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(-) Description

Title :  STRUCTURE AND ACTIVITIES OF ARCHAEAL MEMBERS OF THE LIGD 3' PHOSPHOESTERASE DNA REPAIR ENZYME SUPERFAMILY
 
Authors :  P. Smith, P. A. Nair, U. Das, S. Shuman
Date :  05 Oct 10  (Deposition) - 19 Jan 11  (Release) - 11 May 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.10
Chains :  Asym./Biol. Unit :  A
Keywords :  Phosphoesterase, Metalloenzyme, Hydrolase, Manganese, Beta Barrel (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  P. Smith, P. A. Nair, U. Das, H. Zhu, S. Shuman
Structures And Activities Of Archaeal Members Of The Ligd 3'-Phosphoesterase Dna Repair Enzyme Superfamily.
Nucleic Acids Res. V. 39 3310 2011
PubMed-ID: 21208981  |  Reference-DOI: 10.1093/NAR/GKQ1163

(-) Compounds

Molecule 1 - PUTATIVE UNCHARACTERIZED PROTEIN
    Chains: A
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET28B-SMT3-HIS10
    Expression System Strain: BL21(DE3)RIL
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Gene: MBAR_A2115
    Organism Scientific: METHANOSARCINA BARKERI STR. FUSARO
    Organism Taxid: 269797
    Strain: FUSARO / DSM 804

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit : A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (3, 3)
No.NameCountTypeFull Name
1CL1Ligand/IonCHLORIDE ION
2MN1Ligand/IonMANGANESE (II) ION
3PO41Ligand/IonPHOSPHATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHIS A:36 , HIS A:42 , ASP A:44 , PO4 A:201BINDING SITE FOR RESIDUE MN A 152
2AC2SOFTWARELEU A:71BINDING SITE FOR RESIDUE CL A 153
3AC3SOFTWAREHIS A:36 , HIS A:42 , ASP A:44 , THR A:75 , TYR A:94 , MN A:152 , HOH A:245BINDING SITE FOR RESIDUE PO4 A 201

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 3P43)

(-) Cis Peptide Bonds  (0, 0)

(no "Cis Peptide Bond" information available for 3P43)

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 3P43)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 3P43)

(-) Exons   (0, 0)

(no "Exon" information available for 3P43)

(-) 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    
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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:124
 aligned with Q46AP6_METBF | Q46AP6 from UniProtKB/TrEMBL  Length:151

    Alignment length:125
                                    36        46        56        66        76        86        96       106       116       126       136       146     
         Q46AP6_METBF    27 DKPIFVVQRHDARKLHYDFRLEMDGVLKSWAVPKEPPKDAGTRRLAIETEDHPLAYADFEGEIPAGEYGAGKVEIWDRGTFELLKREEREIVVSLEGKELKGIYVLIRTKYGKGEKGWLFFKKAS 151
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains -------LigD_N-3p43A01 A:34-134                                                                              ----------------- Pfam domains
         Sec.struct. author ...eeeeeeee...eeeeeeeee..eeeeeee..........eeeeee...ee.hhhhh.eee.......eeeeeeeeeeeeeeeee..eeeeeee....eeeeeeee....-....eeeee... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------- Transcript
                 3p43 A  27 DKPIFVVQRHDARKLHYDFRLEMDGVLKSWAVPKEPPKDAGTRRLAIETEDHPLAYADFEGEIPAGEYGAGKVEIWDRGTFELLKREEREIVVSLEGKELKGIYVLIRTKYG-GEKGWLFFKKAS 151
                                    36        46        56        66        76        86        96       106       116       126       136 | |   146     
                                                                                                                                         138 |           
                                                                                                                                           140
   Legend:   → Mismatch (orange background)
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  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 3P43)

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 3P43)

(-) Pfam Domains  (1, 1)

Asymmetric/Biological Unit
(-)
Clan: no clan defined [family: LigD_N] (2)

(-) Gene Ontology  (1, 1)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (Q46AP6_METBF | Q46AP6)
molecular function
    GO:0046872    metal ion binding    Interacting selectively and non-covalently with any metal ion.

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  3p43
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