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(-) Description

Title :  REDUCED THIOL PEROXIDASE (TPX) FROM YERSINIA PSEUDOTUBERCULOSIS
 
Authors :  M. Gabrielsen, C. E. Zetterstrom, D. Wang, M. Elofsson, A. J. Roe
Date :  15 Jun 11  (Deposition) - 14 Mar 12  (Release) - 14 Mar 12  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.35
Chains :  Asym. Unit :  A
Biol. Unit 1:  A  (2x)
Keywords :  Oxidoreductase, 2Cys Peroxiredoxin, Thioredoxin-Fold, Ros Protection (Keyword Search: [Gene Ontology, PubMed, Web (Google)] )
 
Reference :  M. Gabrielsen, K. S. H. Beckham, V. A. Feher, C. E. Zetterstrom, D. Wang S. Muller, M. Elofsson, R. E. Amaro, O. Byron, A. J. Roe
Structural Characterisation Of Tpx From Yersinia Pseudotuberculosis Reveals Insights Into The Binding Of Salicylidene Acylhydrazide Compounds.
Plos One V. 7 32217 2012
PubMed-ID: 22384182  |  Reference-DOI: 10.1371/JOURNAL.PONE.0032217
(for further references see the PDB file header)

(-) Compounds

Molecule 1 - THIOL PEROXIDASE
    Chains: A
    EC Number: 1.11.1.15
    Engineered: YES
    Expression System: ESCHERICHIA COLI
    Expression System Plasmid: PET-151
    Expression System Strain: BL21(DE3)
    Expression System Taxid: 469008
    Expression System Vector Type: PLASMID
    Organism Scientific: YERSINIA PSEUDOTUBERCULOSIS
    Organism Taxid: 502800
    Strain: YPIII

 Structural Features

(-) Chains, Units

  1
Asymmetric Unit : A
Biological Unit 1 (2x): A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (0, 0)

(no "Ligand,Modified Residues,Ions" information available for 3ZRE)

(-) Sites  (0, 0)

(no "Site" information available for 3ZRE)

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (2, 2)

Asymmetric Unit
No.Residues
1Asp A:160 -Ala A:161
2Ala A:161 -Ala A:162

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3ZRE)

(-) Sequences/Alignments

Asymmetric 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:165
 aligned with A0A0H3B2F9_Y | A0A0H3B2F9 from UniProtKB/TrEMBL  Length:167

    Alignment length:165
                             1                                                                                                                                                                   
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     
         A0A0H3B2F9_Y     - -MTQTVHFQGNPVSVAGKLPQIGDKAKDFTLVAKDLSDVALSSFAGKRKVLNIFPSIDTGVCAASVRKFNQLAGELENTVVLCISSDLPFAQSRFCGAEGLSNVITLSTLRGADFKQAYGVAITEGPLAGLTARAVVVLDGQDNVIYSELVNEITTEPNYDAALA 164
               SCOP domains d3zrea_ A: automated matches                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee....eeeee.............eee.....eee.hhhh..eeeeeee....hhhhhhhhhhhhhhh.....eeeeeee..hhhhhhhhhhhh.....eeee.....hhhhhh...............eeeee.....eeeeee............... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3zre A   0 TMTQTVHFQGNPVSVAGKLPQIGDKAKDFTLVAKDLSDVALSSFAGKRKVLNIFPSIDTGVCAASVRKFNQLAGELENTVVLCISSDLPFAQSRFCGAEGLSNVITLSTLRGADFKQAYGVAITEGPLAGLTARAVVVLDGQDNVIYSELVNEITTEPNYDAALA 164
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     


Chain A from PDB  Type:PROTEIN  Length:165
 aligned with Q66A71_YERPS | Q66A71 from UniProtKB/TrEMBL  Length:167

