HEADER HYDROLASE 22-FEB-07 2JHN TITLE 3-METHYLADENINE DNA-GLYCOSYLASE FROM ARCHAEOGLOBUS FULGIDUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3-METHYLADENINE DNA-GLYCOSYLASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: ALKA; COMPND 5 EC: 3.2.2.21; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ARCHAEOGLOBUS FULGIDUS; SOURCE 3 ORGANISM_TAXID: 2234; SOURCE 4 STRAIN: VC 16; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR: PET-11A KEYWDS ALKA, DNA REPAIR, N1-METHYLADENINE, N3-METHYLCYTOSINE, KEYWDS 2 HYPERTHERMOPHILES, ARCHAEOGLOBUS FULGIDUS, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR I.LEIROS,M.P.NABONG,K.GROSVIK,J.RINGVOLL,G.T.HAUGLAND,L.ULDAL, AUTHOR 2 K.REITE,I.K.OLSBU,I.KNAEVELSRUD,E.MOE,O.A.ANDERSEN,N.K.BIRKELAND, AUTHOR 3 P.RUOFF,A.KLUNGLAND,S.BJELLAND REVDAT 4 08-MAY-24 2JHN 1 LINK REVDAT 3 24-FEB-09 2JHN 1 VERSN REVDAT 2 03-JUL-07 2JHN 1 JRNL REVDAT 1 10-APR-07 2JHN 0 JRNL AUTH I.LEIROS,M.P.NABONG,K.GROSVIK,J.RINGVOLL,G.T.HAUGLAND, JRNL AUTH 2 L.ULDAL,K.REITE,I.K.OLSBU,I.KNAEVELSRUD,E.MOE,O.A.ANDERSEN, JRNL AUTH 3 N.K.BIRKELAND,P.RUOFF,A.KLUNGLAND,S.BJELLAND JRNL TITL STRUCTURAL BASIS FOR ENZYMATIC EXCISION OF N1-METHYLADENINE JRNL TITL 2 AND N3-METHYLCYTOSINE FROM DNA JRNL REF EMBO J. V. 26 2206 2007 JRNL REFN ISSN 0261-4189 JRNL PMID 17396151 JRNL DOI 10.1038/SJ.EMBOJ.7601662 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 12.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.4 REMARK 3 NUMBER OF REFLECTIONS : 60152 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) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.223 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 3203 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 4287 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2720 REMARK 3 BIN FREE R VALUE SET COUNT : 227 REMARK 3 BIN FREE R VALUE : 0.3660 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4788 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 98 REMARK 3 SOLVENT ATOMS : 495 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 18.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 19.71 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.10000 REMARK 3 B22 (A**2) : 0.49000 REMARK 3 B33 (A**2) : -0.27000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.20000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.130 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.124 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.078 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 2.481 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.938 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 5101 ; 0.015 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 6865 ; 1.360 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 606 ; 5.362 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 255 ;35.162 ;22.784 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 926 ;14.673 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 54 ;15.735 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 714 ; 0.094 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3866 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 2472 ; 0.196 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 3521 ; 0.305 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 396 ; 0.161 ; 0.200 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): 68 ; 0.219 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 29 ; 0.186 ; 0.200 