HEADER DNA BINDING PROTEIN 26-MAR-18 6G3Y TITLE STRUCTURE OF THE MOUSE 8-OXOGUANINE DNA GLYCOSYLASE MOGG1 IN COMPLEX TITLE 2 WITH LIGAND TH5675 COMPND MOL_ID: 1; COMPND 2 MOLECULE: N-GLYCOSYLASE/DNA LYASE; COMPND 3 CHAIN: A, B, C; COMPND 4 EC: 3.2.2.-,4.2.99.18; COMPND 5 ENGINEERED: YES; COMPND 6 OTHER_DETAILS: RECOMBINANT CONSTRUCT OF MOUSE OGG1 RESIDUES 11-325. COMPND 7 EXPRESSED WITH A CLEAVABLE N-TERMINAL HIS TAG (RESIDUES 8-10 FROM COMPND 8 EXPRESSION TAG AFTER CLEAVAGE) SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: OGG1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008 KEYWDS N-GLYCOSYLASE, DNA LYASE, DNA BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR G.MASUYER,T.HELLEDAY,P.STENMARK REVDAT 3 17-JAN-24 6G3Y 1 LINK REVDAT 2 23-JAN-19 6G3Y 1 REMARK LINK SITE REVDAT 1 28-NOV-18 6G3Y 0 JRNL AUTH T.VISNES,A.CAZARES-KORNER,W.HAO,O.WALLNER,G.MASUYER, JRNL AUTH 2 O.LOSEVA,O.MORTUSEWICZ,E.WIITA,A.SARNO,A.MANOILOV, JRNL AUTH 3 J.ASTORGA-WELLS,A.S.JEMTH,L.PAN,K.SANJIV,S.KARSTEN, JRNL AUTH 4 C.GOKTURK,M.GRUBE,E.J.HOMAN,B.M.F.HANNA,C.B.J.PAULIN,T.PHAM, JRNL AUTH 5 A.RASTI,U.W.BERGLUND,C.VON NICOLAI,C.BENITEZ-BUELGA, JRNL AUTH 6 T.KOOLMEISTER,D.IVANIC,P.ILIEV,M.SCOBIE,H.E.KROKAN, JRNL AUTH 7 P.BARANCZEWSKI,P.ARTURSSON,M.ALTUN,A.J.JENSEN,C.KALDEREN, JRNL AUTH 8 X.BA,R.A.ZUBAREV,P.STENMARK,I.BOLDOGH,T.HELLEDAY JRNL TITL SMALL-MOLECULE INHIBITOR OF OGG1 SUPPRESSES PROINFLAMMATORY JRNL TITL 2 GENE EXPRESSION AND INFLAMMATION. JRNL REF SCIENCE V. 362 834 2018 JRNL REFN ESSN 1095-9203 JRNL PMID 30442810 JRNL DOI 10.1126/SCIENCE.AAR8048 REMARK 2 REMARK 2 RESOLUTION. 2.51 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0189 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.51 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 84.58 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 36660 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) : 0.236 REMARK 3 R VALUE (WORKING SET) : 0.234 REMARK 3 FREE R VALUE : 0.282 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 1862 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) : 2.51 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.58 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2478 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.99 REMARK 3 BIN R VALUE (WORKING SET) : 0.3520 REMARK 3 BIN FREE R VALUE SET COUNT : 135 REMARK 3 BIN FREE R VALUE : 0.3580 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 7531 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 86 REMARK 3 SOLVENT ATOMS : 122 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 73.34 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.67000 REMARK 3 B22 (A**2) : 0.25000 REMARK 3 B33 (A**2) : -0.92000 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): 0.702 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.332 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.294 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 