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D2RNY5

- D2RNY5_ACIFV

UniProt

D2RNY5 - D2RNY5_ACIFV

Protein

Riboflavin biosynthesis protein RibBA

Gene

ribBA

Organism
Acidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)
Status
Unreviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 31 (01 Oct 2014)
      Sequence version 1 (02 Mar 2010)
      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 bindingi32 – 321Magnesium or manganese 1UniRule annotation
    Metal bindingi32 – 321Magnesium or manganese 2UniRule annotation
    Binding sitei36 – 361D-ribulose 5-phosphateUniRule annotation
    Sitei129 – 1291Essential for DHBP synthase activityUniRule annotation
    Metal bindingi146 – 1461Magnesium or manganese 2UniRule annotation
    Binding sitei167 – 1671D-ribulose 5-phosphateUniRule annotation
    Sitei167 – 1671Essential for DHBP synthase activityUniRule annotation
    Metal bindingi260 – 2601Zinc; catalyticUniRule annotation
    Metal bindingi271 – 2711Zinc; catalyticUniRule annotation
    Metal bindingi273 – 2731Zinc; catalyticUniRule annotation
    Binding sitei276 – 2761GTPUniRule annotation
    Binding sitei320 – 3201GTPUniRule annotation
    Active sitei332 – 3321Proton acceptor; for GTP cyclohydrolase activityUniRule annotation
    Active sitei334 – 3341Nucleophile; for GTP cyclohydrolase activityUniRule annotation
    Binding sitei355 – 3551GTPUniRule annotation
    Binding sitei360 – 3601GTPUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Nucleotide bindingi255 – 2595GTPUniRule annotation
    Nucleotide bindingi298 – 3003GTPUniRule 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 annotation, 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

    BioCyciAFER591001:GHUL-373-MONOMER.
    UniPathwayiUPA00275; UER00399.
    UPA00275; UER00400.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Riboflavin biosynthesis protein RibBAUniRule annotation
    Gene namesi
    Name:ribBAUniRule annotation
    Ordered Locus Names:Acfer_0355Imported
    OrganismiAcidaminococcus fermentans (strain ATCC 25085 / DSM 20731 / VR4)Imported
    Taxonomic identifieri591001 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesNegativicutesSelenomonadalesAcidaminococcaceaeAcidaminococcus
    ProteomesiUP000001902: Chromosome

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni1 – 204204DHBP synthaseUniRule annotationAdd
    BLAST
    Regioni31 – 322D-ribulose 5-phosphate bindingUniRule annotation
    Regioni143 – 1475D-ribulose 5-phosphate bindingUniRule annotation
    Regioni205 – 408204GTP 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

    HOGENOMiHOG000115440.
    KOiK14652.
    OMAiGKGLICM.

    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.

    D2RNY5-1 [UniParc]FASTAAdd to Basket

    « Hide

    MDKKFQFAPI EQAIEDIRAG KMVLVTDDPD RENEGDLIMS AEYVTPDDIN    50
    FMATHAKGLI CMPCDGAILD RLQMEPMVAN NTDNHETAFT VSIDHKDTTT 100
    GISAVERAYT IKKCTDESAK PEDFRRPGHV FPLRSREGGV LRRTGHTETT 150
    TDLCRLAGLK PVGICCEIMS ADGTMARTPE LIEFARKFNL TFITVADLIA 200
    YRKKNEKMVH RIANVALPSK YGTFRAIGYE NDLDDKCHVA IIKGDVAGKK 250
    DVLVRVHSEC LTGDALGSLR CDCGDQLATS LKMIEKEGCG VVLYMQQEGR 300
    GIGLANKLRA YELQDQGLDT VDANVKLGFK PDMRDYGIGA QILADLGLTS 350
    IRLMTNNPAK RAGLSGYGIT ITETVPIIMK DNCYNHRYMV TKQVRMGHEL 400
    HEDVEDAK 408
    Length:408
    Mass (Da):45,199
    Last modified:March 2, 2010 - v1
    Checksum:iE9C03148F8FE9109
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001859 Genomic DNA. Translation: ADB46761.1.
    RefSeqiWP_012937751.1. NC_013740.1.
    YP_003398076.1. NC_013740.1.

    Genome annotation databases

    EnsemblBacteriaiADB46761; ADB46761; Acfer_0355.
    GeneIDi8736803.
    KEGGiafn:Acfer_0355.
    PATRICi31907259. VBIAciFer109666_0376.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP001859 Genomic DNA. Translation: ADB46761.1 .
    RefSeqi WP_012937751.1. NC_013740.1.
    YP_003398076.1. NC_013740.1.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ADB46761 ; ADB46761 ; Acfer_0355 .
    GeneIDi 8736803.
    KEGGi afn:Acfer_0355.
    PATRICi 31907259. VBIAciFer109666_0376.

    Phylogenomic databases

    HOGENOMi HOG000115440.
    KOi K14652.
    OMAi GKGLICM.

    Enzyme and pathway databases

    UniPathwayi UPA00275 ; UER00399 .
    UPA00275 ; UER00400 .
    BioCyci AFER591001:GHUL-373-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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 25085 / DSM 20731 / VR4Imported.

    Entry informationi

    Entry nameiD2RNY5_ACIFV
    AccessioniPrimary (citable) accession number: D2RNY5
    Entry historyi
    Integrated into UniProtKB/TrEMBL: March 2, 2010
    Last sequence update: March 2, 2010
    Last modified: October 1, 2014
    This is version 31 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