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): 3086 ; 1.038 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4751 ; 1.511 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2362 ; 2.337 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2114 ; 3.478 ; 4.500 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 : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 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. THE TWO MOLECULES IN THE ASYMMETRIC UNIT ARE RELATED REMARK 3 BY A PSEUDO-TRANSLATIONAL VECTOR 0.5,0.45,0.5, BUT HAVE BEEN REMARK 3 REFINED INDIVDUALLY. RESIDUES A291-A292 AND B290- B293 WERE REMARK 3 DISORDERED. THE TWO PROTEIN MONOMERS IN THE ASYMMETRIC UNIT ARE REMARK 3 RELATED BY A PSEUDO-TRANSLATIONAL VECTOR (0.5, 0.45, 0.5). THE REMARK 3 TWO MONOMERS WERE REFINED INDIVIDUALLY. REMARK 4 REMARK 4 2JHN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1290031580. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-MAR-05 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.009 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 : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 63551 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 200 DATA REDUNDANCY : 8.000 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 18.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.60 REMARK 200 R MERGE FOR SHELL (I) : 0.50000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 3.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: SAD REMARK 200 SOFTWARE USED: SHARP REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: THE STRUCTURE WAS DETERMINED BY SHARP USING MERCURY SITES REMARK 200 IDENTIFIED BY SHELXD. THE ANOMALOUS DIFFERENCES ARE INCLUDED IN REMARK 200 THE DEPOSITED STRUCTURE FACTORS. REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.70 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 50 MM MES, PH6.0., PH 6.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 24.98400 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 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 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PQS 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 400 REMARK 400 COMPOUND REMARK 400 ENGINEERED RESIDUE IN CHAIN A, MET 229 TO ILE REMARK 400 ENGINEERED RESIDUE IN CHAIN B, MET 229 TO ILE 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 LYS A 291 REMARK 465 THR A 292 REMARK 465 LYS B 290 REMARK 465 LYS B 291 REMARK 465 THR B 292 REMARK 465 GLU B 293 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OG SER B 228 O VAL B 235 2.12 REMARK 500 O HOH B 2154 O HOH B 2155 2.14 REMARK 500 NH2 ARG A 183 O HOH A 2131 2.16 REMARK 500 OE1 GLU B 202 O HOH B 2214 2.18 REMARK 500 OE1 GLN A 129 NH2 ARG A 183 2.19 REMARK 500 OE1 GLN A 130 O HOH A 2131 2.19 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 ASN A 154 -132.02 50.31 REMARK 500 PHE A 288 50.68 -146.91 REMARK 500 SER A 289 -38.93 163.19 REMARK 500 LEU A 294 105.21 41.42 REMARK 500 PHE B 288 37.58 -158.52 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 HG A1297 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET A 1 O REMARK 620 2 MET A 1 N 62.7 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1299 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU A 21 O REMARK 620 2 LEU A 24 O 86.1 REMARK 620 3 ASP A 28 O 161.2 82.3 REMARK 620 4 HOH A2028 O 89.8 167.1 104.