14.199 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.932 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.895 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 7848 ; 0.007 ; 0.019 REMARK 3 BOND LENGTHS OTHERS (A): 7078 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 10687 ; 1.158 ; 1.950 REMARK 3 BOND ANGLES OTHERS (DEGREES): 16376 ; 0.893 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 945 ; 5.713 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 371 ;31.074 ;22.992 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1232 ;13.496 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 64 ;16.145 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 1130 ; 0.058 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 8779 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1717 ; 0.001 ; 0.020 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): 3790 ; 2.634 ; 7.488 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 3788 ; 2.633 ; 7.488 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4731 ; 4.580 ;11.224 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 4732 ; 4.580 ;11.224 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 4058 ; 2.032 ; 7.525 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 4059 ; 2.031 ; 7.525 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 5957 ; 3.578 ;11.205 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 8743 ; 6.859 ;83.945 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 8739 ; 6.859 ;83.948 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 : NULL REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 6G3Y COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 26-MAR-18. REMARK 100 THE DEPOSITION ID IS D_1200009385. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 07-FEB-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9686 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS3 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DIALS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38585 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.510 REMARK 200 RESOLUTION RANGE LOW (A) : 84.580 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : 0.11600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 9.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.51 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 89.6 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.85200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.800 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 (%): 49.90 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.09 M HALOGENS, 0.1 M BUFFER SYSTEM 2 REMARK 280 PH 7.5, 50 % V/V PRECIPITANT MIX 3 (MORPHEUS SCREEN, MOLECULAR REMARK 280 DIMENSIONS), VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 294K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 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 