HEADER DNA/HYDROLASE 16-JAN-24 8XWC TITLE CRYSTAL STRUCTURE OF HUMAN 8-OXOGUANINE GLYCOSYLASE K249H MUTANT BOUND TITLE 2 TO THE SUBSTRATE 8-OXOGUANINE DNA AT PH 8.0 UNDER 277 K COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*AP*GP*CP*GP*TP*CP*CP*AP*(8OG) COMPND 3 P*GP*TP*CP*TP*AP*CP*C)-3'); COMPND 4 CHAIN: C; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA (5'-D(P*GP*GP*TP*AP*GP*AP*CP*CP*TP*GP*GP*AP*CP*GP*C)- COMPND 8 3'); COMPND 9 CHAIN: D; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: N-GLYCOSYLASE/DNA LYASE; COMPND 13 CHAIN: A; COMPND 14 EC: 3.2.2.-,4.2.99.18; COMPND 15 ENGINEERED: YES; COMPND 16 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_TAXID: 9606; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 10 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 11 MOL_ID: 3; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: OGG1, MMH, MUTM, OGH1; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DNA, REPAIR, LYASE, DNA-HYDROLASE COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.UNNO,M.KOGA,N.MINOWA,S.KOMURO,Y.TANAKA REVDAT 2 13-AUG-25 8XWC 1 JRNL REVDAT 1 23-JUL-25 8XWC 0 JRNL AUTH M.UNNO,M.MORIKAWA,V.SYCHROVSKY,M.KOGA,N.MINOWA,S.KOMURO, JRNL AUTH 2 M.SHIMIZU,M.FUKUTA,F.TSUYUGUCHI,H.MANO,Y.OCHI,K.NAKASHIMA, JRNL AUTH 3 Y.OKAMOTO,T.SAIO,Y.HATTORI,Y.TANAKA JRNL TITL CAPTURING A GLYCOSYLASE REACTION INTERMEDIATE IN DNA REPAIR JRNL TITL 2 BY FREEZE-TRAPPING OF A PH-RESPONSIVE HOGG1 MUTANT. JRNL REF NUCLEIC ACIDS RES. V. 53 2025 JRNL REFN ESSN 1362-4962 JRNL PMID 40754315 JRNL DOI 10.1093/NAR/GKAF718 REMARK 2 REMARK 2 RESOLUTION. 1.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.20.1_4487 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : GEOSTD + MONOMER LIBRARY + CDL V1.2 REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 43.98 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 NUMBER OF REFLECTIONS : 67263 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.155 REMARK 3 R VALUE (WORKING SET) : 0.154 REMARK 3 FREE R VALUE : 0.179 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.930 REMARK 3 FREE R VALUE TEST SET COUNT : 3315 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 43.9800 - 4.1800 1.00 2887 153 0.1557 0.1723 REMARK 3 2 4.1800 - 3.3200 1.00 2763 139 0.1375 0.1721 REMARK 3 3 3.3200 - 2.9000 1.00 2752 127 0.1588 0.1760 REMARK 3 4 2.9000 - 2.6300 1.00 2741 126 0.1666 0.1879 REMARK 3 5 2.6300 - 2.4500 1.00 2691 143 0.1590 0.1679 REMARK 3 6 2.4500 - 2.3000 1.00 2722 127 0.1537 0.1602 REMARK 3 7 2.3000 - 2.1900 1.00 2668 158 0.1541 0.1767 REMARK 3 8 2.1900 - 2.0900 1.00 2706 132 0.1529 0.1962 REMARK 3 9 2.0900 - 2.0100 1.00 2676 139 0.1586 0.1817 REMARK 3 10 2.0100 - 1.9400 1.00 2674 121 0.1549 0.1792 REMARK 3 11 1.9400 - 1.8800 1.00 2677 139 0.1512 0.1623 REMARK 3 12 1.8800 - 1.8300 1.00 2648 144 0.1458 0.1838 REMARK 3 13 1.8300 - 1.7800 1.00 2695 129 0.1559 0.1730 REMARK 3 14 1.7800 - 1.7400 1.00 2685 126 0.1578 0.1736 REMARK 3 15 1.7400 - 1.7000 1.00 2642 156 0.1607 0.1927 REMARK 3 16 1.7000 - 1.6600 1.00 2662 130 0.1542 0.1950 REMARK 3 17 1.6600 - 1.6300 1.00 2646 150 0.1511 0.2096 REMARK 3 18 1.6300 - 1.6000 1.00 2656 154 