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MBO A1296 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 178 SG REMARK 620 2 MBO A1296 CE1 178.0 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A1298 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR A 213 O REMARK 620 2 PHE A 215 O 91.0 REMARK 620 3 ILE A 218 O 98.0 91.6 REMARK 620 4 HOH A2165 O 89.1 177.2 91.1 REMARK 620 5 HOH A2167 O 167.6 94.1 93.1 85.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HG B1297 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 MET B 1 O REMARK 620 2 MET B 1 N 54.9 REMARK 620 3 HOH B2029 O 146.1 97.7 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1299 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LEU B 24 O REMARK 620 2 ASP B 28 O 83.8 REMARK 620 3 HOH B2032 O 159.5 106.8 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MBO B1296 HG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 178 SG REMARK 620 2 MBO B1296 CE1 176.2 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B1298 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 THR B 213 O REMARK 620 2 PHE B 215 O 91.8 REMARK 620 3 ILE B 218 O 98.1 95.4 REMARK 620 4 HOH B2225 O 86.4 170.8 93.8 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 HG A1297 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A1298 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A1299 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HG B1297 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B1298 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B1299 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MBO A1296 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES A1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MBO B1296 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES B1301 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES B1302 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MES B1303 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1300 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A1302 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B1300 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL B1304 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2JHJ RELATED DB: PDB REMARK 900 3-METHYLADENINE DNA-GLYCOSYLASE FROM ARCHAEOGLOBUS FULGIDUS REMARK 999 REMARK 999 SEQUENCE REMARK 999 SINGLE MUTATION M229I DBREF 2JHN A 1 295 UNP O28163 O28163_ARCFU 1 295 DBREF 2JHN B 1 295 UNP O28163 O28163_ARCFU 1 295 SEQADV 2JHN ILE A 229 UNP O28163 MET 229 ENGINEERED MUTATION SEQADV 2JHN ILE B 229 UNP O28163 MET 229 ENGINEERED MUTATION SEQRES 1 A 295 MET TRP ARG ILE GLU LEU LYS HIS ALA VAL ASN TRP GLU SEQRES 2 A 295 LEU LYS MET LYS PHE PHE VAL LEU PRO GLU LEU PRO THR SEQRES 3 A 295 PRO ASP VAL VAL GLU SER GLY VAL TRP ARG ARG ALA ILE SEQRES 4 A 295 VAL LEU ASP GLY ARG ALA VAL ALA VAL MET ALA TYR PRO SEQRES 5 A 295 GLU SER GLU ARG THR ILE VAL VAL GLU GLY ASN PHE GLU SEQRES 6 A 295 ASN ARG GLU TRP GLU ALA VAL ARG ARG LYS LEU VAL GLU SEQRES 7 A 295 TYR LEU GLY LEU GLN ASN PRO GLU GLU LEU TYR ARG PHE SEQRES 8 A 295 MET ASP GLY ASP GLU LYS LEU ARG MET LEU LYS ASN ARG SEQRES 9 A 295 PHE TYR GLY PHE GLY ARG ALA GLY LEU MET SER MET SER SEQRES 10 A 295 VAL PHE GLU GLY ILE ALA LYS ALA ILE ILE GLN GLN GLN SEQRES 11 A 295 ILE SER PHE VAL VAL ALA GLU LYS LEU ALA ALA LYS ILE SEQRES 12 A 295 VAL GLY ARG PHE GLY ASP GLU VAL GLU TRP ASN GLY LEU SEQRES 13 A 295 LYS PHE TYR GLY PHE PRO THR GLN GLU ALA ILE LEU LYS SEQRES 14 A 295 ALA GLY VAL GLU GLY LEU ARG GLU CYS GLY LEU SER ARG SEQRES 15 A 295 ARG LYS ALA GLU LEU ILE VAL GLU ILE ALA LYS GLU GLU SEQRES 