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D8JQY1

- D8JQY1_HYPDA

UniProt

D8JQY1 - D8JQY1_HYPDA

Protein

Ribosomal protein S12 methylthiotransferase RimO

Gene

rimO

Organism
Hyphomicrobium denitrificans (strain ATCC 51888 / DSM 1869 / NCIB 11706 / TK 0415)
Status
Unreviewed - Annotation score: 2 out of 5- Protein inferred from homologyi
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    • History
      Entry version 28 (01 Oct 2014)
      Sequence version 1 (05 Oct 2010)
      Previous versions | rss
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    Functioni

    Catalyzes the methylthiolation of an aspartic acid residue of ribosomal protein S12.UniRule annotation

    Cofactori

    Binds 2 4Fe-4S clusters. One cluster is coordinated with 3 cysteines and an exchangeable S-adenosyl-L-methionine.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi34 – 341Iron-sulfur (4Fe-4S)UniRule annotation
    Metal bindingi70 – 701Iron-sulfur (4Fe-4S)UniRule annotation
    Metal bindingi99 – 991Iron-sulfur (4Fe-4S)UniRule annotation
    Metal bindingi166 – 1661Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation
    Metal bindingi170 – 1701Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation
    Metal bindingi173 – 1731Iron-sulfur (4Fe-4S-S-AdoMet)UniRule annotation

    GO - Molecular functioni

    1. 4 iron, 4 sulfur cluster binding Source: UniProtKB-HAMAP
    2. iron ion binding Source: UniProtKB-HAMAP
    3. transferase activity Source: UniProtKB-HAMAP

    GO - Biological processi

    1. peptidyl-L-beta-methylthioaspartic acid biosynthetic process from peptidyl-aspartic acid Source: UniProtKB-HAMAP
    2. RNA modification Source: InterPro

    Keywords - Molecular functioni

    TransferaseUniRule annotationSAAS annotation

    Keywords - Ligandi

    4Fe-4SUniRule annotationSAAS annotation, Iron, Iron-sulfur, Metal-binding, S-adenosyl-L-methionineUniRule annotationSAAS annotation

    Enzyme and pathway databases

    BioCyciHDEN582899:GIWL-311-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribosomal protein S12 methylthiotransferase RimOUniRule annotation (EC:2.-.-.-UniRule annotation)
    Short name:
    S12 MTTaseUniRule annotation
    Short name:
    S12 methylthiotransferaseUniRule annotation
    Alternative name(s):
    Ribosome maturation factor RimOUniRule annotation
    Gene namesi
    Name:rimOUniRule annotation
    Ordered Locus Names:Hden_0308Imported
    OrganismiHyphomicrobium denitrificans (strain ATCC 51888 / DSM 1869 / NCIB 11706 / TK 0415)Imported
    Taxonomic identifieri582899 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRhizobialesHyphomicrobiaceaeHyphomicrobium
    ProteomesiUP000002033: Chromosome

    Subcellular locationi

    Cytoplasm UniRule annotationSAAS annotation

    GO - Cellular componenti

    1. cytoplasm Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    CytoplasmUniRule annotationSAAS annotation

    Structurei

    3D structure databases

    ProteinModelPortaliD8JQY1.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini25 – 135111MTTase N-terminalUniRule annotationAdd
    BLAST
    Domaini392 – 45867TRAMUniRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the methylthiotransferase family. RimO subfamily.UniRule annotation
    Contains 1 MTTase N-terminal domain.UniRule annotation
    Contains 1 TRAM domain.UniRule annotation
    Contains MTTase N-terminal domain.SAAS annotation
    Contains TRAM domain.SAAS annotation

    Phylogenomic databases

    HOGENOMiHOG000224766.
    KOiK14441.
    OMAiPHDPFID.

    Family and domain databases

    Gene3Di2.40.50.140. 1 hit.
    3.80.30.20. 1 hit.
    HAMAPiMF_01865. MTTase_RimO.
    InterProiIPR006638. Elp3/MiaB/NifB.
    IPR023970. MeThioTfrase/rSAM.
    IPR005839. Methylthiotransferase.
    IPR020612. Methylthiotransferase_CS.
    IPR013848. Methylthiotransferase_N.
    IPR012340. NA-bd_OB-fold.
    IPR005840. Ribosomal_S12_MeSTrfase_RimO.
    IPR007197. rSAM.
    IPR023404. rSAM_horseshoe.
    IPR002792. TRAM_dom.
    [Graphical view]
    PANTHERiPTHR11918. PTHR11918. 1 hit.
    PfamiPF04055. Radical_SAM. 1 hit.
    PF00919. UPF0004. 1 hit.
    [Graphical view]
    SMARTiSM00729. Elp3. 1 hit.
    [Graphical view]
    TIGRFAMsiTIGR00089. TIGR00089. 1 hit.
    TIGR01125. TIGR01125. 1 hit.
    PROSITEiPS51449. MTTASE_N. 1 hit.
    PS01278. MTTASE_RADICAL. 1 hit.
    PS50926. TRAM. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    D8JQY1-1 [UniParc]FASTAAdd to Basket