0.1541 0.1789 REMARK 3 19 1.6000 - 1.5700 1.00 2650 158 0.1482 0.1877 REMARK 3 20 1.5700 - 1.5400 1.00 2617 142 0.1533 0.2162 REMARK 3 21 1.5400 - 1.5200 0.99 2607 145 0.1533 0.1829 REMARK 3 22 1.5200 - 1.4900 0.97 2605 126 0.1605 0.1780 REMARK 3 23 1.4900 - 1.4700 0.93 2476 126 0.1623 0.1928 REMARK 3 24 1.4700 - 1.4500 0.91 2402 125 0.1648 0.2036 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.10 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.105 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.071 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 12.15 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.07 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.016 3406 REMARK 3 ANGLE : 1.547 4777 REMARK 3 CHIRALITY : 0.101 513 REMARK 3 PLANARITY : 0.015 514 REMARK 3 DIHEDRAL : 22.844 683 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 8XWC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 26-JAN-24. REMARK 100 THE DEPOSITION ID IS D_1300044344. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-MAY-22 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 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 : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 67334 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 46.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 35.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.47 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 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: MOLREP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.56 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.00 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: SODIUM CACODYLATE, MGCL2, PEG 4000, REMARK 280 GLYCEROL, VAPOR DIFFUSION, TEMPERATURE 277K 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 30.90400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.97750 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 34.77200 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 43.97750 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 30.90400 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 34.77200 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: 5140 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 17870 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, 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 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 SER A 326 REMARK 465 ARG A 327 REMARK 465 HIS A 328 REMARK 465 ALA A 329 REMARK 465 GLN A 330 REMARK 465 GLU A 331 REMARK 465 PRO A 332 REMARK 465 PRO A 333 REMARK 465 ALA A 334 REMARK 465 LYS A 335 REMARK 465 ARG A 336 REMARK 465 ARG A 337 REMARK 465 LYS A 338 REMARK 465 GLY A 339 REMARK 465 SER A 340 REMARK 465 LYS A 341 REMARK 465 GLY A 342 REMARK 465 PRO A 343 REMARK 465 GLU A 344 REMARK 465 GLY A 345 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 LYS A 126 CG CD CE NZ REMARK 470 GLN A 325 CG CD OE1 NE2 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 C 28 O3' DC C 28 C3' -0.045 REMARK 500 DG D 6 O3' DG D 6 C3' -0.047 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 DG C 18 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC