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B8J3Y7

- B8J3Y7_DESDA

UniProt

B8J3Y7 - B8J3Y7_DESDA

Protein

Riboflavin biosynthesis protein RibBA

Gene

ribBA

Organism
Desulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949)
Status
Unreviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 39 (01 Oct 2014)
      Sequence version 1 (03 Mar 2009)
      Previous versions | rss
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    Functioni

    Catalyzes the conversion of D-ribulose 5-phosphate to formate and 3,4-dihydroxy-2-butanone 4-phosphate.UniRule annotationSAAS annotation
    Catalyzes the conversion of GTP to 2,5-diamino-6-ribosylamino-4(3H)-pyrimidinone 5'-phosphate (DARP), formate and pyrophosphate.UniRule annotationSAAS annotation

    Catalytic activityi

    D-ribulose 5-phosphate = formate + L-3,4-dihydroxybutan-2-one 4-phosphate.UniRule annotation
    GTP + 3 H2O = formate + 2,5-diamino-6-hydroxy-4-(5-phospho-D-ribosylamino)pyrimidine + diphosphate.UniRule annotationSAAS annotation

    Cofactori

    Binds 1 zinc ion per subunit.UniRule annotationSAAS annotation
    Binds 2 divalent metal cations per subunit. Magnesium or manganese.UniRule annotation

    Pathwayi

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi28 – 281Magnesium or manganese 1UniRule annotation
    Metal bindingi28 – 281Magnesium or manganese 2UniRule annotation
    Binding sitei32 – 321D-ribulose 5-phosphateUniRule annotation
    Sitei126 – 1261Essential for DHBP synthase activityUniRule annotation
    Binding sitei164 – 1641D-ribulose 5-phosphateUniRule annotation
    Sitei164 – 1641Essential for DHBP synthase activityUniRule annotation
    Metal bindingi258 – 2581Zinc; catalyticUniRule annotation
    Metal bindingi269 – 2691Zinc; catalyticUniRule annotation
    Metal bindingi271 – 2711Zinc; catalyticUniRule annotation
    Binding sitei274 – 2741GTPUniRule annotation
    Binding sitei318 – 3181GTPUniRule annotation
    Active sitei330 – 3301Proton acceptor; for GTP cyclohydrolase activityUniRule annotation
    Active sitei332 – 3321Nucleophile; for GTP cyclohydrolase activityUniRule annotation
    Binding sitei353 – 3531GTPUniRule annotation
    Binding sitei358 – 3581GTPUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi253 – 2575GTPUniRule annotation
    Nucleotide bindingi296 – 2983GTPUniRule annotation

    GO - Molecular functioni

    1. 3,4-dihydroxy-2-butanone-4-phosphate synthase activity Source: UniProtKB-HAMAP
    2. GTP binding Source: UniProtKB-KW
    3. GTP cyclohydrolase II activity Source: UniProtKB-HAMAP
    4. magnesium ion binding Source: UniProtKB-HAMAP
    5. manganese ion binding Source: UniProtKB-HAMAP
    6. zinc ion binding Source: UniProtKB-HAMAP

    GO - Biological processi

    1. riboflavin biosynthetic process Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    HydrolaseUniRule annotationImported, LyaseUniRule annotation

    Keywords - Biological processi

    Riboflavin biosynthesisUniRule annotationSAAS annotation

    Keywords - Ligandi

    GTP-bindingUniRule annotationSAAS annotation, MagnesiumUniRule annotation, ManganeseUniRule annotation, Metal-bindingUniRule annotationSAAS annotation, Nucleotide-binding, ZincUniRule annotationSAAS annotation

    Enzyme and pathway databases

    BioCyciDDES525146:GIWF-2202-MONOMER.
    UniPathwayiUPA00275; UER00399.
    UPA00275; UER00400.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Riboflavin biosynthesis protein RibBAUniRule annotation
    Gene namesi
    Name:ribBAUniRule annotation
    Ordered Locus Names:Ddes_2136Imported
    OrganismiDesulfovibrio desulfuricans (strain ATCC 27774 / DSM 6949)Imported
    Taxonomic identifieri525146 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
    ProteomesiUP000002598: Chromosome

    Interactioni

    Protein-protein interaction databases

    STRINGi525146.Ddes_2136.

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni1 – 201201DHBP synthaseUniRule annotationAdd
    BLAST
    Regioni27 – 282D-ribulose 5-phosphate bindingUniRule annotation
    Regioni202 – 404203GTP cyclohydrolase IIUniRule annotationAdd
    BLAST

    Sequence similaritiesi

    In the C-terminal section; belongs to the GTP cyclohydrolase II family.UniRule annotation
    In the N-terminal section; belongs to the DHBP synthase family.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0108.
    HOGENOMiHOG000115440.
    KOiK14652.
    OrthoDBiEOG679TK8.