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    MANPSVKVNA KARRAAHGSD TAAAPKVGFV SLGCPKALVD SERIITKLRA    50
    EGYMIASDYE GADVVVVNTC GFLDSAKKES LDAIGEAMNA NGRVIVTGCF 100
    GVEENRIRDA HPGVLAVTGP HQYEQVVEAV HDAVPPLHDP FVDLVPPEGL 150
    RLTPRHYAYL KISEGCNNRC SFCIIPALRG DLASRPSNHV MGEAERLVNA 200
    GVKELLVISQ DTSAYGLDIK YAESAWKGAP LKARFLDLSR ALGDLGVWVR 250
    MHYVYPYPHV DDVIPLMADG KILPYLDIPF QHASPAVLKA MRRPAAQEKT 300
    AERIRRWREV CPDLAIRSTF IVGFPGETEE DFAFLLDWLK EAGINRAGCF 350
    KYEPVEGAKA NAIDGAVPDE VKEERWHRFM AVQKDVSSAQ LERKLGQTID 400
    VLIDEVDEDG AIGRSKWDAP EIDGNVFLNG ERDVNAGDIV RAKVVEAGDY 450
    DLWAERVSAN G 461
    Length:461
    Mass (Da):50,511
    Last modified:October 5, 2010 - v1
    Checksum:i6808AC1371C32673
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP002083 Genomic DNA. Translation: ADJ22133.1.
    RefSeqiWP_013214352.1. NC_014313.1.
    YP_003754454.1. NC_014313.1.

    Genome annotation databases

    EnsemblBacteriaiADJ22133; ADJ22133; Hden_0308.
    GeneIDi9386185.
    KEGGihdn:Hden_0308.
    PATRICi42369115. VBIHypDen91677_0309.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP002083 Genomic DNA. Translation: ADJ22133.1 .
    RefSeqi WP_013214352.1. NC_014313.1.
    YP_003754454.1. NC_014313.1.

    3D structure databases

    ProteinModelPortali D8JQY1.
    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ADJ22133 ; ADJ22133 ; Hden_0308 .
    GeneIDi 9386185.
    KEGGi hdn:Hden_0308.
    PATRICi 42369115. VBIHypDen91677_0309.

    Phylogenomic databases

    HOGENOMi HOG000224766.
    KOi K14441.
    OMAi PHDPFID.

    Enzyme and pathway databases

    BioCyci HDEN582899:GIWL-311-MONOMER.

    Family and domain databases

    Gene3Di 2.40.50.140. 1 hit.
    3.80.30.20. 1 hit.
    HAMAPi MF_01865. MTTase_RimO.
    InterProi IPR006638. Elp3/MiaB/NifB.
    IPR023970. MeThioTfrase/rSAM.
    IPR005839. Methylthiotransferase.
    IPR020612. Methylthiotransferase_CS.
    IPR013848. Methylthiotransferase_N.
    IPR012340. NA-bd_OB-fold.
    IPR005840. Ribosomal_S12_MeSTrfase_RimO.
    IPR007197. rSAM.
    IPR023404. rSAM_horseshoe.
    IPR002792. TRAM_dom.
    [Graphical view ]
    PANTHERi PTHR11918. PTHR11918. 1 hit.
    Pfami PF04055. Radical_SAM. 1 hit.
    PF00919. UPF0004. 1 hit.
    [Graphical view ]
    SMARTi SM00729. Elp3. 1 hit.
    [Graphical view ]
    TIGRFAMsi TIGR00089. TIGR00089. 1 hit.
    TIGR01125. TIGR01125. 1 hit.
    PROSITEi PS51449. MTTASE_N. 1 hit.
    PS01278. MTTASE_RADICAL. 1 hit.
    PS50926. TRAM. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 51888 / DSM 1869 / NCIB 11706 / TK 0415Imported.

    Entry informationi

    Entry nameiD8JQY1_HYPDA
    AccessioniPrimary (citable) accession number: D8JQY1
    Entry historyi
    Integrated into UniProtKB/TrEMBL: October 5, 2010
    Last sequence update: October 5, 2010
    Last modified: October 1, 2014
    This is version 28 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Keywords - Technical termi

    Complete proteomeImported

    External Data

    Dasty 3