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Entry version 139 (07 Oct 2020)
Sequence version 1 (01 Mar 1992)
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Protein

Hydrogenase maturation factor HypD

Gene

hypD

Organism
Escherichia coli (strain K12)
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

Involved in the maturation of [NiFe] hydrogenases. Involved in the biosynthesis of the Fe(CN)2CO cofactor (PubMed:15504408, PubMed:23022438). HypD may act as a scaffold on which the Fe(CN)2CO cofactor is formed (PubMed:23597401). In complex with HypC, accepts the cyanide ligand generated by HypF and HypE, and also coordinates the carbon monoxide ligand (PubMed:15504408, PubMed:23022438). Required for the formation of all three hydrogenase isoenzymes (Probable).Curated3 Publications

<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

[4Fe-4S] cluster2 Publications

<p>This subsection of the <a href="http://www.uniprot.org/help/function%5Fsection">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: [NiFe] hydrogenase maturation

This protein is involved in the pathway [NiFe] hydrogenase maturation, which is part of Protein modification.Curated
View all proteins of this organism that are known to be involved in the pathway [NiFe] hydrogenase maturation and in Protein modification.

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 bindingi41Iron1 Publication1
Metal bindingi69Iron2 Publications1
Metal bindingi72Iron2 Publications1

<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

GO - Biological processi

<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

Ligand4Fe-4S, Iron, Iron-sulfur, Metal-binding

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

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BioCyci
EcoCyc:EG10486-MONOMER

UniPathway: a resource for the exploration and annotation of metabolic pathways

More...
UniPathwayi
UPA00335

<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:
Hydrogenase maturation factor HypDCurated
Alternative name(s):
Hydrogenase isoenzymes formation protein HypDCurated
<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:hypD1 Publication
Ordered Locus Names:b2729, JW2699
<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>OrganismiEscherichia coli (strain K12)
<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 identifieri83333 [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 lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
<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
  • UP000000318 <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
  • UP000000625 Componenti: Chromosome

<p>This section provides information on the disease(s) and phenotype(s) associated with a protein.<p><a href='/help/pathology_and_biotech_section' target='_top'>More...</a></p>Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/manual/pathology%5Fand%5Fbiotech%5Fsection">'Pathology and Biotech'</a> section describes the effect of the experimental mutation of one or more amino acid(s) on the biological properties of the protein.<p><a href='/help/mutagen' target='_top'>More...</a></p>Mutagenesisi41C → A: Does not affect interaction with HypC. Retains the 4Fe-4S cluster, but has less iron than the native complex. Can no longer coordinate CN(-1) and CO. 2 Publications1
Mutagenesisi69C → A: Can no longer coordinate CN(-1) and CO. Reduces iron content. 1 Publication1
Mutagenesisi72C → A: Can no longer coordinate CN(-1) and CO. Reduces iron content. 1 Publication1
Mutagenesisi357E → A or D: Does not affect CN(-1) and CO coordination. 1 Publication1

<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 'PTM / Processing' section describes the extent of a polypeptide chain in the mature protein following processing or proteolytic cleavage.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00002014511 – 373Hydrogenase maturation factor HypDAdd BLAST373

Proteomic databases

jPOST - Japan Proteome Standard Repository/Database

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jPOSTi
P24192

PaxDb, a database of protein abundance averages across all three domains of life

More...
PaxDbi
P24192

PRoteomics IDEntifications database

More...
PRIDEi
P24192

2D gel databases

Two-dimensional polyacrylamide gel electrophoresis database from the Geneva University Hospital

More...
SWISS-2DPAGEi
P24192

<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

Monomer (PubMed:15504408).

Interacts with HypC (PubMed:12441107, PubMed:15504408, PubMed:23022438).

Forms a complex with HypC, or HybG, and HypE (PubMed:15504408, PubMed:16412426).

4 Publications

<p>This subsection of the '<a href="http://www.uniprot.org/help/interaction%5Fsection">Interaction</a>' section provides information about binary protein-protein interactions. The data presented in this section are a quality-filtered subset of binary interactions automatically derived from the <a href="https://www.ebi.ac.uk/intact/">IntAct database</a>. It is updated at every <a href="http://www.uniprot.org/help/synchronization">UniProt release</a>.<p><a href='/help/binary_interactions' target='_top'>More...</a></p>Binary interactionsi

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGRID)

More...
BioGRIDi
4261425, 34 interactors
851521, 1 interactor

ComplexPortal: manually curated resource of macromolecular complexes

More...
ComplexPortali
CPX-5283, Hybg-HypDE Ni-hydrogenase maturation complex
CPX-5284, HypCDE Ni-hydrogenase maturation complex

Database of interacting proteins

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DIPi
DIP-9998N

Protein interaction database and analysis system

More...
IntActi
P24192, 12 interactors

STRING: functional protein association networks

More...
STRINGi
511145.b2729

<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

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SMRi
P24192

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 general information on the biological role of a domain. The term 'domain' is intended here in its wide acceptation, it may be a structural domain, a transmembrane region or a functional domain. Several domains are described in this subsection.<p><a href='/help/domain_cc' target='_top'>More...</a></p>Domaini

In addition to the iron-sulfur cluster, contains two additional oxygen-labile iron ions.1 Publication

