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(-) Description

Title :  CRYSTAL STRUCTURE OF MUTY BOUND TO ITS ANTI-SUBSTRATE
 
Authors :  L. Wang, S. Lee, G. L. Verdine
Date :  12 Mar 15  (Deposition) - 27 May 15  (Release) - 22 Jul 15  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.21
Chains :  Asym./Biol. Unit :  A,B,C
Keywords :  8-Oxoguanine, Base-Excision Repair, Anti-Substrate, Hydrolase-Dna Complex (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  L. Wang, S. J. Lee, G. L. Verdine
Structural Basis For Avoidance Of Promutagenic Dna Repair B Muty Adenine Dna Glycosylase.
J. Biol. Chem. V. 290 17096 2015
PubMed-ID: 25995449  |  Reference-DOI: 10.1074/JBC.M115.657866

(-) Compounds

Molecule 1 - A/G-SPECIFIC ADENINE GLYCOSYLASE
    Chains: A
    EC Number: 3.2.2.-
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Mutation: YES
    Organism Scientific: GEOBACILLUS STEAROTHERMOPHILUS
    Organism Taxid: 1422
 
Molecule 2 - DNA (5'-D(*AP*AP*GP*AP*CP*(8OG)P*TP*GP*GP*AP*C)-3')
    Chains: B
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES
 
Molecule 3 - DNA (5'-D(*T*GP*TP*CP*CP*AP*CP*GP*TP*CP*T)-3')
    Chains: C
    Engineered: YES
    Organism Scientific: SYNTHETIC CONSTRUCT
    Organism Taxid: 32630
    Synthetic: YES

 Structural Features

(-) Chains, Units

  123
Asymmetric/Biological Unit : ABC

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (4, 4)

Asymmetric/Biological Unit (4, 4)
No.NameCountTypeFull Name
18OG1Mod. Nucleotide8-OXO-2'-DEOXY-GUANOSINE-5'-MONOPHOSPHATE
2GOL1Ligand/IonGLYCEROL
3NA1Ligand/IonSODIUM ION
4SF41Ligand/IonIRON/SULFUR CLUSTER

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWARECYS A:198 , CYS A:205 , CYS A:208 , CYS A:214 , ALA A:222binding site for residue SF4 A 401
2AC2SOFTWARESER A:118 , LEU A:120 , VAL A:123 , DC C:21 , HOH C:205binding site for residue NA A 402
3AC3SOFTWAREALA A:162 , DA B:2 , DG B:3 , DC C:18 , DG C:19 , DT C:20binding site for residue GOL C 101

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Leu A:225 -Pro A:226

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 4YOQ)

(-) 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:344
                                                                                                                                                                                                                                                                                                                                                                                        
               SCOP domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhhhhhhhhhhhh..hhhhh..hhhhhhhhhhhhh..hhhhhhhhhhhhhhhh.hhhhhhhhhhhhhhhhhh....hhhhhhhhhhhhhhhhhh......hhhhhhh....hhhhhhhhhhhhhh......hhhhhhhhhhhh.......hhhhhhhhhhhhhhhh...hhhhhhhhhhhhhhhh............hhhhhhhhhhhhhhhh.....eeeeeeeeeee.....eeeee..........ee..eee......hhhhhhh...eeee....eeeeee...eeeeeeeeeeeee........eeeehhhhhhhh..hhhhhhhhhhhhhhh. Sec.struct. author
                 SAPs(SNPs) -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript -------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 4yoq A   9 PAREFQRDLLDWFARERRDLPWRKDRDPYKVWVSEVMLQQTRVETVIPYFEQFIDRFPTLEALADADEDEVLKAWEGLGYYSRVRNLHAAVKEVKTRYGGKVPDDPDEFSRLKGVGPYTVGAVLSLAYGVPEPAVDGNVMRVLSRLFLVTDDIAKCSTRKRFEQIVREIMAYENPGAFNEALIELGALVCTPRRPSCLLCPVQAYCQAFAEGVAEELPVKMVKQVPLAVAVLADDEGRVLIRKRDSTGLLANLWEFPSCETDGADGKEKLEQMVGLQVELTEPIVSFEHAFSHLVWQLTVFPGRLVHGGPVEEPYRLAPEDELKAYAFPVSHQRVWREYKEWAS 360
                                    18        28        38        48        58        68        78        88        98       108       118       128       138       148       158       168       178       188       198       208       218       228||     242       252       262       272       282    || 296       306       316       326       336       346       356    
                                                                                                                                                                                                                                                      229|                                                  287|                                                                    
                                                                                                                                                                                                                                                       234                                                   292                                                                    


Chain B from PDB  Type:DNA  Length:11
                                           
                 4yoq B   1 AAGACxTGGAC  11
                                 |  10 
                                 6-8OG 


Chain C from PDB  Type:DNA  Length:10
                                          
                 4yoq C  13 GTCCACGTCT  22
                                    22
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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 4YOQ)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) Gene Ontology  (12, 12)

Asymmetric/Biological Unit(hide GO term definitions)

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  Cis Peptide Bonds
    Leu A:225 - Pro A:226   [ RasMol ]  
 

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  4yoq
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  MUTY_GEOSE | P83847
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  3.2.2.-
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 Related Entries

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

UniProtKB/Swiss-Prot
        MUTY_GEOSE | P83847: 1rrq 1rrs 1vrl 3fsp 3g0q 4yph 4ypr 5dpk 5kn8 5kn9

(-) Related Entries Specified in the PDB File

4yph 4ypr