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(-) Description

Title :  S. POMBE 3-METHYLADENINE DNA GLYCOSYLASE-LIKE PROTEIN MAG2 BOUND TO DAMAGED DNA
 
Authors :  S. Adhikary, B. F. Eichman
Date :  29 Oct 12  (Deposition) - 23 Jan 13  (Release) - 01 Jan 14  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  Helix-Hairpin-Helix, Non-Specific Dna-Binding Motif, Hydrolase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  S. Adhikary, M. C. Cato, K. L. Mcgary, A. Rokas, B. F. Eichman
Non-Productive Dna Damage Binding By Dna Glycosylase-Like Protein Mag2 From Schizosaccharomyces Pombe.
Dna Repair V. 12 196 2013
PubMed-ID: 23273506  |  Reference-DOI: 10.1016/J.DNAREP.2012.12.001

(-) Compounds

Molecule 1 - PROBABLE DNA-3-METHYLADENINE GLYCOSYLASE 2
    Chains: A
    EC Number: 3.2.2.21
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Strain: BL21
    Expression System Taxid: 511693
    Expression System Vector Type: PBG100
    Gene: SPBC23G7.11
    Organism Common: FISSION YEAST
    Organism Scientific: SCHIZOSACCHAROMYCES POMBE 972H-
    Organism Taxid: 284812
    Synonym: 3-METHYLADENINE DNA GLYCOSIDASE 2, 3MEA DNA GLYCOSYLASE 2
 
Molecule 2 - DNA (5'-D(P*GP*GP*AP*CP*TP*(3DR)P*AP*CP*GP*GP*G)-3')
    Chains: B
    Engineered: YES
    Synthetic: YES
 
Molecule 3 - DNA (5'-D(P*CP*CP*CP*GP*TP*TP*AP*GP*TP*CP*C)-3')
    Chains: C
    Engineered: YES
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (2, 3)

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
13DR1Mod. Nucleotide1',2'-DIDEOXYRIBOFURANOSE-5'-PHOSPHATE
2PEG2Ligand/IonDI(HYDROXYETHYL)ETHER

(-) Sites  (2, 2)

Asymmetric Unit (2, 2)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREPRO A:193BINDING SITE FOR RESIDUE PEG A 301
2AC2SOFTWARELYS A:20 , LYS A:27 , LEU A:208BINDING SITE FOR RESIDUE PEG A 302

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 4HSB)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Lys A:192 -Pro A:193

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 4HSB)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 4HSB)

(-) Exons   (0, 0)

(no "Exon" information available for 4HSB)

(-) Sequences/Alignments

Asymmetric/Biological Unit
   Reformat: Number of residues per line =  ('0' or empty: single-line sequence representation)
  Number of residues per labelling interval =   
  UniProt sequence: complete  aligned part    
   Show mapping: SCOP domains CATH domains Pfam domains Secondary structure (by author)
SAPs(SNPs) PROSITE motifs Exons
(details for a mapped element are shown in a popup box when the mouse pointer rests over it) 
Chain A from PDB  Type:PROTEIN  Length:205
                                                                                                                                                                                                                                             
               SCOP domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhh.hhhhhhhhhhhh..........hhhhhhhhhhhhh..hhhhhhhhhhhhhhhhh......hhhhhhh.hhhhhhh...hhhhhhhhhhhhhhhhh....hhhhhh..hhhhhhhhhh.....hhhhhhhhhhhh..........hhhhhhhhhhhh......hhhhhhhhhhhhh.hhhhhhhhhhhhhhhh Sec.struct. author
                 SAPs(SNPs) ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4hsb A   5 SDYKRAEKHLSSIDNKWSSLVKKVGPCTLTPHPEHAPYEGIIRAITSQKLSDAATNSIINKFCTQCSDNDEFPTPKQIMETDVETLHECGFSKLKSQEIHIVAEAALNKQIPSKSEIEKMSEEELMESLSKIKGVKRWTIEMYSIFTLGRLDIMPADDSTLKNEAKEFFGLSSKPQTEEVEKLTKPCKPYRTIAAWYLWQIPKLH 209
                                    14        24        34        44        54        64        74        84        94       104       114       124       134       144       154       164       174       184       194       204     


Chain B from PDB  Type:DNA  Length:11
                                           
                 4hsb B   2 GGACTxACGGG  12
                                 |  11 
                                 7-3DR 


Chain C from PDB  Type:DNA  Length:11
                                           
                 4hsb C   2 CCCGTTAGTCC  12
                                    11
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  x → Chemical Group (purple background, 'x', labelled with number + name, e.g. ACE or NH2)
  extra numbering lines below/above indicate numbering irregularities and modified residue names etc., number ends below/above '|'

 Classification and Annotation

(-) SCOP Domains  (0, 0)

(no "SCOP Domain" information available for 4HSB)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 4HSB)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 4HSB)

(-) Gene Ontology  (14, 14)

Asymmetric/Biological Unit(hide GO term definitions)

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 Related Entries

(-) Entries Sharing at Least One Protein Chain (UniProt ID)

UniProtKB/Swiss-Prot
        MAG2_SCHPO | O94468: 4b21 4b22 4b23 4b24

(-) Related Entries Specified in the PDB File

3s6i RELATED DNA GLYCOSYLASE FROM S. POMBE (MAG1)