HEADER HYDROLASE 03-JAN-03 1NKU TITLE NMR SOLUTION STRUCTURE OF ZINC-BINDING PROTEIN 3-METHYLADENINE DNA TITLE 2 GLYCOSYLASE I (TAG) COMPND MOL_ID: 1; COMPND 2 MOLECULE: 3-METHYLADENINE DNA GLYCOSYLASE I (TAG); COMPND 3 CHAIN: A; COMPND 4 EC: 3.2.2.20; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS HYDROLASE EXPDTA SOLUTION NMR NUMMDL 25 AUTHOR K.KWON,C.CAO,J.T.STIVERS REVDAT 4 22-MAY-24 1NKU 1 REMARK REVDAT 3 23-FEB-22 1NKU 1 REMARK LINK REVDAT 2 24-FEB-09 1NKU 1 VERSN REVDAT 1 03-JUN-03 1NKU 0 JRNL AUTH K.KWON,C.CAO,J.T.STIVERS JRNL TITL A NOVEL ZINC SNAP MOTIF CONVEYS STRUCTURAL STABILITY TO JRNL TITL 2 3-METHYLADENINE DNA GLYCOSYLASE I JRNL REF J.BIOL.CHEM. V. 278 19442 2003 JRNL REFN ISSN 0021-9258 JRNL PMID 12654914 JRNL DOI 10.1074/JBC.M300934200 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1, X-PLOR NIH 2.2 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE REMARK 3 -KUNSTLEVE,JIANG,KUSZEWSKI,NILGES, PANNU,READ,RICE, REMARK 3 SIMONSON,WARREN (CNS), G.M CLORE (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1NKU COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-JAN-03. REMARK 100 THE DEPOSITION ID IS D_1000017959. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 6.6 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5-1MM 3-METHYLADENINE DNA REMARK 210 GLYCOSYLASE I (TAG), 10MM REMARK 210 PHOSPHATE BUFFER, PH 6.6, 100MM REMARK 210 NACL, 3MM DTT, 0.34 MM NAN3 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : DMX; UNITYPLUS REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 25 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH ACCEPTABLE REMARK 210 COVALENT GEOMETRY, STRUCTURES REMARK 210 WITH FAVORABLE NON-BOND ENERGY, REMARK 210 STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS, STRUCTURES REMARK 210 WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 17 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS 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 O CYS A 179 H CYS A 181 1.53 REMARK 500 O LYS A 52 H TYR A 56 1.59 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 1 GLN A 9 -139.71 -168.05 REMARK 500 1 ASP A 10 89.44 46.14 REMARK 500 1 GLU A 20 -114.49 -157.14 REMARK 500 1 TRP A 21 100.58 49.62 REMARK 500 1 ASP A 64 172.13 68.85 REMARK 500 1 HIS A 88 90.44 -179.92 REMARK 500 1 HIS A 122 13.55 44.54 REMARK 500 1 VAL A 176 -163.09 38.19 REMARK 500 1 CYS A 180 -63.75 62.17 REMARK 500 1 ASN A 185 27.64 -173.35 REMARK 500 2 SER A 8 119.82 -169.57 REMARK 500 2 GLN A 9 -152.27 38.69 REMARK 500 2 ASP A 10 74.66 44.75 REMARK 500 2 ASN A 19 -73.69 -80.16 REMARK 500 2 TRP A 21 99.10 -175.74 REMARK 500 2 PHE A 63 18.24 -54.72 REMARK 500 2 MET A 71 171.39 -52.39 REMARK 500 2 ILE A 86 91.96 -59.87 REMARK 500 2 HIS A 88 34.06 -148.25 REMARK 500 2 ARG A 89 -65.70 59.20 REMARK 500 2 HIS A 175 -117.76 -133.38 REMARK 500 3 ASN A 19 -71.23 -72.26 REMARK 500 3 TRP A 21 103.24 -175.32 REMARK 500 3 ALA A 42 109.89 -47.72 REMARK 500 3 LEU A 44 -165.38 -77.94 REMARK 500 3 PHE A 63 68.24 -101.37 REMARK 500 3 ASP A 64 162.25 -36.11 REMARK 500 3 ALA A 83 82.50 164.09 REMARK 500 3 ILE