HEADER HYDROLASE 06-NOV-08 2W36 TITLE STRUCTURES OF ENDONUCLEASE V WITH DNA REVEAL INITIATION OF DEAMINATED TITLE 2 ADENINE REPAIR COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENDONUCLEASE V; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: DEOXYINOSINE 3'ENDONUCLEASE, DEOXYRIBONUCLEASE V, DNASE V; COMPND 5 EC: 3.1.21.7; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: 5'-D(*GP*CP*BRUP*AP*CP*IP*GP*AP*BRUP*CP*GP)-3'; COMPND 10 CHAIN: C, E; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: 5'-D(*CP*GP*AP*TP*CP*TP*GP*TP*AP*GP*CP)-3'; COMPND 14 CHAIN: D, F; COMPND 15 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: THERMOTOGA MARITIMA; SOURCE 3 ORGANISM_TAXID: 2336; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) RIL; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: PET28B; SOURCE 8 MOL_ID: 2; SOURCE 9 SYNTHETIC: YES; SOURCE 10 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 11 ORGANISM_TAXID: 32630; SOURCE 12 MOL_ID: 3; SOURCE 13 SYNTHETIC: YES; SOURCE 14 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 15 ORGANISM_TAXID: 32630 KEYWDS HYPOXANTHINE, ENDONUCLEASE, ENDONUCLEASEV, HYDROLASE, INOSINE, DNA KEYWDS 2 DAMAGE, DNA REPAIR EXPDTA X-RAY DIFFRACTION AUTHOR B.DALHUS,A.S.ARVAI,I.ROSNES,O.E.OLSEN,P.H.BACKE,I.ALSETH,H.GAO,W.CAO, AUTHOR 2 J.A.TAINER,M.BJORAS REVDAT 4 08-MAY-24 2W36 1 REMARK REVDAT 3 25-DEC-19 2W36 1 SOURCE REMARK LINK REVDAT 2 21-APR-09 2W36 1 JRNL REMARK REVDAT 1 20-JAN-09 2W36 0 JRNL AUTH B.DALHUS,A.S.ARVAI,I.ROSNES,O.E.OLSEN,P.H.BACKE,I.ALSETH, JRNL AUTH 2 H.GAO,W.CAO,J.A.TAINER,M.BJORAS JRNL TITL STRUCTURES OF ENDONUCLEASE V WITH DNA REVEAL INITIATION OF JRNL TITL 2 DEAMINATED ADENINE REPAIR. JRNL REF NAT.STRUCT.MOL.BIOL. V. 16 138 2009 JRNL REFN ISSN 1545-9993 JRNL PMID 19136958 JRNL DOI 10.1038/NSMB.1538 REMARK 2 REMARK 2 RESOLUTION. 2.10 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 82.0 REMARK 3 NUMBER OF REFLECTIONS : 32087 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) : 0.217 REMARK 3 FREE R VALUE : 0.258 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 8.200 REMARK 3 FREE R VALUE TEST SET COUNT : 3197 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.10 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.18 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 54.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 1882 REMARK 3 BIN R VALUE (WORKING SET) : 0.3380 REMARK 3 BIN FREE R VALUE : 0.3510 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 189 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3574 REMARK 3 NUCLEIC ACID ATOMS : 648 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 221 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 58.10 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 COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.31 REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.37 REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.006 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 22.50 REMARK 3 IMPROPER ANGLES (DEGREES) : NULL 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) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : 0.29 REMARK 3 BSOL : 41.00 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 : INOSIN.