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Entry version 48 (26 Feb 2020)
Sequence version 1 (08 Mar 2011)
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Protein

Sulfhydrogenase 1 subunit delta

Gene

hydD

Organism
Pyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
Status
Reviewed-Annotation score:

Annotation score:5 out of 5

<p>The annotation score provides a heuristic measure of the annotation content of a UniProtKB entry or proteome. This score <strong>cannot</strong> be used as a measure of the accuracy of the annotation as we cannot define the 'correct annotation' for any given protein.<p><a href='/help/annotation_score' target='_top'>More...</a></p>
-Experimental evidence at protein leveli <p>This indicates the type of evidence that supports the existence of the protein. Note that the 'protein existence' evidence does not give information on the accuracy or correctness of the sequence(s) displayed.<p><a href='/help/protein_existence' target='_top'>More...</a></p>

<p>This section provides any useful information about the protein, mostly biological knowledge.<p><a href='/help/function_section' target='_top'>More...</a></p>Functioni

Part of a bifunctional enzyme complex that functions as an NADPH-dependent hydrogen-evolving hydrogenase with sulfur reducing activity. May play a role in hydrogen cycling during fermentative growth. Activity not exhibited with NAD. The alpha and delta subunits form the hydrogenase component that catalyzes the reduction of protons to evolve hydrogen.6 Publications

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section describes the catalytic activity of an enzyme, i.e. a chemical reaction that the enzyme catalyzes.<p><a href='/help/catalytic_activity' target='_top'>More...</a></p>Catalytic activityi

<p>This subsection of the 'Function' section provides information relevant to cofactors. A cofactor is any non-protein substance required for a protein to be catalytically active. Some cofactors are inorganic, such as the metal atoms zinc, iron, and copper in various oxidation states. Others, such as most vitamins, are organic.<p><a href='/help/cofactor' target='_top'>More...</a></p>Cofactori

Protein has several cofactor binding sites:

<p>This subsection of the 'Function' section describes biophysical and chemical properties, such as maximal absorption, kinetic parameters, pH dependence, redox potentials and temperature dependence.<p><a href='/help/biophysicochemical_properties' target='_top'>More...</a></p>Kineticsi

Measured for the whole complex.3 Publications
  1. KM=5.3 mM for methyl viologen3 Publications
  2. KM=79 µM for ferredoxin3 Publications
  3. KM=0.08 mM for methylene blue3 Publications
  4. KM=70 µM for ferredoxin (sodium dithionate as cosubstrate)3 Publications
  5. KM=1.0 µM for ferredoxin (pyruvate and NADP as cosubstrates)3 Publications
  6. KM=40 µM for NADP (pure H2 as cosubstrate)3 Publications
  7. KM=0.2 mM for NADPH (H+ as cosubstrate)3 Publications
  8. KM=3.0 mM for NADH (H+ as cosubstrate)3 Publications
  9. KM=5.0 mM for methyl viologen (H2 as cosubstrate)4 Publications
  1. Vmax=2900 µmol/min/mg enzyme with methyl viologen as substrate3 Publications
  2. Vmax=18 µmol/min/mg enzyme with ferredoxin as substrate (pyruvate and NADP as cosubstrates)3 Publications
  3. Vmax=250 µmol/min/mg enzyme with ferredoxin as substrate3 Publications
  4. Vmax=261 µmol/min/mg enzyme with methylene blue as substrate3 Publications
  5. Vmax=67 µmol/min/mg enzyme with ferredoxin as substrate (sodium dithionate as cosubstrate)3 Publications
  6. Vmax=75 µmol/min/mg enzyme with NADP as substrate (pure H2 as cosubstrate)3 Publications
  7. Vmax=10 µmol/min/mg enzyme with NADPH as substrate (H+ as cosubstrate)3 Publications
  8. Vmax=6 µmol/min/mg enzyme with NADPH as substrate (H+ as electron acceptor)3 Publications
  9. Vmax=1.6 µmol/min/mg enzyme with NADH as substrate (H+ as cosubstrate)3 Publications
  10. Vmax=250 µmol/min/mg enzyme with methyl viologen as substrate (H2 as cosubstrate)3 Publications

