 REMARK 620 3 VAL A 246 O 82.3 84.4 REMARK 620 4 DC B 26 OP2 136.1 119.5 81.6 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NA A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 403 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NO3 A 404 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue S5Y B 101 DBREF 6W0R A 12 323 UNP O15527 OGG1_HUMAN 12 323 DBREF 6W0R B 21 26 PDB 6W0R 6W0R 21 26 DBREF 6W0R C 6 10 PDB 6W0R 6W0R 6 10 SEQADV 6W0R GLY A 9 UNP O15527 EXPRESSION TAG SEQADV 6W0R SER A 10 UNP O15527 EXPRESSION TAG SEQADV 6W0R GLU A 11 UNP O15527 EXPRESSION TAG SEQADV 6W0R GLN A 122 UNP O15527 GLU 122 ENGINEERED MUTATION SEQADV 6W0R CYS A 207 UNP O15527 TYR 207 ENGINEERED MUTATION SEQRES 1 A 315 GLY SER GLU 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 GLN 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 ASN 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 CYS 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 SEQRES 1 B 6 DC DA DG DG DT DC SEQRES 1 C 5 DC DC DT DG DG HET NA A 401 1 HET NO3 A 402 4 HET NO3 A 403 4 HET NO3 A 404 4 HET S5Y B 101 9 HETNAM NA SODIUM ION HETNAM NO3 NITRATE ION HETNAM S5Y 2-(2-ETHOXYETHOXY)ETHANETHIOL FORMUL 4 NA NA 1+ FORMUL 5 NO3 3(N O3 1-) FORMUL 8 S5Y C6 H14 O2 S FORMUL 9 HOH *114(H2 O) HELIX 1 AA1 THR A 19 TRP A 23 5 5 HELIX 2 AA2 ARG A 34 LEU A 39 1 6 HELIX 3 AA3 THR A 89 GLN A 101 1 13 HELIX 4 AA4 THR A 105 ASP A 117 1 13 HELIX 5 AA5 ASP A 117 ALA A 124 1 8 HELIX 6 AA6 ASP A 136 CYS A 146 1 11 HELIX 7 AA7 ASN A 151 GLY A 167 1 17 HELIX 8 AA8 SER A 183 ALA A 188 1 6 HELIX 9 AA9 GLU A 191 LEU A 199 1 9 HELIX 10 AB1 TYR A 203 GLN A 219 1 17 HELIX 11 AB2 GLY A 221 GLN A 227 1 7 HELIX 12 AB3 LEU A 228 GLU A 230 5 3 HELIX 13 AB4 SER A 232 CYS A 241 1 10 HELIX 14 AB5 GLY A 247 LEU A 259 1 13 HELIX 15 AB6 ASP A 268 SER A 280 1 13 HELIX 16 AB7 SER A 292 GLY A 308 1 17 HELIX 17 AB8 TYR A 310 LEU A 323 1 14 SHEET 1 AA1 5 ALA A 24 PRO A 27 0 SHEET 2 AA1 5 GLN A 72 TYR A 78 -1 O LEU A 73 N ILE A 26 SHEET 3 AA1 5 GLN A 62 GLN A 68 -1 N THR A 67 O HIS A 74 SHEET 4 AA1 5 HIS A 54 LEU A 59 -1 N LEU A 59 O GLN A 62 SHEET 5 AA1 5 ARG A 48 SER A 51 -1 N ARG A 48 O SER A 56 SHEET 1 AA2 2 ARG A 169 LEU A 173 0 SHEET 2 AA2 2 VAL A 176 HIS A 179 -1 O TYR A 178 N LEU A 170 LINK SG CYS A 207 S S5Y B 101 1555 1555 2.01 LINK N2 DG B 24 C S5Y B 101 1555 1555 1.43 LINK O CYS A 241 NA NA A 401 1555 1555 2.72 LINK O LEU A 243 NA NA A 401 1555 1555 2.60 LINK O VAL A 246 NA NA A 401 1555 1555 2.94 LINK NA NA A 401 OP2 DC B 26 1555 1555 2.88 SITE 1 AC1 4 CYS A 241 LEU A 243 VAL A 246 DC B 26 SITE 1 AC2 4 VAL A 58 ALA A 60 TYR A 99 ASP A 136 SITE 1 AC3 6 ARG A 97 LYS A 98 GLN A 101 LEU A 102 SITE 2 AC3 6 ASP A 103 HOH A 557 SITE 1 AC4 4 TYR A 233 ASP A 252 ARG A 304 HOH A 506 SITE 1 AC5 6 TYR A 203 CYS A 207 DG B 24 DT B 25 SITE 2 AC5 6 DC B 26 DC C 7 CRYST1 88.928 88.928 210.539 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 0.011245 0.006492 0.000000 0.00000 SCALE2 0.000000 0.012985 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004750 0.00000