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : 5BU.PARAM REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : INOSIN.TOP REMARK 3 TOPOLOGY FILE 3 : WATER.TOP REMARK 3 TOPOLOGY FILE 4 : ION.TOP REMARK 3 TOPOLOGY FILE 5 : 5BU.TOP REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2W36 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-NOV-08. REMARK 100 THE DEPOSITION ID IS D_1290035774. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL 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 : ALS REMARK 200 BEAMLINE : 12.3.1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9117 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32087 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 87.6 REMARK 200 DATA REDUNDANCY : 13.30 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 69.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.19 REMARK 200 COMPLETENESS FOR SHELL (%) : 62.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.60 REMARK 200 R MERGE FOR SHELL (I) : 0.35000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.900 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SOLVE REMARK 200 STARTING MODEL: NONE REMARK 200 REMARK 200 REMARK: NONE REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.16 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 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+1/2 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 0.00000 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 0.00000 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 25.98950 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 66.11950 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 95.80800 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 25.98950 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 66.11950 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 95.80800 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 25.98950 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 66.11950 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 95.80800 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 25.98950 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 66.11950 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 95.80800 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 6280 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26670 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -1.9 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C, D 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 BIOMT1 2 -1.000000 0.000000 0.000000 51.97900 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: HEXAMERIC REMARK 350 SOFTWARE USED: PQS REMARK 350 TOTAL BURIED SURFACE AREA: 6530 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 26610 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -2.6 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 51.97900 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 264.47800 REMARK 350 BIOMT3 2 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 HOH A2035 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, ASP 43 