Skip Header

You are using a version of Internet Explorer that may not display all features of this website. Please upgrade to a modern browser.
Contribute Send feedback
Read comments (?) or add your own

P13063 (PHSS_DESBA) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 100. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Periplasmic [NiFeSe] hydrogenase small subunit

EC=1.12.99.6
Alternative name(s):
NiFeSe hydrogenlyase small chain
OrganismDesulfomicrobium baculatum (Desulfovibrio baculatus)
Taxonomic identifier899 [NCBI]
Taxonomic lineageBacteriaProteobacteriaDeltaproteobacteriaDesulfovibrionalesDesulfomicrobiaceaeDesulfomicrobium

Protein attributes

Sequence length315 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Catalytic activity

H2 + A = AH2.

Cofactor

Binds 3 4Fe-4S clusters. Cluster 1 is referred to as proximal, cluster 2 as distal, cluster 3 as medial.

Subunit structure

Heterodimer of a large and a small subunit.

Subcellular location

Periplasm.

Post-translational modification

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

Sequence similarities

Belongs to the [NiFe]/[NiFeSe] hydrogenase small subunit family.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 3232Tat-type signal Ref.3
Chain33 – 315283Periplasmic [NiFeSe] hydrogenase small subunit
PRO_0000013420

Sites

Metal binding501Iron-sulfur 1 (4Fe-4S)
Metal binding531Iron-sulfur 1 (4Fe-4S)
Metal binding1581Iron-sulfur 1 (4Fe-4S)
Metal binding1961Iron-sulfur 1 (4Fe-4S)
Metal binding2401Iron-sulfur 2 (4Fe-4S); via pros nitrogen
Metal binding2431Iron-sulfur 2 (4Fe-4S)
Metal binding2631Iron-sulfur 2 (4Fe-4S)
Metal binding2691Iron-sulfur 2 (4Fe-4S)
Metal binding2781Iron-sulfur 3 (4Fe-4S)
Metal binding2901Iron-sulfur 3 (4Fe-4S)
Metal binding2961Iron-sulfur 3 (4Fe-4S)
Metal binding2991Iron-sulfur 3 (4Fe-4S)

Secondary structure

............................................................. 315
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P13063 [UniParc].

Last modified January 1, 1990. Version 1.
Checksum: A3C592F12B95ED83

FASTA31534,221
        10         20         30         40         50         60 
MSLSRREFVK LCSAGVAGLG ISQIYHPGIV HAMTEGAKKA PVIWVQGQGC TGCSVSLLNA 

        70         80         90        100        110        120 
VHPRIKEILL DVISLEFHPT VMASEGEMAL AHMYEIAEKF NGNFFLLVEG AIPTAKEGRY 

       130        140        150        160        170        180 
CIVGETLDAK GHHHEVTMME LIRDLAPKSL ATVAVGTCSA YGGIPAAEGN VTGSKSVRDF 

       190        200        210        220        230        240 
FADEKIEKLL VNVPGCPPHP DWMVGTLVAA WSHVLNPTEH PLPELDDDGR PLLFFGDNIH 

       250        260        270        280        290        300 
ENCPYLDKYD NSEFAETFTK PGCKAELGCK GPSTYADCAK RRWNNGINWC VENAVCIGCV 

       310 
EPDFPDGKSP FYVAE 

« Hide

References

[1]"Cloning and sequencing of the genes encoding the large and small subunits of the periplasmic (NiFeSe) hydrogenase of Desulfovibrio baculatus."
Menon N.K., Peck H.D. Jr., le Gall J., Przybyla A.E.
J. Bacteriol. 169:5401-5407(1987) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]Erratum
Menon N.K., Pect H.D. Jr., le Gall J., Przybyla A.E.
J. Bacteriol. 170:4429-4429(1988)
Cited for: SEQUENCE REVISION.
[3]"Identification of three classes of hydrogenase in the genus, Desulfovibrio."
Prickril B.C., He S.H., Li C., Menon N.K., Choi E.S., Przybyla A.E., Dervartanian D.V., Peck H.D. Jr., Fauque G., le Gall J., Teixeira M., Moura I., Moura J.J.G., Patil D., Huynh B.H.
Biochem. Biophys. Res. Commun. 149:369-377(1987) [PubMed] [Europe PMC] [Abstract]
Cited for: PROTEIN SEQUENCE OF 33-67.
Strain: DSM 1743.
[4]"The crystal structure of a reduced [NiFeSe] hydrogenase provides an image of the activated catalytic center."
Garcin E., Vernede X., Hatchikian E.C., Volbeda A., Frey M., Fontecilla-Camps J.-C.
Structure 7:557-566(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (2.15 ANGSTROMS).
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
M18271 Genomic DNA. Translation: AAA23376.1.
PIRHQDVSB. A28380.

3D structure databases

PDBe
RCSB PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1CC1X-ray2.15S33-315[»]
4KL8X-ray1.52S/T33-315[»]
4KN9X-ray1.40S/T33-315[»]
4KO1X-ray1.55S/T33-315[»]
4KO2X-ray1.60S/T33-315[»]
4KO3X-ray1.70S/T33-315[»]
4KO4X-ray2.00S/T33-315[»]
ProteinModelPortalP13063.
SMRP13063. Positions 38-315.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

DIPDIP-6126N.
MINTMINT-96877.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Family and domain databases

Gene3D3.40.50.700. 1 hit.
4.10.480.10. 1 hit.
InterProIPR027394. Cytochrome-c3_hydrogenase_C.
IPR006137. NADH_UbQ_OxRdtase-like_20kDa.
IPR001821. NiFe_hydrogenase_ssu.
IPR006311. TAT_signal.
IPR019546. TAT_signal_bac_arc.
[Graphical view]
PfamPF14720. NiFe_hyd_SSU_C. 1 hit.
PF01058. Oxidored_q6. 1 hit.
[Graphical view]
PIRSFPIRSF000310. NiFe_hyd_ssu. 1 hit.
PRINTSPR00614. NIHGNASESMLL.
TIGRFAMsTIGR00391. hydA. 1 hit.
TIGR01409. TAT_signal_seq. 1 hit.
PROSITEPS51318. TAT. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP13063.

Entry information

Entry namePHSS_DESBA
AccessionPrimary (citable) accession number: P13063
Entry history
Integrated into UniProtKB/Swiss-Prot: January 1, 1990
Last sequence update: January 1, 1990
Last modified: April 16, 2014
This is version 100 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references