40.40850 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 84.57850 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 40.67850 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 84.57850 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 40.40850 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 40.67850 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2, 3 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC 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 REMARK 350 BIOMOLECULE: 3 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: 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 8 REMARK 465 SER A 9 REMARK 465 GLY B 8 REMARK 465 SER B 9 REMARK 465 SER C 83 REMARK 465 GLN C 84 REMARK 465 GLN C 325 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 -168.54 -101.87 REMARK 500 ASP A 82 88.66 -56.32 REMARK 500 PHE A 127 75.20 -112.55 REMARK 500 ASP A 174 -126.75 55.56 REMARK 500 ALA A 258 -12.62 -142.90 REMARK 500 SER B 19 48.33 -140.81 REMARK 500 CYS B 28 102.81 -166.50 REMARK 500 LEU B 170 -74.32 -110.90 REMARK 500 ASP B 174 -123.40 56.60 REMARK 500 SER C 19 48.91 -145.36 REMARK 500 ASP C 117 99.58 -162.79 REMARK 500 ASP C 174 -122.30 51.12 REMARK 500 TYR C 310 47.35 -105.06 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 NI A 402 NI REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 276 NE2 REMARK 620 2 HIS A 282 NE2 92.0 REMARK 620 3 HIS B 276 NE2 86.3 89.3 REMARK 620 4 HIS B 282 NE2 175.1 92.2 96.2 REMARK 620 5 HIS C 276 NE2 89.6 175.4 86.5 86.4 REMARK 620 6 HIS C 282 NE2 85.3 89.9 171.6 92.2 94.5 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ELB A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue NI A 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ELB B 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ACT B 402 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue ELB C 401 DBREF 6G3Y A 9 325 UNP O08760 OGG1_MOUSE 9 325 DBREF 6G3Y B 9 325 UNP O08760 OGG1_MOUSE 9 325 DBREF 6G3Y C 9 325 UNP O08760 OGG1_MOUSE 9 325 SEQADV 6G3Y GLY A 8 UNP O08760 EXPRESSION TAG SEQADV 6G3Y HIS A 10 UNP O08760 SER 10 CONFLICT SEQADV 6G3Y GLY B 8 UNP O08760 EXPRESSION TAG SEQADV 6G3Y HIS B 10 UNP O08760 SER 10 CONFLICT SEQADV 6G3Y GLY C 8 UNP O08760 EXPRESSION TAG SEQADV 6G3Y HIS C 10 UNP O08760 SER 10 CONFLICT SEQRES 1 A 318 GLY SER HIS MET ARG HIS ARG THR LEU SER SER SER PRO SEQRES 2 A 318 ALA LEU TRP ALA SER ILE PRO CYS PRO ARG SER GLU LEU SEQRES 3 A 318 ARG LEU ASP LEU VAL LEU ALA SER GLY GLN SER PHE ARG SEQRES 4 A 318 TRP LYS GLU GLN SER PRO ALA HIS TRP SER GLY VAL LEU SEQRES 5 A 318 ALA ASP GLN VAL TRP THR LEU THR GLN THR GLU ASP GLN SEQRES 6 A 318 LEU TYR CYS THR VAL TYR ARG GLY ASP ASP SER GLN VAL SEQRES 7 A 318 SER ARG PRO THR LEU GLU GLU LEU GLU THR LEU HIS LYS SEQRES 8 A 318 TYR PHE GLN LEU ASP VAL SER LEU ALA GLN LEU TYR SER SEQRES 9 A 318 HIS TRP ALA SER VAL ASP SER HIS PHE GLN ARG VAL ALA SEQRES 10 