C 19 O4' - C1' - N1 ANGL. DEV. = -4.2 DEGREES REMARK 500 DT C 21 N3 - C4 - O4 ANGL. DEV. = 3.7 DEGREES REMARK 500 DC C 31 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DG D 15 O4' - C1' - N9 ANGL. DEV. = -5.2 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 CYS A 28 98.64 -170.97 REMARK 500 GLN A 43 -66.65 -91.14 REMARK 500 LEU A 170 -66.47 -100.40 REMARK 500 ASP A 174 -128.48 52.86 REMARK 500 ASP A 268 -167.42 -105.20 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 848 DISTANCE = 5.81 ANGSTROMS 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 MG A 403 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 DC C 28 OP1 REMARK 620 2 HOH C 116 O 94.9 REMARK 620 3 CYS A 241 O 166.6 76.5 REMARK 620 4 LEU A 243 O 85.7 165.1 105.2 REMARK 620 5 VAL A 246 O 95.9 73.7 91.6 91.5 REMARK 620 6 HOH A 753 O 86.6 99.3 84.8 95.6 172.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 404 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLN A 227 OE1 REMARK 620 2 HOH A 551 O 103.7 REMARK 620 3 HOH A 677 O 121.7 119.9 REMARK 620 N 1 2 DBREF 8XWC C 17 32 PDB 8XWC 8XWC 17 32 DBREF 8XWC D 2 16 PDB 8XWC 8XWC 2 16 DBREF 8XWC A 12 345 UNP O15527 OGG1_HUMAN 12 345 SEQADV 8XWC GLY A 10 UNP O15527 EXPRESSION TAG SEQADV 8XWC PRO A 11 UNP O15527 EXPRESSION TAG SEQADV 8XWC HIS A 249 UNP O15527 LYS 249 ENGINEERED MUTATION SEQRES 1 C 16 DA DG DC DG DT DC DC DA 8OG DG DT DC DT SEQRES 2 C 16 DA DC DC SEQRES 1 D 15 DG DG DT DA DG DA DC DC DT DG DG DA DC SEQRES 2 D 15 DG DC SEQRES 1 A 336 GLY PRO GLY HIS ARG THR LEU ALA SER THR PRO ALA LEU SEQRES 2 A 336 TRP ALA SER ILE PRO CYS PRO ARG SER GLU LEU ARG LEU SEQRES 3 A 336 ASP LEU VAL LEU PRO SER GLY GLN SER PHE ARG TRP ARG SEQRES 4 A 336 GLU GLN SER PRO ALA HIS TRP SER GLY VAL LEU ALA ASP SEQRES 5 A 336 GLN VAL TRP THR LEU THR GLN THR GLU GLU GLN LEU HIS SEQRES 6 A 336 CYS THR VAL TYR ARG GLY ASP LYS SER GLN ALA SER ARG SEQRES 7 A 336 PRO THR PRO ASP GLU LEU GLU ALA VAL ARG LYS TYR PHE SEQRES 8 A 336 GLN LEU ASP VAL THR LEU ALA GLN LEU TYR HIS HIS TRP SEQRES 9 A 336 GLY SER VAL ASP SER HIS PHE GLN GLU VAL ALA GLN LYS SEQRES 10 A 336 PHE GLN GLY VAL ARG LEU LEU ARG GLN ASP PRO ILE GLU SEQRES 11 A 336 CYS LEU PHE SER PHE ILE CYS SER SER ASN ASN ASN ILE SEQRES 12 A 336 ALA ARG ILE THR GLY MET VAL GLU ARG LEU CYS GLN ALA SEQRES 13 A 336 PHE GLY PRO ARG LEU ILE GLN LEU ASP ASP VAL THR TYR SEQRES 14 A 336 HIS GLY PHE PRO SER LEU GLN ALA LEU ALA GLY PRO GLU SEQRES 15 A 336 VAL GLU ALA HIS LEU ARG LYS LEU GLY LEU GLY TYR ARG SEQRES 16 A 336 ALA ARG TYR VAL SER ALA SER ALA ARG ALA ILE LEU GLU SEQRES 17 A 336 GLU GLN GLY GLY LEU ALA TRP LEU GLN GLN LEU ARG GLU SEQRES 18 A 336 SER SER TYR GLU GLU ALA HIS LYS ALA LEU CYS ILE LEU SEQRES 19 A 336 PRO GLY VAL GLY THR HIS VAL ALA ASP CYS ILE CYS LEU SEQRES 20 A 336 MET ALA LEU ASP LYS PRO GLN ALA VAL PRO VAL ASP VAL SEQRES 21 A 336 HIS MET TRP HIS ILE ALA GLN ARG ASP TYR SER TRP HIS SEQRES 22 A 336 PRO THR THR SER GLN ALA LYS GLY PRO SER PRO GLN THR SEQRES 23 A 336 ASN LYS GLU LEU GLY ASN PHE PHE ARG SER LEU TRP GLY SEQRES 24 A 336 PRO TYR ALA GLY TRP ALA GLN ALA VAL LEU PHE SER ALA SEQRES 25 A 336 ASP LEU ARG