TO ALA REMARK 400 ENGINEERED RESIDUE IN CHAIN B, ASP 43 TO ALA 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 PHE A 225 REMARK 465 PHE B 225 REMARK 465 DC D 12 REMARK 465 DG D 13 REMARK 465 DA D 14 REMARK 465 DT D 15 REMARK 465 DC D 16 REMARK 465 DT D 17 REMARK 465 DC F 12 REMARK 465 DG F 13 REMARK 465 DA F 14 REMARK 465 DT F 15 REMARK 465 DC F 16 REMARK 465 DT F 17 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 LEU A 224 CA C O CB CG CD1 CD2 REMARK 470 LEU B 224 CA C O CB CG CD1 CD2 REMARK 470 DG D 18 P OP1 OP2 REMARK 470 DG F 18 P OP1 OP2 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 LEU A 120 72.34 -155.42 REMARK 500 ASP A 151 48.57 -84.35 REMARK 500 LYS A 152 -150.08 -86.79 REMARK 500 CYS A 154 12.39 -142.42 REMARK 500 LYS A 222 -78.25 -132.75 REMARK 500 ALA B 115 70.52 -66.77 REMARK 500 LYS B 222 -64.77 -95.90 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 DC E 10 0.06 SIDE CHAIN 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 A2009 DISTANCE = 5.81 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2W35 RELATED DB: PDB REMARK 900 STRUCTURES OF ENDONUCLEASE V WITH DNA REVEAL INITIATION OF REMARK 900 DEAMINATED ADENINE REPAIR REMARK 999 REMARK 999 SEQUENCE REMARK 999 ASP 43 ALA MUTATION DBREF 2W36 A 1 225 UNP Q9X2H9 NFI_THEMA 1 225 DBREF 2W36 B 1 225 UNP Q9X2H9 NFI_THEMA 1 225 DBREF 2W36 C 1 11 PDB 2W36 2W36 1 11 DBREF 2W36 D 12 22 PDB 2W36 2W36 12 22 DBREF 2W36 E 1 11 PDB 2W36 2W36 1 11 DBREF 2W36 F 12 22 PDB 2W36 2W36 12 22 SEQADV 2W36 ALA A 43 UNP Q9X2H9 ASP 43 ENGINEERED MUTATION SEQADV 2W36 ALA B 43 UNP Q9X2H9 ASP 43 ENGINEERED MUTATION SEQRES 1 A 225 MET ASP TYR ARG GLN LEU HIS ARG TRP ASP LEU PRO PRO SEQRES 2 A 225 GLU GLU ALA ILE LYS VAL GLN ASN GLU LEU ARG LYS LYS SEQRES 3 A 225 ILE LYS LEU THR PRO TYR GLU GLY GLU PRO GLU TYR VAL SEQRES 4 A 225 ALA GLY VAL ALA LEU SER PHE PRO GLY LYS GLU GLU GLY SEQRES 5 A 225 LEU ALA VAL ILE VAL VAL LEU GLU TYR PRO SER PHE LYS SEQRES 6 A 225 ILE LEU GLU VAL VAL SER GLU ARG GLY GLU ILE THR PHE SEQRES 7 A 225 PRO TYR ILE PRO GLY LEU LEU ALA PHE ARG GLU GLY PRO SEQRES 8 A 225 LEU PHE LEU LYS ALA TRP GLU LYS LEU ARG THR LYS PRO SEQRES 9 A 225 ASP VAL VAL VAL PHE ASP GLY GLN GLY LEU ALA HIS PRO SEQRES 10 A 225 ARG LYS LEU GLY ILE ALA SER HIS MET GLY LEU PHE ILE SEQRES 11 A 225 GLU ILE PRO THR ILE GLY VAL ALA LYS SER ARG LEU TYR SEQRES 12 A 225 GLY THR PHE LYS MET PRO GLU ASP LYS ARG CYS SER TRP SEQRES 13 A 225 SER TYR LEU TYR ASP GLY GLU GLU ILE ILE GLY CYS VAL SEQRES 14 A 225 ILE ARG THR LYS GLU GLY SER ALA PRO ILE PHE VAL SER SEQRES 15 A 225 PRO GLY HIS LEU MET ASP VAL GLU SER SER LYS ARG LEU SEQRES 16 A 225 ILE LYS ALA PHE THR LEU PRO GLY ARG ARG ILE PRO GLU SEQRES 17 A 225 PRO THR ARG LEU ALA HIS ILE TYR THR GLN ARG LEU LYS SEQRES 18 A 225 LYS GLY LEU PHE SEQRES 1 B 225 MET ASP TYR ARG GLN LEU HIS ARG TRP ASP LEU PRO PRO SEQRES 2 B 225 GLU GLU ALA ILE LYS VAL GLN ASN GLU LEU ARG LYS LYS SEQRES 3 B 225 ILE LYS LEU THR PRO TYR GLU GLY GLU PRO GLU TYR VAL SEQRES 4 B 225 ALA GLY VAL ALA LEU SER PHE PRO GLY LYS GLU GLU GLY SEQRES 5 B 225 LEU ALA VAL ILE VAL VAL LEU GLU TYR PRO SER PHE LYS SEQRES 6 B 225 ILE LEU GLU VAL VAL SER GLU ARG GLY GLU ILE