    Family and domain databases

    Gene3Di3.90.870.10. 1 hit.
    HAMAPiMF_00179. RibA.
    MF_00180. RibB.
    MF_01283. RibBA.
    InterProiIPR017945. DHBP_synth_RibB-like_a/b_dom.
    IPR000422. DHBP_synthase_RibB.
    IPR000926. GTP_CycHdrlaseII_RibA.
    IPR016299. Riboflavin_synth_RibBA.
    [Graphical view]
    PfamiPF00926. DHBP_synthase. 1 hit.
    PF00925. GTP_cyclohydro2. 1 hit.
    [Graphical view]
    PIRSFiPIRSF001259. RibA. 1 hit.
    SUPFAMiSSF55821. SSF55821. 1 hit.
    TIGRFAMsiTIGR00505. ribA. 1 hit.
    TIGR00506. ribB. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    B8J3Y7-1 [UniParc]FASTAAdd to Basket

    « Hide

    MPLCSIEEAV ADIKQGKMVI LVDDEGRENE GDLTMAAEFV TPEAINFMAK    50
    YGRGLICLPM SPEMIDRLDL PLMTQRNGSR FGTNFTISIE AREGVTTGIS 100
    AADRATTILA AVGDDVRPDD LVTPGHVFPL RAKAGGVLSR AGQTEGGVDL 150
    SKLAGLKPAS VICEIMRDDG TMARMPDLET FAEEHGLKIV AVKDIIRHRL 200
    NRGQVSVRNV AKAHLPTRFG DFTVYAYESE TEQGTHLALV KGDLSGPEPV 250
    LARVHSECLT GDALGSLRCD CGGQLGAALR QIEKEGRGAL LYMRQEGRGI 300
    GLANKIRAYA LQDEGYDTVE ANRKLGFPPD LRDYGTGAQM LVDLGIHKVR 350
    LLTNNPKKIV GLSGYGIEIV ERVPIEMDAC PENEHYLRTK KEKMQHMLHC 400
    SCCR 404
    Length:404
    Mass (Da):44,044
    Last modified:March 3, 2009 - v1
    Checksum:iD4526371C276D7E5
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001358 Genomic DNA. Translation: ACL50032.1.
    RefSeqiYP_002480710.1. NC_011883.1.

    Genome annotation databases

    EnsemblBacteriaiACL50032; ACL50032; Ddes_2136.
    GeneIDi7285852.
    KEGGidds:Ddes_2136.
    PATRICi21738316. VBIDesDes50650_2490.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001358 Genomic DNA. Translation: ACL50032.1 .
    RefSeqi YP_002480710.1. NC_011883.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 525146.Ddes_2136.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACL50032 ; ACL50032 ; Ddes_2136 .
    GeneIDi 7285852.
    KEGGi dds:Ddes_2136.
    PATRICi 21738316. VBIDesDes50650_2490.

    Phylogenomic databases

    eggNOGi COG0108.
    HOGENOMi HOG000115440.
    KOi K14652.
    OrthoDBi EOG679TK8.

    Enzyme and pathway databases

    UniPathwayi UPA00275 ; UER00399 .
    UPA00275 ; UER00400 .
    BioCyci DDES525146:GIWF-2202-MONOMER.

    Family and domain databases

    Gene3Di 3.90.870.10. 1 hit.
    HAMAPi MF_00179. RibA.
    MF_00180. RibB.
    MF_01283. RibBA.
    InterProi IPR017945. DHBP_synth_RibB-like_a/b_dom.
    IPR000422. DHBP_synthase_RibB.
    IPR000926. GTP_CycHdrlaseII_RibA.
    IPR016299. Riboflavin_synth_RibBA.
    [Graphical view ]
    Pfami PF00926. DHBP_synthase. 1 hit.
    PF00925. GTP_cyclohydro2. 1 hit.
    [Graphical view ]
    PIRSFi PIRSF001259. RibA. 1 hit.
    SUPFAMi SSF55821. SSF55821. 1 hit.
    TIGRFAMsi TIGR00505. ribA. 1 hit.
    TIGR00506. ribB. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Complete sequence of Desulfovibrio desulfuricans subsp. desulfuricans str. ATCC 27774."
      US DOE Joint Genome Institute
      Lucas S., Copeland A., Lapidus A., Glavina del Rio T., Tice H., Bruce D., Goodwin L., Pitluck S., Sims D., Lu M., Kiss H., Meineke L., Brettin T., Detter J.C., Han C., Larimer F., Land M., Hauser L.
      , Kyrpides N., Ovchinnikova G., Hazen T.C.
      Submitted (JAN-2009) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 27774 / DSM 6949Imported.

    Entry informationi

    Entry nameiB8J3Y7_DESDA
    AccessioniPrimary (citable) accession number: B8J3Y7
    Entry historyi
    Integrated into UniProtKB/TrEMBL: March 3, 2009
    Last sequence update: March 3, 2009
    Last modified: October 1, 2014
    This is version 39 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiUnreviewed (UniProtKB/TrEMBL)

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Multifunctional enzymeUniRule annotation, Reference proteomeImported

    External Data

    Dasty 3