A 318 GLN LYS PHE GLN GLY VAL ARG LEU LEU ARG GLN ASP PRO SEQRES 11 A 318 THR GLU CYS LEU PHE SER PHE ILE CYS SER SER ASN ASN SEQRES 12 A 318 ASN ILE ALA ARG ILE THR GLY MET VAL GLU ARG LEU CYS SEQRES 13 A 318 GLN ALA PHE GLY PRO ARG LEU ILE GLN LEU ASP ASP VAL SEQRES 14 A 318 THR TYR HIS GLY PHE PRO ASN LEU HIS ALA LEU ALA GLY SEQRES 15 A 318 PRO GLU ALA GLU THR HIS LEU ARG LYS LEU GLY LEU GLY SEQRES 16 A 318 TYR ARG ALA ARG TYR VAL ARG ALA SER ALA LYS ALA ILE SEQRES 17 A 318 LEU GLU GLU GLN GLY GLY PRO ALA TRP LEU GLN GLN LEU SEQRES 18 A 318 ARG VAL ALA PRO TYR GLU GLU ALA HIS LYS ALA LEU CYS SEQRES 19 A 318 THR LEU PRO GLY VAL GLY ALA LYS VAL ALA ASP CYS ILE SEQRES 20 A 318 CYS LEU MET ALA LEU ASP LYS PRO GLN ALA VAL PRO VAL SEQRES 21 A 318 ASP VAL HIS VAL TRP GLN ILE ALA HIS ARG ASP TYR GLY SEQRES 22 A 318 TRP HIS PRO LYS THR SER GLN ALA LYS GLY PRO SER PRO SEQRES 23 A 318 LEU ALA ASN LYS GLU LEU GLY ASN PHE PHE ARG ASN LEU SEQRES 24 A 318 TRP GLY PRO TYR ALA GLY TRP ALA GLN ALA VAL LEU PHE SEQRES 25 A 318 SER ALA ASP LEU ARG GLN SEQRES 1 B 318 GLY SER HIS MET ARG HIS ARG THR LEU SER SER SER PRO SEQRES 2 B 318 ALA LEU TRP ALA SER ILE PRO CYS PRO ARG SER GLU LEU SEQRES 3 B 318 ARG LEU ASP LEU VAL LEU ALA SER GLY GLN SER PHE ARG SEQRES 4 B 318 TRP LYS GLU GLN SER PRO ALA HIS TRP SER GLY VAL LEU SEQRES 5 B 318 ALA ASP GLN VAL TRP THR LEU THR GLN THR GLU ASP GLN SEQRES 6 B 318 LEU TYR CYS THR VAL TYR ARG GLY ASP ASP SER GLN VAL SEQRES 7 B 318 SER ARG PRO THR LEU GLU GLU LEU GLU THR LEU HIS LYS SEQRES 8 B 318 TYR PHE GLN LEU ASP VAL SER LEU ALA GLN LEU TYR SER SEQRES 9 B 318 HIS TRP ALA SER VAL ASP SER HIS PHE GLN ARG VAL ALA SEQRES 10 B 318 GLN LYS PHE GLN GLY VAL ARG LEU LEU ARG GLN ASP PRO SEQRES 11 B 318 THR GLU CYS LEU PHE SER PHE ILE CYS SER SER ASN ASN SEQRES 12 B 318 ASN ILE ALA ARG ILE THR GLY MET VAL GLU ARG LEU CYS SEQRES 13 B 318 GLN ALA PHE GLY PRO ARG LEU ILE GLN LEU ASP ASP VAL SEQRES 14 B 318 THR TYR HIS GLY PHE PRO ASN LEU HIS ALA LEU ALA GLY SEQRES 15 B 318 PRO GLU ALA GLU THR HIS LEU ARG LYS LEU GLY LEU GLY SEQRES 16 B 318 TYR ARG ALA ARG TYR VAL ARG ALA SER ALA LYS ALA ILE SEQRES 17 B 318 LEU GLU GLU GLN GLY GLY PRO ALA TRP LEU GLN GLN LEU SEQRES 18 B 318 ARG VAL ALA PRO TYR GLU GLU ALA HIS LYS ALA LEU CYS SEQRES 19 B 318 THR LEU PRO GLY VAL GLY ALA LYS VAL ALA ASP CYS ILE SEQRES 20 B 318 CYS LEU MET ALA LEU ASP LYS PRO GLN ALA VAL PRO VAL SEQRES 21 B 318 ASP VAL HIS VAL TRP GLN ILE ALA HIS ARG ASP TYR GLY SEQRES 22 B 318 TRP HIS PRO LYS THR SER GLN ALA LYS GLY PRO SER PRO SEQRES 23 B 318 LEU ALA ASN LYS GLU LEU GLY ASN PHE PHE ARG ASN LEU SEQRES 24 B 318 TRP GLY PRO TYR ALA GLY TRP ALA GLN ALA VAL LEU PHE SEQRES 25 B 318 SER ALA ASP LEU ARG GLN SEQRES 1 C 318 GLY SER HIS MET ARG HIS ARG THR LEU SER SER SER PRO SEQRES 2 C 318 ALA LEU TRP ALA SER ILE PRO CYS PRO ARG SER GLU LEU SEQRES 3 C 318 ARG LEU ASP LEU VAL LEU ALA SER GLY GLN SER PHE ARG SEQRES 4 C 