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(-) Description

Title :  STRUCTURE OF THE CENTRAL DOMAIN (MSRA) OF NEISSERIA MENINGITIDIS PILB (COMPLEX WITH A SUBSTRATE)
 
Authors :  F. M. Ranaivoson, B. Kauffmann, F. Favier
Date :  20 Dec 07  (Deposition) - 19 Feb 08  (Release) - 13 Jul 11  (Revision)
Method :  X-RAY DIFFRACTION
Resolution :  2.24
Chains :  Asym./Biol. Unit :  A
Keywords :  Pilb, Methionine Sulfoxide Reductase A, Complex With A Substrate, Electron Transport, Multifunctional Enzyme, Oxidoreductase, Redox- Active Center, Transport (Keyword Search: [Gene Ontology, PubMed, Web (Google))
 
Reference :  F. M. Ranaivoson, M. Antoine, B. Kauffmann, S. Boschi-Muller, A. Aubry, G. Branlant, F. Favier
A Structural Analysis Of The Catalytic Mechanism Of Methionine Sulfoxide Reductase A From Neisseria Meningitidi
J. Mol. Biol. V. 377 268 2008
PubMed-ID: 18255097  |  Reference-DOI: 10.1016/J.JMB.2008.01.021

(-) Compounds

Molecule 1 - PEPTIDE METHIONINE SULFOXIDE REDUCTASE MSRA/MSRB
    ChainsA
    EC Number1.8.4.11
    EngineeredYES
    Expression SystemESCHERICHIA COLI
    Expression System PlasmidPSKPILBMSRA
    Expression System StrainBE002
    Expression System Taxid562
    Expression System Vector TypePLASMID
    FragmentMSRA DOMAIN, PEPTIDE METHIONINE SULFOXIDE REDUCTASE A, UNP RESIDUES 196-389
    GenePILB
    MutationYES
    Organism ScientificNEISSERIA MENINGITIDIS
    Organism Taxid122587
    StrainZ2491
    SynonymPILB

 Structural Features

(-) Chains, Units

  1
Asymmetric/Biological Unit A

Summary Information (see also Sequences/Alignments below)

(-) Ligands, Modified Residues, Ions  (1, 1)

Asymmetric/Biological Unit (1, 1)
No.NameCountTypeFull Name
1SSM1Ligand/Ion(2S)-2-(ACETYLAMINO)-N-METHYL-4-[(S)-METHYLSULFINYL]BUTANAMIDE

(-) Sites  (1, 1)

Asymmetric Unit (1, 1)
No.NameEvidenceResiduesDescription
1AC1SOFTWAREHOH A:76 , SER A:207 , TRP A:209 , TYR A:238 , GLU A:250 , ASP A:285 , TYR A:290BINDING SITE FOR RESIDUE SSM A 400

(-) SS Bonds  (0, 0)

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

(-) Cis Peptide Bonds  (0, 0)

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

 Sequence-Structure Mapping

(-) SAPs(SNPs)/Variants  (0, 0)

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

(-) PROSITE Motifs  (0, 0)

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

(-) Exons   (0, 0)

(no "Exon" information available for 3BQF)

(-) 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:167
 aligned with MSRAB_NEIMA | Q9JWM8 from UniProtKB/Swiss-Prot  Length:522

    Alignment length:167
                                   205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       
          MSRAB_NEIMA   196 MNTRTIYLAGGCFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDVSYRHTGHAETVKVTYDADKLSLDDILQYFFRVVDPTSLNKQGNDTGTQYRSGVYYTDPAEKAVIAAALKREQQKYQLPLVVENEPLKNFYDAEEYHQDYLIKNPNGYCHIDIRKADEPLPG 362
               SCOP domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SCOP domains
               CATH domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- CATH domains
               Pfam domains ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Pfam domains
         Sec.struct. author ..eeeeeeee.hhhhhhhhhhh...eeeeeeeee.......hhhhhhhh....eeeeeeeee....hhhhhhhhhhhhh......ee..ee.hhh.eeeee.hhhhhhhhhhhhhhhhh........eeee...eee.hhhhhhhhhhh.......hhhhhhh.... Sec.struct. author
                 SAPs(SNPs) ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- SAPs(SNPs)
                    PROSITE ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- PROSITE
                 Transcript ----------------------------------------------------------------------------------------------------------------------------------------------------------------------- Transcript
                 3bqf A 196 MNTRTIYLAGGSFWGLEAYFQRIDGVVDAVSGYANGNTKNPSYEDVSYRHTGHAETVKVTYDADKLSLDDILQYFFRVVDPTSLNKQGNDTGTQYRSGVYYTDPAEKAVIAAALKREQQKYQLPLVVENEPLKNFYDAEEYHQDYLIKNPNGYCHIDIRKADEPLPG 362
                                   205       215       225       235       245       255       265       275       285       295       305       315       325       335       345       355       

   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  (0, 0)

(no "SCOP Domain" information available for 3BQF)

(-) CATH Domains  (0, 0)

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

(-) Pfam Domains  (0, 0)

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

(-) 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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 Related Entries

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

UniProtKB/Swiss-Prot
        MSRAB_NEIMA | Q9JWM82fy6 2jzr 2jzs 2k9f 3bqe 3bqg 3bqh 3hcg 3hch

(-) Related Entries Specified in the PDB File

3bqe THE SAME PROTEIN, REDUCED FORM
3bqg THE SAME PROTEIN, SULFENIC ACID FORM
3bqh THE SAME PROTEIN, OXIDIZED FORM