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UniProtKB - P0ABA4 (ATPD_ECOLI)

Entry version 115 (13 Nov 2019)
Sequence version 1 (21 Jul 1986)
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Protein

ATP synthase subunit delta

Gene

atpH

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score:

Annotation score:4 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

F1F0 ATP synthase produces ATP from ADP in the presence of a proton or sodium gradient. F-type ATPases consist of two structural domains, F1 containing the extramembraneous catalytic core and F0 containing the membrane proton channel, linked together by a central stalk and a peripheral stalk. During catalysis, ATP synthesis in the catalytic domain of F1 is coupled via a rotary mechanism of the central stalk subunits to proton translocation.
This protein is part of the stalk that links CF0 to CF1. It either transmits conformational changes from CF0 to CF1 or is implicated in proton conduction.

<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

Complete GO annotation on QuickGO ...

GO - Biological processi

Complete GO annotation on QuickGO ...

<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

Biological processATP synthesis, Hydrogen ion transport, Ion transport, Transport

Enzyme and pathway databases

BioCyc Collection of Pathway/Genome Databases

More...BioCyci		EcoCyc:ATPH-MONOMER
ECOL316407:JW3713-MONOMER
MetaCyc:ATPH-MONOMER

Protein family/group databases

Transport Classification Database

More...TCDBi		3.A.2.1.1 the h(+)- or na(+)-translocating f-type, v-type and a-type atpase (f-atpase) superfamily

<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_and_taxonomy_section">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:
ATP synthase subunit deltaUniRule annotation
Alternative name(s):
ATP synthase F(1) sector subunit deltaUniRule annotation
F-type ATPase subunit deltaUniRule annotation
Short name:
F-ATPase subunit deltaUniRule annotation
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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:atpHUniRule annotation
Synonyms:papE, uncH
Ordered Locus Names:b3735, JW3713
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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_and_taxonomy_section">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_and_taxonomy_section">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 lineageiBacteria › Proteobacteria › Gammaproteobacteria › Enterobacterales › Enterobacteriaceae › Escherichia ›
<p>This subsection of the <a href="http://www.uniprot.org/help/names_and_taxonomy_section">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_manual">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 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

Complete GO annotation on QuickGO ...

Keywords - Cellular componenti

Cell inner membrane, Cell membrane, CF(1), Membrane

<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.<p><a href='/help/chain' target='_top'>More...</a></p>ChainiPRO_00001934621 – 177ATP synthase subunit deltaAdd BLAST177

Proteomic databases

Encyclopedia of Proteome Dynamics

More...EPDi		P0ABA4

jPOST - Japan Proteome Standard Repository/Database

More...jPOSTi		P0ABA4

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

More...PaxDbi		P0ABA4

PRoteomics IDEntifications database

More...PRIDEi		P0ABA4

<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_section">'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_section">'Function'</a> section).<p><a href='/help/subunit_structure' target='_top'>More...</a></p>Subunit structurei

F-type ATPases have 2 components, F1 - the catalytic core - and F0 - the membrane proton channel. F1 has five subunits: alpha3, beta3, gamma1, delta1, epsilon1. F0 has three main subunits: a1, b2 and c(10-14). The alpha and beta chains form an alternating ring which encloses part of the gamma chain. F1 is attached to F0 by a central stalk formed by the gamma and epsilon chains, while a peripheral stalk is formed by the delta and b chains.

UniRule annotation1 Publication

Protein-protein interaction databases

The Biological General Repository for Interaction Datasets (BioGrid)

More...BioGridi		4262111, 51 interactors
852556, 6 interactors

ComplexPortal: manually curated resource of macromolecular complexes

More...ComplexPortali		CPX-4022 ATP synthase complex

Database of interacting proteins

More...DIPi		DIP-47921N

Protein interaction database and analysis system

More...IntActi		P0ABA4, 13 interactors

STRING: functional protein association networks

More...STRINGi		511145.b3735

<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

Secondary structure

1177
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details

3D structure databases

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

More...SMRi		P0ABA4

Database of comparative protein structure models

More...ModBasei		Search...

