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P07603

- PHFS_DESVH

UniProt

P07603 - PHFS_DESVH

Protein

Periplasmic [Fe] hydrogenase small subunit

Gene

hydB

Organism
Desulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / NCIMB 8303)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 113 (01 Oct 2014)
      Sequence version 1 (01 Apr 1988)
      Previous versions | rss
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    Functioni

    May be involved in hydrogen uptake for the reduction of sulfate to hydrogen sulfide in an electron transport chain. Cytochrome c3 is likely to be the physiological electron carrier for the enzyme.

    Catalytic activityi

    H2 + 2 oxidized ferredoxin = 2 reduced ferredoxin + 2 H+.

    GO - Molecular functioni

    1. electron carrier activity Source: InterPro
    2. ferredoxin hydrogenase activity Source: UniProtKB-EC
    3. iron ion binding Source: InterPro
    4. iron-sulfur cluster binding Source: UniProtKB-KW

    Keywords - Molecular functioni

    Oxidoreductase

    Keywords - Ligandi

    Iron, Iron-sulfur, Metal-binding

    Enzyme and pathway databases

    BioCyciDVUL882:GJIL-1811-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Periplasmic [Fe] hydrogenase small subunit (EC:1.12.7.2)
    Alternative name(s):
    Fe hydrogenlyase small chain
    Gene namesi
    Name:hydB
    Ordered Locus Names:DVU_1770
    OrganismiDesulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / NCIMB 8303)
    Taxonomic identifieri882 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfovibrionaceaeDesulfovibrio
    ProteomesiUP000002194: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. periplasmic space Source: UniProtKB-SubCell

    Keywords - Cellular componenti

    Periplasm

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Signal peptidei1 – 3434Tat-type signal2 PublicationsPROSITE-ProRule annotationAdd
    BLAST
    Chaini35 – 12389Periplasmic [Fe] hydrogenase small subunitPRO_0000013413Add
    BLAST

    Post-translational modificationi

    Predicted to be exported by the Tat system. The position of the signal peptide cleavage has been experimentally proven.

    Interactioni

    Subunit structurei

    Heterodimer of a large and a small subunit.

    Protein-protein interaction databases

    DIPiDIP-6187N.
    STRINGi882.DVU1770.

    Structurei

    Secondary structure

    1
    123
    Legend: HelixTurnBeta strand
    Show more details
    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Helixi39 – 5618
    Helixi62 – 643
    Helixi66 – 749
    Helixi82 – 887
    Helixi97 – 1048
    Helixi113 – 1164

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    EntryMethodResolution (Å)ChainPositionsPDBsum
    1E08NMR-D36-123[»]
    1GX7NMR-D36-123[»]
    1HFEX-ray1.60S/T1-123[»]
    ProteinModelPortaliP07603.
    SMRiP07603. Positions 36-123.
    ModBaseiSearch...
    MobiDBiSearch...

    Miscellaneous databases

    EvolutionaryTraceiP07603.

    Family & Domainsi

    Keywords - Domaini

    Signal

    Phylogenomic databases

    eggNOGiNOG282997.
    KOiK00534.
    OMAiRVSHANP.
    OrthoDBiEOG6GTZMV.

    Family and domain databases

    Gene3Di4.10.260.20. 1 hit.
    InterProiIPR008953. Fe_hydrogenase_ssu.
    IPR003149. Fe_hydrogenase_ssu-like.
    IPR006311. TAT_signal.
    IPR019546. TAT_signal_bac_arc.
    [Graphical view]
    PfamiPF02256. Fe_hyd_SSU. 1 hit.
    [Graphical view]
    SMARTiSM00902. Fe_hyd_SSU. 1 hit.
    [Graphical view]
    SUPFAMiSSF48674. SSF48674. 1 hit.
    TIGRFAMsiTIGR01409. TAT_signal_seq. 1 hit.
    PROSITEiPS51318. TAT. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    P07603-1 [UniParc]FASTAAdd to Basket

    « Hide

    MQIASITRRG FLKVACVTTG AALIGIRMTG KAVAAVKQIK DYMLDRINGV    50
    YGADAKFPVR ASQDNTQVKA LYKSYLEKPL GHKSHDLLHT HWFDKSKGVK 100
    ELTTAGKLPN PRASEFEGPY PYE 123
    Length:123
    Mass (Da):13,624
    Last modified:April 1, 1988 - v1
    Checksum:i2F4F7A4304ECD47B
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X02416 Genomic DNA. Translation: CAA26267.1.
    AE017285 Genomic DNA. Translation: AAS96247.1.
    PIRiB24551. HQDVFS.
    RefSeqiYP_010988.1. NC_002937.3.