THR PHE SEQRES 7 B 225 PRO TYR ILE PRO GLY LEU LEU ALA PHE ARG GLU GLY PRO SEQRES 8 B 225 LEU PHE LEU LYS ALA TRP GLU LYS LEU ARG THR LYS PRO SEQRES 9 B 225 ASP VAL VAL VAL PHE ASP GLY GLN GLY LEU ALA HIS PRO SEQRES 10 B 225 ARG LYS LEU GLY ILE ALA SER HIS MET GLY LEU PHE ILE SEQRES 11 B 225 GLU ILE PRO THR ILE GLY VAL ALA LYS SER ARG LEU TYR SEQRES 12 B 225 GLY THR PHE LYS MET PRO GLU ASP LYS ARG CYS SER TRP SEQRES 13 B 225 SER TYR LEU TYR ASP GLY GLU GLU ILE ILE GLY CYS VAL SEQRES 14 B 225 ILE ARG THR LYS GLU GLY SER ALA PRO ILE PHE VAL SER SEQRES 15 B 225 PRO GLY HIS LEU MET ASP VAL GLU SER SER LYS ARG LEU SEQRES 16 B 225 ILE LYS ALA PHE THR LEU PRO GLY ARG ARG ILE PRO GLU SEQRES 17 B 225 PRO THR ARG LEU ALA HIS ILE TYR THR GLN ARG LEU LYS SEQRES 18 B 225 LYS GLY LEU PHE SEQRES 1 C 11 DG DC BRU DA DC DI DG DA BRU DC DG SEQRES 1 D 11 DC DG DA DT DC DT DG DT DA DG DC SEQRES 1 E 11 DG DC BRU DA DC DI DG DA BRU DC DG SEQRES 1 F 11 DC DG DA DT DC DT DG DT DA DG DC MODRES 2W36 BRU C 3 DU MODRES 2W36 BRU C 9 DU MODRES 2W36 BRU E 3 DU MODRES 2W36 BRU E 9 DU HET BRU C 3 20 HET BRU C 9 20 HET BRU E 3 20 HET BRU E 9 20 HETNAM BRU 5-BROMO-2'-DEOXYURIDINE-5'-MONOPHOSPHATE FORMUL 3 BRU 4(C9 H12 BR N2 O8 P) FORMUL 7 HOH *221(H2 O) HELIX 1 1 PRO A 12 ARG A 24 1 13 HELIX 2 2 LYS A 25 ILE A 27 5 3 HELIX 3 3 LEU A 85 GLU A 98 1 14 HELIX 4 4 GLY A 121 GLU A 131 1 11 HELIX 5 5 ASP A 188 THR A 200 1 13 HELIX 6 6 PRO A 207 LYS A 221 1 15 HELIX 7 7 PRO B 12 ARG B 24 1 13 HELIX 8 8 LYS B 25 ILE B 27 5 3 HELIX 9 9 LEU B 85 LEU B 100 1 16 HELIX 10 10 GLY B 121 GLU B 131 1 11 HELIX 11 11 ASP B 188 THR B 200 1 13 HELIX 12 12 PRO B 207 GLY B 223 1 17 SHEET 1 AA 8 LYS A 65 GLU A 75 0 SHEET 2 AA 8 GLU A 51 GLU A 60 -1 O GLY A 52 N GLY A 74 SHEET 3 AA 8 TYR A 38 GLY A 48 -1 O VAL A 39 N LEU A 59 SHEET 4 AA 8 VAL A 106 ASP A 110 1 O VAL A 106 N ALA A 40 SHEET 5 AA 8 THR A 134 ALA A 138 1 O ILE A 135 N PHE A 109 SHEET 6 AA 8 ILE A 179 PRO A 183 -1 O PHE A 180 N ALA A 138 SHEET 7 AA 8 GLU A 164 ILE A 170 -1 O CYS A 168 N VAL A 181 SHEET 8 AA 8 TRP A 156 ASP A 161 -1 O SER A 157 N VAL A 169 SHEET 1 BA 8 LYS B 65 GLU B 75 0 SHEET 2 BA 8 GLU B 51 GLU B 60 -1 O GLY B 52 N GLY B 74 SHEET 3 BA 8 TYR B 38 GLY B 48 -1 O VAL B 39 N LEU B 59 SHEET 4 BA 8 VAL B 106 ASP B 110 1 O VAL B 106 N ALA B 40 SHEET 5 BA 8 THR B 134 ALA B 138 1 O ILE B 135 N PHE B 109 SHEET 6 BA 8 ILE B 179 PRO B 183 -1 O PHE B 180 N ALA B 138 SHEET 7 BA 8 GLU B 164 ARG B 171 -1 O CYS B 168 N VAL B 181 SHEET 8 BA 8 SER B 155 ASP B 161 -1 O SER B 155 N ARG B 171 LINK O3' DC C 2 P BRU C 3 1555 1555 1.61 LINK O3' BRU C 3 P DA C 4 1555 1555 1.60 LINK O3' DA C 8 P BRU C 9 1555 1555 1.61 LINK O3' BRU C 9 P DC C 10 1555 1555 1.60 LINK O3' DC E 2 P BRU E 3 1555 1555 1.61 LINK O3' BRU E 3 P DA E 4 1555 1555 1.60 LINK O3' DA E 8 P BRU E 9 1555 1555 1.61 LINK O3' BRU E 9 P DC E 10 1555 1555 1.60 CISPEP 1 TYR A 61 PRO A 62 0 -0.14 CISPEP 2 TYR B 61 PRO B 62 0 0.20 CRYST1 51.979 132.239 191.616 90.00 90.00 90.00 I 2 2 2 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 0.019239 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007562 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005219 0.00000