Protein Data Bank in Europe - Knowledge Base

More...PDBe-KBi		Search...

Miscellaneous databases

Relative evolutionary importance of amino acids within a protein sequence

More...EvolutionaryTracei		P0ABA4

<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 ATPase delta chain family.UniRule annotation

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...eggNOGi		ENOG4107S15 Bacteria
COG0712 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...HOGENOMi		HOG000075824

InParanoid: Eukaryotic Ortholog Groups

More...InParanoidi		P0ABA4

KEGG Orthology (KO)

More...KOi		K02113

Database for complete collections of gene phylogenies

More...PhylomeDBi		P0ABA4

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...Gene3Di		1.10.520.20, 1 hit

HAMAP database of protein families

More...HAMAPi		MF_01416 ATP_synth_delta_bact, 1 hit

Integrated resource of protein families, domains and functional sites

More...InterProi		View protein in InterPro
IPR026015 ATP_synth_OSCP/delta_N_sf
IPR020781 ATPase_OSCP/d_CS
IPR000711 ATPase_OSCP/dsu

The PANTHER Classification System

More...PANTHERi		PTHR11910 PTHR11910, 1 hit

Pfam protein domain database

More...Pfami		View protein in Pfam
PF00213 OSCP, 1 hit

Protein Motif fingerprint database; a protein domain database

More...PRINTSi		PR00125 ATPASEDELTA

Superfamily database of structural and functional annotation

More...SUPFAMi		SSF47928 SSF47928, 1 hit

TIGRFAMs; a protein family database

More...TIGRFAMsi		TIGR01145 ATP_synt_delta, 1 hit

PROSITE; a protein domain and family database

More...PROSITEi		View protein in PROSITE
PS00389 ATPASE_DELTA, 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_length">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_section">Sequence</a> section indicates if the <a href="http://www.uniprot.org/help/canonical_and_isoforms">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.

P0ABA4-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSEFITVARP YAKAAFDFAV EHQSVERWQD MLAFAAEVTK NEQMAELLSG 
        60         70         80         90        100
ALAPETLAES FIAVCGEQLD ENGQNLIRVM AENGRLNALP DVLEQFIHLR 
       110        120        130        140        150
AVSEATAEVD VISAAALSEQ QLAKISAAME KRLSRKVKLN CKIDKSVMAG 
       160        170 
VIIRAGDMVI DGSVRGRLER LADVLQS
Length:177
Mass (Da):19,332
Last modified:July 21, 1986 - 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:i6AFD9552A79C81A5
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the ‘Sequence’ section reports difference(s) between the canonical sequence (displayed by default in the entry) and the different sequence submissions merged in the entry. These various submissions may originate from different sequencing projects, different types of experiments, or different biological samples. Sequence conflicts are usually of unknown origin.<p><a href='/help/conflict' target='_top'>More...</a></p>Sequence conflicti82E → D in AAA20044 (PubMed:6458296).Curated1

Sequence databases

Select the link destinations:

EMBL nucleotide sequence database

More...EMBLi

GenBank nucleotide sequence database

More...GenBanki

DNA Data Bank of Japan; a nucleotide sequence database

More...DDBJi
Links Updated
J01594 Genomic DNA Translation: AAA24734.1
M12212 Unassigned DNA Translation: AAA20044.1
X01631 Genomic DNA Translation: CAA25779.1
V00266 Genomic DNA Translation: CAA23524.1
V00264 Genomic DNA Translation: CAA23517.1
M25464 Genomic DNA Translation: AAA83872.1
L10328 Genomic DNA Translation: AAA62087.1
U00096 Genomic DNA Translation: AAC76758.1
AP009048 Genomic DNA Translation: BAE77553.1

Protein sequence database of the Protein Information Resource

More...PIRi		A93732 PWECD

NCBI Reference Sequences

More...RefSeqi		NP_418191.1, NC_000913.3
WP_001288587.1, NZ_STEB01000015.1

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...EnsemblBacteriai		AAC76758; AAC76758; b3735
BAE77553; BAE77553; BAE77553

