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(-) Description

Title :  STRUCTURE OF THE N-TERMINAL DOMAIN OF NEISSERIA MENINGITIDIS PILB
 
Authors :  F. M. Ranaivoson, B. Kauffmann, F. Neiers, S. Boschi-Muller, G. Branla F. Favier
Date :  07 Feb 06  (Deposition) - 04 Apr 06  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  1.90
Chains :  Asym./Biol. Unit :  A
Keywords :  Pilb, Cytochrome Maturation Protein, Thioredoxin, Methionine Sulfoxide Reductase, Oxidoreductase (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  F. M. Ranaivoson, B. Kauffmann, F. Neiers, J. Wu, S. Boschi-Muller, S. Panjikar, A. Aubry, G. Branlant, F. Favier
The X-Ray Structure Of The N-Terminal Domain Of Pilb From Neisseria Meningitidis Reveals A Thioredoxin-Fold
J. Mol. Biol. V. 358 443 2006
PubMed-ID: 16530221  |  Reference-DOI: 10.1016/J.JMB.2006.02.025

(-) Compounds

Molecule 1 - PEPTIDE METHIONINE SULFOXIDE REDUCTASE MSRA/MSRB
    ChainsA
    EC Number1.8.4.6
    EngineeredYES
    Expression SystemESCHERICHIA COLI BL21
    Expression System PlasmidPET24C
    Expression System StrainBL21
    Expression System Taxid511693
    Expression System Vector TypePLASMID
    FragmentTHIOREDOXIN-LIKE DOMAIN
    GeneMSRAB, PILB
    Organism ScientificNEISSERIA MENINGITIDIS
    Organism Taxid122587
    StrainZ2491

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

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

Asymmetric/Biological Unit (2, 3)
No.NameCountTypeFull Name
1CL2Ligand/IonCHLORIDE ION
2SO41Ligand/IonSULFATE ION

(-) Sites  (3, 3)

Asymmetric Unit (3, 3)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREASN A:135 , GLN A:163BINDING SITE FOR RESIDUE CL A 214
2AC2SOFTWAREGLN A:76 , HOH A:437BINDING SITE FOR RESIDUE CL A 215
3AC3SOFTWAREGLN A:76 , LYS A:79 , TRP A:80 , HOH A:344 , HOH A:350 , HOH A:426 , HOH A:427BINDING SITE FOR RESIDUE SO4 A 315

(-) SS Bonds  (0, 0)

(no "SS Bond" information available for 2FY6)

(-) Cis Peptide Bonds  (1, 1)

Asymmetric/Biological Unit
No.Residues
1Tyr A:139 -Pro A:140

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

(no "SAP(SNP)/Variant" information available for 2FY6)

(-) PROSITE Motifs  (0, 0)

(no "PROSITE Motif" information available for 2FY6)

(-) Exons   (0, 0)

(no "Exon" information available for 2FY6)

(-) 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
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Chain A from PDB  Type:PROTEIN  Length:143
 aligned with MSRAB_NEIMA | Q9JWM8 from UniProtKB/Swiss-Prot  Length:522

    Alignment length:143
                                    43        53        63        73        83        93       103       113       123       133       143       153       163       173   
          MSRAB_NEIMA    34 VPHTLSTLKTADNRPASVYLKKDKPTLIKFWASWCPLCLSELGQTEKWAQDAKFSSANLITVASPGFLHEKKDGDFQKWYAGLNYPKLPVVTDNGGTIAQSLNISVYPSWALIGKDGDVQRIVKGSINEAQALALIRDPNADL 176
               SCOP domains d2fy6a1 A:33-175 Peptide methionine sulfoxide reductase MsrA/MsrB, N-terminal domain                                                            SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author hhhhhhh.ee....hhhhhh.....eeeeee...hhhhhhhhhhhhhhhhhhhhh..eeeeee..........hhhhhhhh........eee...hhhhhhh......eeeee.....eeeeee...hhhhhhhhhhh..... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 2fy6 A  33 VPHTLSTLKTADNRPASVYLKKDKPTLIKFWASWCPLCLSELGQTEKWAQDAKFSSANLITVASPGFLHEKKDGDFQKWYAGLNYPKLPVVTDNGGTIAQSLNISVYPSWALIGKDGDVQRIVKGSINEAQALALIRDPNADL 175
                                    42        52        62        72        82        92       102       112       122       132       142       152       162       172   

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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  (1, 1)

Asymmetric/Biological Unit

(-) CATH Domains  (0, 0)

(no "CATH Domain" information available for 2FY6)

(-) Pfam Domains  (0, 0)

(no "Pfam Domain" information available for 2FY6)

(-) Gene Ontology  (9, 9)

Asymmetric/Biological Unit(hide GO term definitions)
Chain A   (MSRAB_NEIMA | Q9JWM8)
molecular function
    GO:0003824    catalytic activity    Catalysis of a biochemical reaction at physiological temperatures. In biologically catalyzed reactions, the reactants are known as substrates, and the catalysts are naturally occurring macromolecular substances known as enzymes. Enzymes possess specific binding sites for substrates, and are usually composed wholly or largely of protein, but RNA that has catalytic activity (ribozyme) is often also regarded as enzymatic.
    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:0016671    oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor    Catalysis of an oxidation-reduction (redox) reaction in which a sulfur-containing group acts as a hydrogen or electron donor and reduces disulfide.
    GO:0033743    peptide-methionine (R)-S-oxide reductase activity    Catalysis of the reaction: peptide-L-methionine + H(2)O + thioredoxin disulfide = peptide-L-methionine (R)-S-oxide + thioredoxin. Can act on oxidized methionine in peptide linkage with specificity for the R enantiomer. Thioredoxin disulfide is the oxidized form of thioredoxin.
    GO:0008113    peptide-methionine (S)-S-oxide reductase activity    Catalysis of the reactions: peptide-L-methionine + thioredoxin disulfide + H2O = peptide-L-methionine (S)-S-oxide + thioredoxin, and L-methionine + thioredoxin disulfide + H2O = L-methionine (S)-S-oxide + thioredoxin. Can act on oxidized methionine in peptide linkage with specificity for the S enantiomer. Thioredoxin disulfide is the oxidized form of thioredoxin.
biological process
    GO:0008152    metabolic process    The chemical reactions and pathways, including anabolism and catabolism, by which living organisms transform chemical substances. Metabolic processes typically transform small molecules, but also include macromolecular processes such as DNA repair and replication, and protein synthesis and degradation.
    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.
    GO:0030091    protein repair    The process of restoring a protein to its original state after damage by such things as oxidation or spontaneous decomposition of residues.
    GO:0006979    response to oxidative stress    Any process that results in a change in state or activity of a cell or an organism (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of oxidative stress, a state often resulting from exposure to high levels of reactive oxygen species, e.g. superoxide anions, hydrogen peroxide (H2O2), and hydroxyl radicals.

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    Tyr A:139 - Pro A:140   [ RasMol ]  
 

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 Related Entries

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

UniProtKB/Swiss-Prot
        MSRAB_NEIMA | Q9JWM82jzr 2jzs 2k9f 3bqe 3bqf 3bqg 3bqh 3hcg 3hch

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