    Genome annotation databases

    EnsemblBacteriaiAAS96247; AAS96247; DVU_1770.
    GeneIDi2795817.
    KEGGidvu:DVU1770.
    PATRICi32063306. VBIDesVul119526_1626.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X02416 Genomic DNA. Translation: CAA26267.1 .
    AE017285 Genomic DNA. Translation: AAS96247.1 .
    PIRi B24551. HQDVFS.
    RefSeqi YP_010988.1. NC_002937.3.

    3D structure databases

    Select the link destinations:
    PDBe
    RCSB PDB
    PDBj
    Links Updated
    Entry Method Resolution (Å) Chain Positions PDBsum
    1E08 NMR - D 36-123 [» ]
    1GX7 NMR - D 36-123 [» ]
    1HFE X-ray 1.60 S/T 1-123 [» ]
    ProteinModelPortali P07603.
    SMRi P07603. Positions 36-123.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    DIPi DIP-6187N.
    STRINGi 882.DVU1770.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAS96247 ; AAS96247 ; DVU_1770 .
    GeneIDi 2795817.
    KEGGi dvu:DVU1770.
    PATRICi 32063306. VBIDesVul119526_1626.

    Phylogenomic databases

    eggNOGi NOG282997.
    KOi K00534.
    OMAi RVSHANP.
    OrthoDBi EOG6GTZMV.

    Enzyme and pathway databases

    BioCyci DVUL882:GJIL-1811-MONOMER.

    Miscellaneous databases

    EvolutionaryTracei P07603.

    Family and domain databases

    Gene3Di 4.10.260.20. 1 hit.
    InterProi IPR008953. Fe_hydrogenase_ssu.
    IPR003149. Fe_hydrogenase_ssu-like.
    IPR006311. TAT_signal.
    IPR019546. TAT_signal_bac_arc.
    [Graphical view ]
    Pfami PF02256. Fe_hyd_SSU. 1 hit.
    [Graphical view ]
    SMARTi SM00902. Fe_hyd_SSU. 1 hit.
    [Graphical view ]
    SUPFAMi SSF48674. SSF48674. 1 hit.
    TIGRFAMsi TIGR01409. TAT_signal_seq. 1 hit.
    PROSITEi PS51318. TAT. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Nucleotide sequence of the gene encoding the hydrogenase from Desulfovibrio vulgaris (Hildenborough)."
      Voordouw G., Brenner S.
      Eur. J. Biochem. 148:515-520(1985) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Hildenborough / ATCC 29579 / NCIMB 8303.
    3. Cited for: PROTEIN SEQUENCE OF 35-69.
    4. "Putative signal peptide on the small subunit of the periplasmic hydrogenase from Desulfovibrio vulgaris."
      Prickril B.C., Czechowski M.H., Przybyla A.E., Peck H.D. Jr., le Gall J.
      J. Bacteriol. 167:722-725(1986) [PubMed] [Europe PMC] [Abstract]
      Cited for: SIGNAL SEQUENCE CLEAVAGE SITE.
    5. "Desulfovibrio desulfuricans iron hydrogenase: the structure shows unusual coordination to an active site Fe binuclear center."
      Nicolet Y., Piras C., Legrand P., Hatchikian E.C., Fontecilla-Camps J.-C.
      Structure 7:13-23(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: X-RAY CRYSTALLOGRAPHY (1.6 ANGSTROMS).

    Entry informationi

    Entry nameiPHFS_DESVH
    AccessioniPrimary (citable) accession number: P07603
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 1, 1988
    Last sequence update: April 1, 1988
    Last modified: October 1, 2014
    This is version 113 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. PDB cross-references
      Index of Protein Data Bank (PDB) cross-references

    External Data

    Dasty 3