pH dependencei

Optimum pH is 8 for hydrogenase activity at >95 degrees Celsius.3 Publications

Temperature dependencei

Optimum temperature is greater than 95 degrees Celsius for hydrogenase activity. Stable up to 100 degrees Celsius. Loses 50% of activity at 80 degrees Celsius after 21 hour incubation.3 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">Function</a> section indicates at which position the protein binds a given metal ion. The nature of the metal is indicated in the 'Description' field.<p><a href='/help/metal' target='_top'>More...</a></p>Metal bindingi14Iron-sulfur 1 (4Fe-4S)By similarity1
Metal bindingi17Iron-sulfur 1 (4Fe-4S)By similarity1
Metal bindingi86Iron-sulfur 1 (4Fe-4S)By similarity1
Metal bindingi136Iron-sulfur 1 (4Fe-4S)By similarity1
Metal bindingi164Iron-sulfur 2 (4Fe-4S)By similarity1
Metal bindingi167Iron-sulfur 2 (4Fe-4S)By similarity1
Metal bindingi174Iron-sulfur 2 (4Fe-4S)By similarity1
Metal bindingi183Iron-sulfur 2 (4Fe-4S)By similarity1
Metal bindingi192Iron-sulfur 3 (3Fe-4S)By similarity1
Metal bindingi196Iron-sulfur 3 (3Fe-4S)By similarity1
Metal bindingi203Iron-sulfur 3 (3Fe-4S)By similarity1
Metal bindingi206Iron-sulfur 3 (3Fe-4S)By similarity1

<p>The <a href="http://www.geneontology.org/">Gene Ontology (GO)</a> project provides a set of hierarchical controlled vocabulary split into 3 categories:<p><a href='/help/gene_ontology' target='_top'>More...</a></p>GO - Molecular functioni

<p>UniProtKB Keywords constitute a <a href="http://www.uniprot.org/keywords">controlled vocabulary</a> with a hierarchical structure. Keywords summarise the content of a UniProtKB entry and facilitate the search for proteins of interest.<p><a href='/help/keywords' target='_top'>More...</a></p>Keywordsi

Molecular functionOxidoreductase
Ligand3Fe-4S, 4Fe-4S, Iron, Iron-sulfur, Metal-binding, NADP, Nickel

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...
BioCyci
MetaCyc:MONOMER-16384
PFUR186497:G1FZR-920-MONOMER

BRENDA Comprehensive Enzyme Information System

More...
BRENDAi
1.12.98.4 5243

<p>This section provides information about the protein and gene name(s) and synonym(s) and about the organism that is the source of the protein sequence.<p><a href='/help/names_and_taxonomy_section' target='_top'>More...</a></p>Names & Taxonomyi

<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides an exhaustive list of all names of the protein, from commonly used to obsolete, to allow unambiguous identification of a protein.<p><a href='/help/protein_names' target='_top'>More...</a></p>Protein namesi
Recommended name:
Sulfhydrogenase 1 subunit delta (EC:1.12.1.31 Publication)
Alternative name(s):
Hydrogenase I small subunit1 Publication
NADP-reducing hydrogenase subunit HydD1 PublicationBy similarity
Sulfhydrogenase I subunit delta1 Publication
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section indicates the name(s) of the gene(s) that code for the protein sequence(s) described in the entry. Four distinct tokens exist: 'Name', 'Synonyms', 'Ordered locus names' and 'ORF names'.<p><a href='/help/gene_name' target='_top'>More...</a></p>Gene namesi
Name:hydD1 Publication
Ordered Locus Names:PF0893
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section provides information on the name(s) of the organism that is the source of the protein sequence.<p><a href='/help/organism-name' target='_top'>More...</a></p>OrganismiPyrococcus furiosus (strain ATCC 43587 / DSM 3638 / JCM 8422 / Vc1)
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section shows the unique identifier assigned by the NCBI to the source organism of the protein. This is known as the 'taxonomic identifier' or 'taxid'.<p><a href='/help/taxonomic_identifier' target='_top'>More...</a></p>Taxonomic identifieri186497 [NCBI]
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section contains the taxonomic hierarchical classification lineage of the source organism. It lists the nodes as they appear top-down in the taxonomic tree, with the more general grouping listed first.<p><a href='/help/taxonomic_lineage' target='_top'>More...</a></p>Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
<p>This subsection of the <a href="http://www.uniprot.org/help/names%5Fand%5Ftaxonomy%5Fsection">Names and taxonomy</a> section is present for entries that are part of a <a href="http://www.uniprot.org/proteomes">proteome</a>, i.e. of a set of proteins thought to be expressed by organisms whose genomes have been completely sequenced.<p><a href='/help/proteomes_manual' target='_top'>More...</a></p>Proteomesi
  • UP000001013 <p>A UniProt <a href="http://www.uniprot.org/manual/proteomes%5Fmanual">proteome</a> can consist of several components.<br></br>The component name refers to the genomic component encoding a set of proteins.<p><a href='/help/proteome_component' target='_top'>More...</a></p> Componenti: Chromosome

<p>This section provides information on the location and the topology of the mature protein in the cell.<p><a href='/help/subcellular_location_section' target='_top'>More...</a></p>Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm

<p>This section describes post-translational modifications (PTMs) and/or processing events.<p><a href='/help/ptm_processing_section' target='_top'>More...</a></p>PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/ptm%5Fprocessing%5Fsection">PTM / Processing</a> section indicates that the initiator methionine is cleaved from the mature protein.<p><a href='/help/init_met' target='_top'>More...</a></p>Initiator methionineiRemoved1 Publication
<p>This subsection of the 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00004207242 – 261Sulfhydrogenase 1 subunit deltaAdd BLAST260

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
E7FHU4

<p>This section provides information on the quaternary structure of a protein and on interaction(s) with other proteins or protein complexes.<p><a href='/help/interaction_section' target='_top'>More...</a></p>Interactioni

<p>This subsection of the <a href="http://www.uniprot.org/help/interaction%5Fsection">'Interaction'</a> section provides information about the protein quaternary structure and interaction(s) with other proteins or protein complexes (with the exception of physiological receptor-ligand interactions which are annotated in the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

Heterotetramer of alpha, beta, gamma and delta subunits. The nickel-containing alpha and delta subunits constitute the hydrogenase activity. The beta and gamma subunits (flavin-containing dimer) constitute the sulfur reductase activity.

2 Publications

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
186497.PF0893

<p>This section provides information on the tertiary and secondary structure of a protein.<p><a href='/help/structure_section' target='_top'>More...</a></p>Structurei

3D structure databases

SWISS-MODEL Repository - a database of annotated 3D protein structure models

More...
SMRi
E7FHU4

Database of comparative protein structure models

More...
ModBasei
Search...

<p>This section provides information on sequence similarities with other proteins and the domain(s) present in a protein.<p><a href='/help/family_and_domains_section' target='_top'>More...</a></p>Family & Domainsi

<p>This subsection of the 'Family and domains' section provides information about the sequence similarity with other proteins.<p><a href='/help/sequence_similarities' target='_top'>More...</a></p>Sequence similaritiesi

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

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
arCOG02472 Archaea
COG1941 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_053270_0_0_2

KEGG Orthology (KO)

More...
KOi
K17994

Identification of Orthologs from Complete Genome Data

More...
OMAi
GSWPEDI

Database of Orthologous Groups

More...
OrthoDBi
44934at2157

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.40.50.700, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR006137 NADH_UbQ_OxRdtase-like_20kDa
IPR037024 NiFe_Hase_small_N_sf

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01058 Oxidored_q6, 1 hit

<p>This section displays by default the canonical protein sequence and upon request all isoforms described in the entry. It also includes information pertinent to the sequence(s), including <a href="http://www.uniprot.org/help/sequence%5Flength">length</a> and <a href="http://www.uniprot.org/help/sequences">molecular weight</a>. The information is filed in different subsections. The current subsections and their content are listed below:<p><a href='/help/sequences_section' target='_top'>More...</a></p>Sequencei

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is complete or not.<p><a href='/help/sequence_status' target='_top'>More...</a></p>Sequence statusi: Complete.

<p>This subsection of the <a href="http://www.uniprot.org/help/sequences%5Fsection">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> displayed by default in the entry is in its mature form or if it represents the precursor.<p><a href='/help/sequence_processing' target='_top'>More...</a></p>Sequence processingi: The displayed sequence is further processed into a mature form.

E7FHU4-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MGKVRIGFYA LTSCYGCQLQ LAMMDELLQL IPNAEIVCWF MIDRDSIEDE
60 70 80 90 100
KVDIAFIEGS VSTEEEVELV KKIRENAKIV VAVGACAVQG GVQSWSEKPL
110 120 130 140 150
EELWKKVYGD AKVKFQPKKA EPVSKYIKVD YNIYGCPPEK KDFLYALGTF
160 170 180 190 200
LIGSWPEDID YPVCLECRLN GHPCILLEKG EPCLGPVTRA GCNARCPGFG
210 220 230 240 250
VACIGCRGAI GYDVAWFDSL AKVFKEKGMT KEEIIERMKM FNGHDERVEK
260
MVEKIFSGGE Q
Length:261
Mass (Da):29,234
Last modified:March 8, 2011 - v1
<p>The checksum is a form of redundancy check that is calculated from the sequence. It is useful for tracking sequence updates.</p> <p>It should be noted that while, in theory, two different sequences could have the same checksum value, the likelihood that this would happen is extremely low.</p> <p>However UniProtKB may contain entries with identical sequences in case of multiple genes (paralogs).</p> <p>The checksum is computed as the sequence 64-bit Cyclic Redundancy Check value (CRC64) using the generator polynomial: x<sup>64</sup> + x<sup>4</sup> + x<sup>3</sup> + x + 1. The algorithm is described in the ISO 3309 standard. </p> <p class="publication">Press W.H., Flannery B.P., Teukolsky S.A. and Vetterling W.T.<br /> <strong>Cyclic redundancy and other checksums</strong><br /> <a href="http://www.nrbook.com/b/bookcpdf.php">Numerical recipes in C 2nd ed., pp896-902, Cambridge University Press (1993)</a>)</p> Checksum:i3B8D89AE42C88854
GO