<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 HypD family.Curated

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
COG0409, Bacteria

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_048562_1_0_6

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
P24192

KEGG Orthology (KO)

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KOi
K04654

Database for complete collections of gene phylogenies

More...
PhylomeDBi
P24192

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
3.40.50.11740, 1 hit
3.40.50.11750, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR002780, Hyd_form_HypD
IPR042244, HypD_1
IPR042243, HypD_2

The PANTHER Classification System

More...
PANTHERi
PTHR30149, PTHR30149, 1 hit

Pfam protein domain database

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Pfami
View protein in Pfam
PF01924, HypD, 1 hit

PIRSF; a whole-protein classification database

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PIRSFi
PIRSF005622, Hydrgn_mat_hypD, 1 hit

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00075, hypD, 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.

P24192-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MRFVDEYRAP EQVMQLIEHL RERASHLSYT AERPLRIMEV CGGHTHAIFK
60 70 80 90 100
FGLDQLLPEN VEFIHGPGCP VCVLPMGRID TCVEIASHPE VIFCTFGDAM
110 120 130 140 150
RVPGKQGSLL QAKARGADVR IVYSPMDALK LAQENPTRKV VFFGLGFETT
160 170 180 190 200
MPTTAITLQQ AKARDVQNFY FFCQHITLIP TLRSLLEQPD NGIDAFLAPG
210 220 230 240 250
HVSMVIGTDA YNFIASDFHR PLVVAGFEPL DLLQGVVMLV QQKIAAHSKV
260 270 280 290 300
ENQYRRVVPD AGNLLAQQAI ADVFCVNGDS EWRGLGVIES SGVHLTPDYQ
310 320 330 340 350
RFDAEAHFRP APQQVCDDPR ARCGEVLTGK CKPHQCPLFG NTCNPQTAFG
360 370
ALMVSSEGAC AAWYQYRQQE SEA
Length:373
Mass (Da):41,363
Last modified:March 1, 1992 - 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:i0E4186081FAA4C54
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
X54543 Genomic DNA Translation: CAA38415.1
U29579 Genomic DNA Translation: AAA69239.1
U00096 Genomic DNA Translation: AAC75771.1
AP009048 Genomic DNA Translation: BAE76806.1

Protein sequence database of the Protein Information Resource

More...
PIRi
S15200

NCBI Reference Sequences

More...
RefSeqi
NP_417209.1, NC_000913.3
WP_001212985.1, NZ_LN832404.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
AAC75771; AAC75771; b2729
BAE76806; BAE76806; BAE76806

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
947189

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
ecj:JW2699
eco:b2729

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|1411691.4.peg.4012

<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
X54543 Genomic DNA Translation: CAA38415.1
U29579 Genomic DNA Translation: AAA69239.1
U00096 Genomic DNA Translation: AAC75771.1
AP009048 Genomic DNA Translation: BAE76806.1
PIRiS15200
RefSeqiNP_417209.1, NC_000913.3
WP_001212985.1, NZ_LN832404.1

3D structure databases

SMRiP24192
ModBaseiSearch...

Protein-protein interaction databases

BioGRIDi4261425, 34 interactors
851521, 1 interactor
ComplexPortaliCPX-5283, Hybg-HypDE Ni-hydrogenase maturation complex
CPX-5284, HypCDE Ni-hydrogenase maturation complex
DIPiDIP-9998N
IntActiP24192, 12 interactors
STRINGi511145.b2729

2D gel databases

SWISS-2DPAGEiP24192

Proteomic databases

jPOSTiP24192
PaxDbiP24192
PRIDEiP24192

Genome annotation databases

EnsemblBacteriaiAAC75771; AAC75771; b2729
BAE76806; BAE76806; BAE76806
GeneIDi947189
KEGGiecj:JW2699
eco:b2729
PATRICifig|1411691.4.peg.4012

Organism-specific databases

EchoBASE - an integrated post-genomic database for E. coli

More...
EchoBASEi
EB0481

Phylogenomic databases

eggNOGiCOG0409, Bacteria
HOGENOMiCLU_048562_1_0_6
InParanoidiP24192
KOiK04654
PhylomeDBiP24192

Enzyme and pathway databases

UniPathwayiUPA00335
BioCyciEcoCyc:EG10486-MONOMER

Miscellaneous databases

Protein Ontology

More...
PROi
PR:P24192

Family and domain databases

Gene3Di3.40.50.11740, 1 hit
3.40.50.11750, 1 hit
InterProiView protein in InterPro
IPR002780, Hyd_form_HypD
IPR042244, HypD_1
IPR042243, HypD_2
PANTHERiPTHR30149, PTHR30149, 1 hit
PfamiView protein in Pfam
PF01924, HypD, 1 hit
PIRSFiPIRSF005622, Hydrgn_mat_hypD, 1 hit
TIGRFAMsiTIGR00075, hypD, 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 nameiHYPD_ECOLI
<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: P24192
Secondary accession number(s): Q2MAA0, Q46885
<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: March 1, 1992
Last sequence update: March 1, 1992
Last modified: October 7, 2020
This is version 139 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

Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  3. SIMILARITY comments
    Index of protein domains and families
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