16 A 295 ASN LEU GLU GLU LEU LYS GLU TRP GLY GLU GLU GLU ALA SEQRES 17 A 295 TYR GLU TYR LEU THR SER PHE LYS GLY ILE GLY ARG TRP SEQRES 18 A 295 THR ALA GLU LEU VAL LEU SER ILE ALA LEU GLY LYS ASN SEQRES 19 A 295 VAL PHE PRO ALA ASP ASP LEU GLY VAL ARG ARG ALA VAL SEQRES 20 A 295 SER ARG LEU TYR PHE ASN GLY GLU ILE GLN SER ALA GLU SEQRES 21 A 295 LYS VAL ARG GLU ILE ALA ARG GLU ARG PHE GLY ARG PHE SEQRES 22 A 295 ALA ARG ASP ILE LEU PHE TYR LEU PHE LEU TYR ASP ARG SEQRES 23 A 295 PHE PHE SER LYS LYS THR GLU LEU VAL SEQRES 1 B 295 MET TRP ARG ILE GLU LEU LYS HIS ALA VAL ASN TRP GLU SEQRES 2 B 295 LEU LYS MET LYS PHE PHE VAL LEU PRO GLU LEU PRO THR SEQRES 3 B 295 PRO ASP VAL VAL GLU SER GLY VAL TRP ARG ARG ALA ILE SEQRES 4 B 295 VAL LEU ASP GLY ARG ALA VAL ALA VAL MET ALA TYR PRO SEQRES 5 B 295 GLU SER GLU ARG THR ILE VAL VAL GLU GLY ASN PHE GLU SEQRES 6 B 295 ASN ARG GLU TRP GLU ALA VAL ARG ARG LYS LEU VAL GLU SEQRES 7 B 295 TYR LEU GLY LEU GLN ASN PRO GLU GLU LEU TYR ARG PHE SEQRES 8 B 295 MET ASP GLY ASP GLU LYS LEU ARG MET LEU LYS ASN ARG SEQRES 9 B 295 PHE TYR GLY PHE GLY ARG ALA GLY LEU MET SER MET SER SEQRES 10 B 295 VAL PHE GLU GLY ILE ALA LYS ALA ILE ILE GLN GLN GLN SEQRES 11 B 295 ILE SER PHE VAL VAL ALA GLU LYS LEU ALA ALA LYS ILE SEQRES 12 B 295 VAL GLY ARG PHE GLY ASP GLU VAL GLU TRP ASN GLY LEU SEQRES 13 B 295 LYS PHE TYR GLY PHE PRO THR GLN GLU ALA ILE LEU LYS SEQRES 14 B 295 ALA GLY VAL GLU GLY LEU ARG GLU CYS GLY LEU SER ARG SEQRES 15 B 295 ARG LYS ALA GLU LEU ILE VAL GLU ILE ALA LYS GLU GLU SEQRES 16 B 295 ASN LEU GLU GLU LEU LYS GLU TRP GLY GLU GLU GLU ALA SEQRES 17 B 295 TYR GLU TYR LEU THR SER PHE LYS GLY ILE GLY ARG TRP SEQRES 18 B 295 THR ALA GLU LEU VAL LEU SER ILE ALA LEU GLY LYS ASN SEQRES 19 B 295 VAL PHE PRO ALA ASP ASP LEU GLY VAL ARG ARG ALA VAL SEQRES 20 B 295 SER ARG LEU TYR PHE ASN GLY GLU ILE GLN SER ALA GLU SEQRES 21 B 295 LYS VAL ARG GLU ILE ALA ARG GLU ARG PHE GLY ARG PHE SEQRES 22 B 295 ALA ARG ASP ILE LEU PHE TYR LEU PHE LEU TYR ASP ARG SEQRES 23 B 295 PHE PHE SER LYS LYS THR GLU LEU VAL HET MBO A1296 10 HET HG A1297 1 HET NA A1298 1 HET NA A1299 1 HET GOL A1300 6 HET MES A1301 12 HET GOL A1302 6 HET MBO B1296 10 HET HG B1297 1 HET NA B1298 1 HET NA B1299 1 HET GOL B1300 6 HET MES B1301 12 HET MES B1302 12 HET MES B1303 12 HET GOL B1304 6 HETNAM MBO MERCURIBENZOIC ACID HETNAM HG MERCURY (II) ION HETNAM NA SODIUM ION HETNAM GOL GLYCEROL HETNAM MES 2-(N-MORPHOLINO)-ETHANESULFONIC ACID HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 3 MBO 2(C7 H5 HG O2) FORMUL 4 HG 2(HG 2+) FORMUL 5 NA 4(NA 1+) FORMUL 7 GOL 4(C3 H8 O3) FORMUL 8 MES 4(C6 H13 N O4 S) FORMUL 19 HOH *495(H2 O) HELIX 1 1 ASN A 11 PHE A 18 1 8 HELIX 2 2 GLU A 65 ARG A 67 5 3 HELIX 3 3 GLU A 68 GLY A 81 1 14 HELIX 4 4 PRO A 85 GLY A 94 1 10 HELIX 5 5 ASP A 95 PHE A 105 1 11 HELIX 6 6 SER A 117 GLN A 128 1 12 HELIX 7 7 SER A 132 GLY A 148 1 17 HELIX 8 8 THR A 163 CYS A 178 1 16 HELIX 9 9 SER A 181 LYS A 193 1 13 HELIX 10 10 ASN A 196 TRP A 203 5 8 HELIX 11 11 GLY A 204 SER A 214 1 11 HELIX 12 12 GLY A 219 ALA A 230 1 12 HELIX 13 13 ASP A 240 PHE A 252 1 13 HELIX 14 14 SER A 258 PHE A 270 1 13 HELIX 15 15 PHE A 273 PHE A 288 1 16 HELIX 16 16 ASN B 11 PHE B 18 1 8 HELIX 17 17 GLU B 65 ARG B 67 5 3 HELIX 18 18 GLU B 68 GLY B 81 1 14 HELIX 19 19 PRO B 85 GLY B 94 1 10 HELIX 20 20 ASP B 95 PHE B 105 1 11 HELIX 21 21 SER B 117 GLN B 128 1 12 HELIX 22 22 SER B 132 GLY B 148 1 17 HELIX 23 23 THR B 163 GLY B 179 1 17 HELIX 24 24 