A 85 -147.08 -58.14 REMARK 500 3 HIS A 88 101.54 -178.34 REMARK 500 3 HIS A 122 11.82 51.97 REMARK 500 3 HIS A 175 -119.49 123.67 REMARK 500 3 CYS A 179 61.25 -69.90 REMARK 500 3 CYS A 180 -87.64 34.31 REMARK 500 3 PRO A 183 -102.34 -82.26 REMARK 500 4 TRP A 6 16.01 44.42 REMARK 500 4 GLN A 9 69.20 -175.40 REMARK 500 4 GLU A 20 -124.58 -153.78 REMARK 500 4 TRP A 21 93.43 57.56 REMARK 500 4 LEU A 44 -141.25 -111.23 REMARK 500 4 ASP A 64 148.33 62.80 REMARK 500 4 ALA A 83 -31.29 92.29 REMARK 500 4 HIS A 88 14.77 -164.25 REMARK 500 4 ARG A 89 -70.43 53.30 REMARK 500 4 HIS A 122 18.28 42.95 REMARK 500 4 THR A 137 -2.03 52.24 REMARK 500 4 HIS A 175 -67.45 -122.52 REMARK 500 4 VAL A 176 -89.89 -159.57 REMARK 500 4 VAL A 177 -35.36 -150.52 REMARK 500 4 CYS A 179 79.71 -64.74 REMARK 500 REMARK 500 THIS ENTRY HAS 343 RAMACHANDRAN OUTLIERS. 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 ZN A 188 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 4 SG REMARK 620 2 HIS A 17 NE2 106.8 REMARK 620 3 HIS A 175 ND1 113.3 108.5 REMARK 620 4 CYS A 179 SG 107.4 111.3 109.5 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 ZN A 188 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1LMZ RELATED DB: PDB REMARK 900 THE SOLUTION STRUCTURE OF TAG WITHOUT ZINC DBREF 1NKU A 1 187 UNP P05100 3MG1_ECOLI 1 187 SEQRES 1 A 187 MET GLU ARG CYS GLY TRP VAL SER GLN ASP PRO LEU TYR SEQRES 2 A 187 ILE ALA TYR HIS ASP ASN GLU TRP GLY VAL PRO GLU THR SEQRES 3 A 187 ASP SER LYS LYS LEU PHE GLU MET ILE CYS LEU GLU GLY SEQRES 4 A 187 GLN GLN ALA GLY LEU SER TRP ILE THR VAL LEU LYS LYS SEQRES 5 A 187 ARG GLU ASN TYR ARG ALA CYS PHE HIS GLN PHE ASP PRO SEQRES 6 A 187 VAL LYS VAL ALA ALA MET GLN GLU GLU ASP VAL GLU ARG SEQRES 7 A 187 LEU VAL GLN ASP ALA GLY ILE ILE ARG HIS ARG GLY LYS SEQRES 8 A 187 ILE GLN ALA ILE ILE GLY ASN ALA ARG ALA TYR LEU GLN SEQRES 9 A 187 MET GLU GLN ASN GLY GLU PRO PHE ALA ASP PHE VAL TRP SEQRES 10 A 187 SER PHE VAL ASN HIS GLN PRO GLN MET THR GLN ALA THR SEQRES 11 A 187 THR LEU SER GLU ILE PRO THR SER THR PRO ALA SER ASP SEQRES 12 A 187 ALA LEU SER LYS ALA LEU LYS LYS ARG GLY PHE LYS PHE SEQRES 13 A 187 VAL GLY THR THR ILE CYS TYR SER PHE MET GLN ALA CYS SEQRES 14 A 187 GLY LEU VAL ASN ASP HIS VAL VAL GLY CYS CYS CYS TYR SEQRES 15 A 187 PRO GLY ASN LYS PRO HET ZN A 188 1 HETNAM ZN ZINC ION FORMUL 2 ZN ZN 2+ HELIX 1 1 ASP A 10 GLU A 20 1 11 HELIX 2 2 ASP A 27 ALA A 42 1 16 HELIX 3 3 SER A 45 HIS A 61 1 17 HELIX 4 4 ASP A 64 ALA A 70 1 7 HELIX 5 5 GLN A 72 GLN A 81 1 10 HELIX 6 6 HIS A 88 ASN A 108 1 21 HELIX 7 7 PRO A 111 VAL A 120 1 10 HELIX 8 8 THR A 131 ILE A 135 5 5 HELIX 9 9 THR A 139 GLY A 153 1 15 HELIX 10 10 GLY A 158 GLY A 170 1 13 SHEET 1 A 2 GLN A 125 MET A 126 0 SHEET 2 A 2 VAL A 172 ASN A 173 1 O ASN A 173 N GLN A 125 LINK SG CYS A 4 ZN ZN A 188 1555 1555 2.30 LINK NE2 HIS A 17 ZN ZN A 188 1555 1555 2.01 LINK ND1 HIS A 175 ZN ZN A 188 1555 1555 2.00 LINK SG CYS A 179 ZN ZN A 188 1555 1555 2.30 SITE 1 AC1 5 CYS A 4 HIS A 17 TRP A 21 HIS A 175 SITE 2 AC1 5 CYS A 179 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000 MODEL 1