318 TRP LYS GLU GLN SER PRO ALA HIS TRP SER GLY VAL LEU SEQRES 5 C 318 ALA ASP GLN VAL TRP THR LEU THR GLN THR GLU ASP GLN SEQRES 6 C 318 LEU TYR CYS THR VAL TYR ARG GLY ASP ASP SER GLN VAL SEQRES 7 C 318 SER ARG PRO THR LEU GLU GLU LEU GLU THR LEU HIS LYS SEQRES 8 C 318 TYR PHE GLN LEU ASP VAL SER LEU ALA GLN LEU TYR SER SEQRES 9 C 318 HIS TRP ALA SER VAL ASP SER HIS PHE GLN ARG VAL ALA SEQRES 10 C 318 GLN LYS PHE GLN GLY VAL ARG LEU LEU ARG GLN ASP PRO SEQRES 11 C 318 THR GLU CYS LEU PHE SER PHE ILE CYS SER SER ASN ASN SEQRES 12 C 318 ASN ILE ALA ARG ILE THR GLY MET VAL GLU ARG LEU CYS SEQRES 13 C 318 GLN ALA PHE GLY PRO ARG LEU ILE GLN LEU ASP ASP VAL SEQRES 14 C 318 THR TYR HIS GLY PHE PRO ASN LEU HIS ALA LEU ALA GLY SEQRES 15 C 318 PRO GLU ALA GLU THR HIS LEU ARG LYS LEU GLY LEU GLY SEQRES 16 C 318 TYR ARG ALA ARG TYR VAL ARG ALA SER ALA LYS ALA ILE SEQRES 17 C 318 LEU GLU GLU GLN GLY GLY PRO ALA TRP LEU GLN GLN LEU SEQRES 18 C 318 ARG VAL ALA PRO TYR GLU GLU ALA HIS LYS ALA LEU CYS SEQRES 19 C 318 THR LEU PRO GLY VAL GLY ALA LYS VAL ALA ASP CYS ILE SEQRES 20 C 318 CYS LEU MET ALA LEU ASP LYS PRO GLN ALA VAL PRO VAL SEQRES 21 C 318 ASP VAL HIS VAL TRP GLN ILE ALA HIS ARG ASP TYR GLY SEQRES 22 C 318 TRP HIS PRO LYS THR SER GLN ALA LYS GLY PRO SER PRO SEQRES 23 C 318 LEU ALA ASN LYS GLU LEU GLY ASN PHE PHE ARG ASN LEU SEQRES 24 C 318 TRP GLY PRO TYR ALA GLY TRP ALA GLN ALA VAL LEU PHE SEQRES 25 C 318 SER ALA ASP LEU ARG GLN HET ELB A 401 27 HET NI A 402 1 HET ELB B 401 27 HET ACT B 402 4 HET ELB C 401 27 HETNAM ELB 4-(4-AZANYL-2-OXIDANYLIDENE-3~{H}-BENZIMIDAZOL-1-YL)- HETNAM 2 ELB ~{N}-(4-IODOPHENYL)PIPERIDINE-1-CARBOXAMIDE HETNAM NI NICKEL (II) ION HETNAM ACT ACETATE ION HETSYN ELB TH5675 FORMUL 4 ELB 3(C19 H20 I N5 O2) FORMUL 5 NI NI 2+ FORMUL 7 ACT C2 H3 O2 1- FORMUL 9 HOH *122(H2 O) HELIX 1 AA1 SER A 19 TRP A 23 5 5 HELIX 2 AA2 ARG A 34 LEU A 39 1 6 HELIX 3 AA3 THR A 89 PHE A 100 1 12 HELIX 4 AA4 SER A 105 SER A 115 1 11 HELIX 5 AA5 ASP A 117 PHE A 127 1 11 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 ASN A 183 ALA A 188 1 6 HELIX 9 AA9 GLU A 191 LEU A 199 1 9 HELIX 10 AB1 TYR A 203 GLY A 220 1 18 HELIX 11 AB2 PRO A 222 ALA A 231 1 10 HELIX 12 AB3 PRO A 232 CYS A 241 1 10 HELIX 13 AB4 GLY A 247 LEU A 259 1 13 HELIX 14 AB5 ASP A 268 GLY A 280 1 13 HELIX 15 AB6 SER A 292 GLY A 308 1 17 HELIX 16 AB7 TYR A 310 ARG A 324 1 15 HELIX 17 AB8 SER B 19 TRP B 23 5 5 HELIX 18 AB9 ARG B 34 LEU B 39 1 6 HELIX 19 AC1 THR B 89 PHE B 100 1 12 HELIX 20 AC2 SER B 105 ASP B 117 1 13 HELIX 21 AC3 ASP B 117 GLN B 125 1 9 HELIX 22 AC4 ASP B 136 CYS B 146 1 11 HELIX 23 AC5 ASN B 151 GLY B 167 1 17 HELIX 24 AC6 ASN B 183 ALA B 188 1 6 HELIX 25 AC7 GLU B 191 LEU B 199 1 9 HELIX 26 AC8 TYR B 203 GLU B 218 1 16 HELIX 27 AC9 PRO B 222 ALA B 231 1 10 HELIX 28 AD1 PRO B 232 CYS B 241 1 10 HELIX 29 AD2 GLY B 247 ALA B 258 1 12 HELIX 30 AD3 ASP B 268 GLY B 280 1 13 HELIX 31 AD4 SER B 292 GLY