SER B 181 LYS B 193 1 13 HELIX 25 25 ASN B 196 TRP B 203 5 8 HELIX 26 26 GLY B 204 SER B 214 1 11 HELIX 27 27 GLY B 219 ALA B 230 1 12 HELIX 28 28 ASP B 240 PHE B 252 1 13 HELIX 29 29 SER B 258 PHE B 270 1 13 HELIX 30 30 PHE B 273 PHE B 288 1 16 SHEET 1 AA 5 TRP A 2 GLU A 5 0 SHEET 2 AA 5 THR A 57 GLY A 62 -1 O ILE A 58 N ILE A 4 SHEET 3 AA 5 ARG A 44 SER A 54 -1 O MET A 49 N GLU A 61 SHEET 4 AA 5 VAL A 34 LEU A 41 -1 O TRP A 35 N ALA A 50 SHEET 5 AA 5 VAL A 29 GLU A 31 -1 O VAL A 29 N ARG A 36 SHEET 1 AB 2 GLU A 150 TRP A 153 0 SHEET 2 AB 2 LEU A 156 TYR A 159 -1 O LEU A 156 N TRP A 153 SHEET 1 BA 5 TRP B 2 GLU B 5 0 SHEET 2 BA 5 THR B 57 GLY B 62 -1 O ILE B 58 N ILE B 4 SHEET 3 BA 5 ARG B 44 SER B 54 -1 O MET B 49 N GLU B 61 SHEET 4 BA 5 VAL B 34 LEU B 41 -1 O TRP B 35 N ALA B 50 SHEET 5 BA 5 VAL B 29 GLU B 31 -1 O VAL B 29 N ARG B 36 SHEET 1 BB 2 GLU B 150 TRP B 153 0 SHEET 2 BB 2 LEU B 156 TYR B 159 -1 O LEU B 156 N TRP B 153 LINK O MET A 1 HG HG A1297 1555 1555 2.85 LINK N MET A 1 HG HG A1297 1555 1555 2.70 LINK O LEU A 21 NA NA A1299 1555 1555 2.55 LINK O LEU A 24 NA NA A1299 1555 1555 2.23 LINK O ASP A 28 NA NA A1299 1555 1555 2.28 LINK SG CYS A 178 HG MBO A1296 1555 1555 2.33 LINK O THR A 213 NA NA A1298 1555 1555 2.32 LINK O PHE A 215 NA NA A1298 1555 1555 2.45 LINK O ILE A 218 NA NA A1298 1555 1555 2.45 LINK NA NA A1298 O HOH A2165 1555 1555 2.53 LINK NA NA A1298 O HOH A2167 1555 1555 2.45 LINK NA NA A1299 O HOH A2028 1555 1555 2.10 LINK O MET B 1 HG HG B1297 1555 1555 2.89 LINK N MET B 1 HG HG B1297 1555 1555 2.81 LINK O LEU B 24 NA NA B1299 1555 1555 2.29 LINK O ASP B 28 NA NA B1299 1555 1555 2.28 LINK SG CYS B 178 HG MBO B1296 1555 1555 2.35 LINK O THR B 213 NA NA B1298 1555 1555 2.33 LINK O PHE B 215 NA NA B1298 1555 1555 2.42 LINK O ILE B 218 NA NA B1298 1555 1555 2.36 LINK HG HG B1297 O HOH B2029 1555 1555 3.19 LINK NA NA B1298 O HOH B2225 1555 1555 2.54 LINK NA NA B1299 O HOH B2032 1555 1555 2.10 CISPEP 1 THR A 26 PRO A 27 0 6.91 CISPEP 2 THR B 26 PRO B 27 0 6.18 SITE 1 AC1 2 MET A 1 TRP A 2 SITE 1 AC2 5 THR A 213 PHE A 215 ILE A 218 HOH A2165 SITE 2 AC2 5 HOH A2167 SITE 1 AC3 6 LEU A 21 PRO A 22 LEU A 24 THR A 26 SITE 2 AC3 6 ASP A 28 HOH A2028 SITE 1 AC4 1 MET B 1 SITE 1 AC5 4 THR B 213 PHE B 215 ILE B 218 HOH B2225 SITE 1 AC6 6 LEU B 21 PRO B 22 LEU B 24 THR B 26 SITE 2 AC6 6 ASP B 28 HOH B2032 SITE 1 AC7 5 LYS A 142 ARG A 146 CYS A 178 GLU B 173 SITE 2 AC7 5 GLU B 177 SITE 1 AC8 7 GLU A 190 GLU A 194 SER A 214 PHE A 215 SITE 2 AC8 7 LYS A 216 HOH A2135 HOH A2203 SITE 1 AC9 5 GLU A 177 LYS B 142 ARG B 146 CYS B 178 SITE 2 AC9 5 HOH B2284 SITE 1 BC1 8 ILE B 131 VAL B 135 GLY B 179 LEU B 180 SITE 2 BC1 8 SER B 181 LYS B 184 HOH B2175 HOH B2288 SITE 1 BC2 5 GLY B 204 GLU B 205 GLU B 206 GLU B 207 SITE 2 BC2 5 HOH B2289 SITE 1 BC3 7 GLU B 190 GLU B 194 SER B 214 PHE B 215 SITE 2 BC3 7 LYS B 216 HOH B2183 HOH B2290 SITE 1 BC4 8 LYS A 15 PHE A 18 TYR A 79 LEU A 80 SITE 2 BC4 8 GLY A 112 LEU A 113 HOH A2201 HOH A2202 SITE 1 BC5 6 ASN A 234 VAL A 235 PHE A 236 ALA A 266 SITE 2 BC5 6 GLY A 271 HOH A2204 SITE 1 BC6 7 LYS B 15 PHE B 18 TYR B 79 LEU B 80 SITE 2 BC6 7 LEU B 113 HOH B2285 HOH B2286 SITE 1 BC7 6 ASN B 234 VAL B 235 PHE B 236 ALA B 266 SITE 2 BC7 6 GLY B 271 HOH B2291 CRYST1 69.494 49.968 105.798 90.00 107.43 90.00 P 1 21 1 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 0.014390 0.000000 0.004518 0.00000 SCALE2 0.000000 0.020013 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009907 0.00000