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...
EMBLi

GenBank nucleotide sequence database

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GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...
DDBJi
Links Updated
X75255 Genomic DNA Translation: CAA53036.1
AE009950 Genomic DNA Translation: AAL81017.1

Protein sequence database of the Protein Information Resource

More...
PIRi
S48835

NCBI Reference Sequences

More...
RefSeqi
WP_011012028.1, NZ_CP023154.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAL81017; AAL81017; PF0893

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
41712701

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
pfu:PF0893

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|186497.12.peg.944

<p>This section provides links to proteins that are similar to the protein sequence(s) described in this entry at different levels of sequence identity thresholds (100%, 90% and 50%) based on their membership in UniProt Reference Clusters (<a href="http://www.uniprot.org/help/uniref">UniRef</a>).<p><a href='/help/similar_proteins_section' target='_top'>More...</a></p>Similar proteinsi

<p>This section is used to point to information related to entries and found in data collections other than UniProtKB.<p><a href='/help/cross_references_section' target='_top'>More...</a></p>Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X75255 Genomic DNA Translation: CAA53036.1
AE009950 Genomic DNA Translation: AAL81017.1
PIRiS48835
RefSeqiWP_011012028.1, NZ_CP023154.1

3D structure databases

SMRiE7FHU4
ModBaseiSearch...

Protein-protein interaction databases

STRINGi186497.PF0893

Proteomic databases

PRIDEiE7FHU4

Genome annotation databases

EnsemblBacteriaiAAL81017; AAL81017; PF0893
GeneIDi41712701
KEGGipfu:PF0893
PATRICifig|186497.12.peg.944

Phylogenomic databases

eggNOGiarCOG02472 Archaea
COG1941 LUCA
HOGENOMiCLU_053270_0_0_2
KOiK17994
OMAiGSWPEDI
OrthoDBi44934at2157

Enzyme and pathway databases

BioCyciMetaCyc:MONOMER-16384
PFUR186497:G1FZR-920-MONOMER
BRENDAi1.12.98.4 5243

Family and domain databases

Gene3Di3.40.50.700, 1 hit
InterProiView protein in InterPro
IPR006137 NADH_UbQ_OxRdtase-like_20kDa
IPR037024 NiFe_Hase_small_N_sf
PfamiView protein in Pfam
PF01058 Oxidored_q6, 1 hit

ProtoNet; Automatic hierarchical classification of proteins

More...
ProtoNeti
Search...

MobiDB: a database of protein disorder and mobility annotations

More...
MobiDBi
Search...

<p>This section provides general information on the entry.<p><a href='/help/entry_information_section' target='_top'>More...</a></p>Entry informationi

<p>This subsection of the 'Entry information' section provides a mnemonic identifier for a UniProtKB entry, but it is not a stable identifier. Each reviewed entry is assigned a unique entry name upon integration into UniProtKB/Swiss-Prot.<p><a href='/help/entry_name' target='_top'>More...</a></p>Entry nameiHYD1D_PYRFU
<p>This subsection of the 'Entry information' section provides one or more accession number(s). These are stable identifiers and should be used to cite UniProtKB entries. Upon integration into UniProtKB, each entry is assigned a unique accession number, which is called 'Primary (citable) accession number'.<p><a href='/help/accession_numbers' target='_top'>More...</a></p>AccessioniPrimary (citable) accession number: E7FHU4
Secondary accession number(s): Q59669, Q7LWZ9
<p>This subsection of the 'Entry information' section shows the date of integration of the entry into UniProtKB, the date of the last sequence update and the date of the last annotation modification ('Last modified'). The version number for both the entry and the <a href="http://www.uniprot.org/help/canonical%5Fand%5Fisoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 9, 2013
Last sequence update: March 8, 2011
Last modified: February 26, 2020
This is version 48 of the entry and version 1 of the sequence. See complete history.
<p>This subsection of the 'Entry information' section indicates whether the entry has been manually annotated and reviewed by UniProtKB curators or not, in other words, if the entry belongs to the Swiss-Prot section of UniProtKB (<strong>reviewed</strong>) or to the computer-annotated TrEMBL section (<strong>unreviewed</strong>).<p><a href='/help/entry_status' target='_top'>More...</a></p>Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

<p>This section contains any relevant information that doesn't fit in any other defined sections<p><a href='/help/miscellaneous_section' target='_top'>More...</a></p>Miscellaneousi

Keywords - Technical termi

Direct protein sequencing, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
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