B 308 1 17 HELIX 32 AD5 TYR B 310 ARG B 324 1 15 HELIX 33 AD6 SER C 19 TRP C 23 5 5 HELIX 34 AD7 ARG C 34 LEU C 39 1 6 HELIX 35 AD8 THR C 89 GLN C 101 1 13 HELIX 36 AD9 SER C 105 ASP C 117 1 13 HELIX 37 AE1 ASP C 117 GLN C 125 1 9 HELIX 38 AE2 ASP C 136 CYS C 146 1 11 HELIX 39 AE3 ASN C 151 GLY C 167 1 17 HELIX 40 AE4 ASN C 183 ALA C 188 1 6 HELIX 41 AE5 GLU C 191 ARG C 197 1 7 HELIX 42 AE6 LYS C 198 GLY C 200 5 3 HELIX 43 AE7 LEU C 201 GLY C 202 5 2 HELIX 44 AE8 TYR C 203 GLU C 217 1 15 HELIX 45 AE9 ALA C 223 ALA C 231 1 9 HELIX 46 AF1 PRO C 232 THR C 242 1 11 HELIX 47 AF2 GLY C 247 LEU C 259 1 13 HELIX 48 AF3 ASP C 268 GLY C 280 1 13 HELIX 49 AF4 SER C 292 GLY C 308 1 17 HELIX 50 AF5 TYR C 310 LEU C 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 CYS A 75 N ALA A 24 SHEET 3 AA1 5 VAL A 63 GLN A 68 -1 N THR A 67 O TYR A 74 SHEET 4 AA1 5 HIS A 54 VAL A 58 -1 N TRP A 55 O LEU A 66 SHEET 5 AA1 5 TRP A 47 SER A 51 -1 N LYS 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 SHEET 1 AA3 5 ALA B 24 PRO B 27 0 SHEET 2 AA3 5 GLN B 72 TYR B 78 -1 O LEU B 73 N ILE B 26 SHEET 3 AA3 5 GLN B 62 GLN B 68 -1 N THR B 67 O TYR B 74 SHEET 4 AA3 5 HIS B 54 LEU B 59 -1 N TRP B 55 O LEU B 66 SHEET 5 AA3 5 TRP B 47 SER B 51 -1 N LYS B 48 O SER B 56 SHEET 1 AA4 2 ARG B 169 LEU B 173 0 SHEET 2 AA4 2 VAL B 176 HIS B 179 -1 O VAL B 176 N LEU B 173 SHEET 1 AA5 5 ALA C 24 PRO C 27 0 SHEET 2 AA5 5 GLN C 72 TYR C 78 -1 O CYS C 75 N ALA C 24 SHEET 3 AA5 5 VAL C 63 GLN C 68 -1 N THR C 65 O THR C 76 SHEET 4 AA5 5 HIS C 54 VAL C 58 -1 N TRP C 55 O LEU C 66 SHEET 5 AA5 5 LYS C 48 SER C 51 -1 N LYS C 48 O SER C 56 SHEET 1 AA6 2 ARG C 169 LEU C 173 0 SHEET 2 AA6 2 VAL C 176 HIS C 179 -1 O TYR C 178 N LEU C 170 LINK NE2 HIS A 276 NI NI A 402 1555 1555 2.21 LINK NE2 HIS A 282 NI NI A 402 1555 1555 2.21 LINK NI NI A 402 NE2 HIS B 276 1555 1555 2.16 LINK NI NI A 402 NE2 HIS B 282 1555 1555 2.19 LINK NI NI A 402 NE2 HIS C 276 1555 1555 2.23 LINK NI NI A 402 NE2 HIS C 282 1555 1555 2.21 SITE 1 AC1 14 GLY A 42 PHE A 45 PHE A 144 ASN A 151 SITE 2 AC1 14 ILE A 152 LYS A 249 LEU A 256 MET A 257 SITE 3 AC1 14 HIS A 270 GLY A 312 ALA A 316 PHE A 319 SITE 4 AC1 14 ASP A 322 LEU A 323 SITE 1 AC2 6 HIS A 276 HIS A 282 HIS B 276 HIS B 282 SITE 2 AC2 6 HIS C 276 HIS C 282 SITE 1 AC3 16 ARG A 122 GLY B 42 SER B 147 ASN B 151 SITE 2 AC3 16 ILE B 152 LYS B 249 CYS B 253 LEU B 256 SITE 3 AC3 16 MET B 257 HIS B 270 GLY B 312 ALA B 316 SITE 4 AC3 16 PHE B 319 ASP B 322 LEU B 323 HOH B 502 SITE 1 AC4 2 GLY B 247 VAL B 250 SITE 1 AC5 12 ARG B 122 GLY C 42 ASN C 151 ILE C 152 SITE 2 AC5 12 LYS C 249 LEU C 256 MET C 257 GLY C 312 SITE 3 AC5 12 ALA C 316 PHE C 319 ASP C 322 LEU C 323 CRYST1 80.817 81.357 169.157 90.00 90.00 90.00 P 21 21 21 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 0.012374 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012292 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005912 0.00000