    Alignment length:165
                             1                                                                                                                                                                   
                             |       9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159     
         Q66A71_YERPS     - -MTQTVHFQGNPVSVAGKLPQIGDKAKDFTLVAKDLSDVALSSFAGKRKVLNIFPSIDTGVCAASVRKFNQLAGELENTVVLCISSDLPFAQSRFCGAEGLSNVITLSTLRGADFKQAYGVAITEGPLAGLTARAVVVLDGQDNVIYSELVNEITTEPNYDAALA 164
               SCOP domains d3zrea_ A: automated matches                                                                                                                                          SCOP domains
               CATH domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeee....eeeee.............eee.....eee.hhhh..eeeeeee....hhhhhhhhhhhhhhh.....eeeeeee..hhhhhhhhhhhh.....eeee.....hhhhhh...............eeeee.....eeeeee............... Sec.struct. author
                 SAPs(SNPs) --------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE --------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript --------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3zre A   0 TMTQTVHFQGNPVSVAGKLPQIGDKAKDFTLVAKDLSDVALSSFAGKRKVLNIFPSIDTGVCAASVRKFNQLAGELENTVVLCISSDLPFAQSRFCGAEGLSNVITLSTLRGADFKQAYGVAITEGPLAGLTARAVVVLDGQDNVIYSELVNEITTEPNYDAALA 164
                                     9        19        29        39        49        59        69        79        89        99       109       119       129       139       149       159
   Legend:   → Mismatch (orange background)
  - → Gap (green background, '-', border residues have a numbering label)
    → Modified Residue (blue background, lower-case, 'x' indicates undefined single-letter code, labelled with number + name)
  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  (1, 1)

Asymmetric Unit
(-)
Class: Alpha and beta proteins (a/b) (23833)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 3ZRE)

(-) Gene Ontology  (9, 9)

Asymmetric Unit(hide GO term definitions)
Chain A   (A0A0H3B2F9_Y | A0A0H3B2F9)

Chain A   (Q66A71_YERPS | Q66A71)
molecular function
    GO:0016209    antioxidant activity    Inhibition of the reactions brought about by dioxygen (O2) or peroxides. Usually the antioxidant is effective because it can itself be more easily oxidized than the substance protected. The term is often applied to components that can trap free radicals, thereby breaking the chain reaction that normally leads to extensive biological damage.
    GO:0016491    oxidoreductase activity    Catalysis of an oxidation-reduction (redox) reaction, a reversible chemical reaction in which the oxidation state of an atom or atoms within a molecule is altered. One substrate acts as a hydrogen or electron donor and becomes oxidized, while the other acts as hydrogen or electron acceptor and becomes reduced.
    GO:0016684    oxidoreductase activity, acting on peroxide as acceptor    Catalysis of an oxidation-reduction (redox) reaction in which the peroxide group acts as a hydrogen or electron acceptor.
    GO:0004601    peroxidase activity    Catalysis of the reaction: donor + hydrogen peroxide = oxidized donor + 2 H2O.
    GO:0008379    thioredoxin peroxidase activity    Catalysis of the reaction: thioredoxin + hydrogen peroxide = thioredoxin disulfide + H2O.
biological process
    GO:0045454    cell redox homeostasis    Any process that maintains the redox environment of a cell or compartment within a cell.
    GO:0098869    cellular oxidant detoxification    Any process carried out at the cellular level that reduces or removes the toxicity superoxide radicals or hydrogen peroxide.
    GO:0055114    oxidation-reduction process    A metabolic process that results in the removal or addition of one or more electrons to or from a substance, with or without the concomitant removal or addition of a proton or protons.
cellular component
    GO:0005623    cell    The basic structural and functional unit of all organisms. Includes the plasma membrane and any external encapsulating structures such as the cell wall and cell envelope.

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    Ala A:161 - Ala A:162   [ RasMol ]  
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  Q66A71_YERPS | Q66A71
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  1.11.1.15
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 Related Entries

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

UniProtKB/Swiss-Prot
        Q66A71_YERPS | Q66A71: 2xpd 2xpe 3zrd
UniProtKB/TrEMBL
        A0A0H3B2F9_Y | A0A0H3B2F9: 2xpd 2xpe 3zrd
        Q66A71_YERPS | Q66A71: 2yjh

(-) Related Entries Specified in the PDB File

2xpd REDUCED THIOL PEROXIDASE (TPX) FROM YERSINIA PSEUDOTUBERCULOSIS
2xpe OXIDISED THIOL PEROXIDASE (TPX) FROM YERSINIA PSEUDOTUBERCULOSIS
2yjh THIOL PEROXIDASE FROM YERSINIA PSUEDOTUBERCULOSIS, INACTIVE MUTANT C61S
3zrd OXIDISED THIOL PEROXIDASE (TPX) FROM YERSINIA PSEUDOTUBERCULOSIS