GLN SER ARG HIS ALA GLN GLU PRO PRO ALA SEQRES 26 A 336 LYS ARG ARG LYS GLY SER LYS GLY PRO GLU GLY HET 8OG C 25 23 HET PEG D 101 7 HET GOL D 102 6 HET GOL A 401 6 HET GOL A 402 6 HET MG A 403 1 HET NA A 404 1 HETNAM 8OG 8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETNAM PEG DI(HYDROXYETHYL)ETHER HETNAM GOL GLYCEROL HETNAM MG MAGNESIUM ION HETNAM NA SODIUM ION HETSYN 8OG 8-OXO-7,8-DIHYDRO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 8OG C10 H14 N5 O8 P FORMUL 4 PEG C4 H10 O3 FORMUL 5 GOL 3(C3 H8 O3) FORMUL 8 MG MG 2+ FORMUL 9 NA NA 1+ FORMUL 10 HOH *433(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 PHE A 100 1 12 HELIX 4 AA4 THR A 105 ASP A 117 1 13 HELIX 5 AA5 ASP A 117 PHE A 127 1 11 HELIX 6 AA6 ASP A 136 SER A 148 1 13 HELIX 7 AA7 ASN A 151 GLY A 167 1 17 HELIX 8 AA8 SER A 183 GLY A 189 1 7 HELIX 9 AA9 GLY A 189 LEU A 199 1 11 HELIX 10 AB1 TYR A 203 GLN A 219 1 17 HELIX 11 AB2 LEU A 222 SER A 231 1 10 HELIX 12 AB3 SER A 232 CYS A 241 1 10 HELIX 13 AB4 GLY A 247 LEU A 259 1 13 HELIX 14 AB5 ASP A 268 SER 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 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 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 O3' DA C 24 P 8OG C 25 1555 1555 1.57 LINK O3' 8OG C 25 P DG C 26 1555 1555 1.58 LINK OP1 DC C 28 MG MG A 403 1555 1555 2.84 LINK O HOH C 116 MG MG A 403 1555 1555 2.49 LINK OE1 GLN A 227 NA NA A 404 1555 1555 2.26 LINK O CYS A 241 MG MG A 403 1555 1555 2.40 LINK O LEU A 243 MG MG A 403 1555 1555 2.40 LINK O VAL A 246 MG MG A 403 1555 1555 2.44 LINK MG MG A 403 O HOH A 753 1555 1555 2.25 LINK NA NA A 404 O HOH A 551 1555 3654 2.64 LINK NA NA A 404 O HOH A 677 1555 3554 2.73 CRYST1 61.808 69.544 87.955 90.00 90.00 90.00 P 21 21 21 4 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 0.016179 0.000000 0.000000 0.00000 SCALE2 0.000000 0.014379 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011369 0.00000 CONECT 148 161 CONECT 161 148 162 163 164 CONECT 162 161 CONECT 163 161 CONECT 164 161 165 CONECT 165 164 166 CONECT 166 165 167 168 CONECT 167 166 171 CONECT 168 166 169 170 CONECT 169 168 184 CONECT 170 168 171 CONECT 171 167 170 172 CONECT 172 171 173 182 CONECT 173 172 174 183 CONECT 174 173 175 CONECT 175 174 176 182 CONECT 176 175 177 178 CONECT 177 176 CONECT 178 176 179 CONECT 179 178 180 181 CONECT 180 179 CONECT 181 179 182 CONECT 182 172 175 181 CONECT 183 173 CONECT 184 169 CONECT 227 3251 CONECT 2423 3252 CONECT 2535 3251 CONECT 2549 3251 CONECT 2568 3251 CONECT 3226 3227 3228 CONECT 3227 3226 CONECT 3228 3226 3229 CONECT 3229 3228 3230 CONECT 3230 3229 3231 CONECT 3231 3230 3232 CONECT 3232 3231 CONECT 3233 3234 3235 CONECT 3234 3233 CONECT 3235 3233 3236 3237 CONECT 3236 3235 CONECT 3237 3235 3238 CONECT 3238 3237 CONECT 3239 3240 3241 CONECT 3240 3239 CONECT 3241 3239 3242 3243 CONECT 3242 3241 CONECT 3243 3241 3244 CONECT 3244 3243 CONECT 3245 3246 3247 CONECT 3246 3245 CONECT 3247 3245 3248 3249 CONECT 3248 3247 CONECT 3249 3247 3250 CONECT 3250 3249 CONECT 3251 227 2535 2549 2568 CONECT 3251 3268 3590 CONECT 3252 2423 CONECT 3268 3251 CONECT 3590 3251 MASTER 351 0 7 16 7 0 0 6 3591 3 60 30 END