Database of genes from NCBI RefSeq genomes

More...GeneIDi		948254

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...KEGGi		ecj:JW3713
eco:b3735

Pathosystems Resource Integration Center (PATRIC)

More...PATRICi		fig|1411691.4.peg.2965

<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
J01594 Genomic DNA Translation: AAA24734.1
M12212 Unassigned DNA Translation: AAA20044.1
X01631 Genomic DNA Translation: CAA25779.1
V00266 Genomic DNA Translation: CAA23524.1
V00264 Genomic DNA Translation: CAA23517.1
M25464 Genomic DNA Translation: AAA83872.1
L10328 Genomic DNA Translation: AAA62087.1
U00096 Genomic DNA Translation: AAC76758.1
AP009048 Genomic DNA Translation: BAE77553.1
PIRiA93732 PWECD
RefSeqiNP_418191.1, NC_000913.3
WP_001288587.1, NZ_STEB01000015.1

3D structure databases

Select the link destinations:

Protein Data Bank Europe

More...PDBei

Protein Data Bank RCSB

More...RCSB PDBi

Protein Data Bank Japan

More...PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1ABVNMR-A2-135[»]
2A7UNMR-B2-135[»]
5T4Oelectron microscopy6.90L1-177[»]
5T4Pelectron microscopy7.77L1-177[»]
5T4Qelectron microscopy8.53L1-177[»]
SMRiP0ABA4
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

BioGridi4262111, 51 interactors
852556, 6 interactors
ComplexPortaliCPX-4022 ATP synthase complex
DIPiDIP-47921N
IntActiP0ABA4, 13 interactors
STRINGi511145.b3735

Protein family/group databases

TCDBi3.A.2.1.1 the h(+)- or na(+)-translocating f-type, v-type and a-type atpase (f-atpase) superfamily

Proteomic databases

EPDiP0ABA4
jPOSTiP0ABA4
PaxDbiP0ABA4
PRIDEiP0ABA4

Genome annotation databases

EnsemblBacteriaiAAC76758; AAC76758; b3735
BAE77553; BAE77553; BAE77553
GeneIDi948254
KEGGiecj:JW3713
eco:b3735
PATRICifig|1411691.4.peg.2965

Organism-specific databases

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

More...EchoBASEi		EB0103

Phylogenomic databases

eggNOGiENOG4107S15 Bacteria
COG0712 LUCA
HOGENOMiHOG000075824
InParanoidiP0ABA4
KOiK02113
PhylomeDBiP0ABA4

Enzyme and pathway databases

BioCyciEcoCyc:ATPH-MONOMER
ECOL316407:JW3713-MONOMER
MetaCyc:ATPH-MONOMER

Miscellaneous databases

EvolutionaryTraceiP0ABA4

Protein Ontology

More...PROi		PR:P0ABA4

Family and domain databases

Gene3Di1.10.520.20, 1 hit
HAMAPiMF_01416 ATP_synth_delta_bact, 1 hit
InterProiView protein in InterPro
IPR026015 ATP_synth_OSCP/delta_N_sf
IPR020781 ATPase_OSCP/d_CS
IPR000711 ATPase_OSCP/dsu
PANTHERiPTHR11910 PTHR11910, 1 hit
PfamiView protein in Pfam
PF00213 OSCP, 1 hit
PRINTSiPR00125 ATPASEDELTA
SUPFAMiSSF47928 SSF47928, 1 hit
TIGRFAMsiTIGR01145 ATP_synt_delta, 1 hit
PROSITEiView protein in PROSITE
PS00389 ATPASE_DELTA, 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 nameiATPD_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: P0ABA4
Secondary accession number(s): P00831, Q2M853
<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_and_isoforms">canonical sequence</a> are also displayed.<p><a href='/help/entry_history' target='_top'>More...</a></p>Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 21, 1986
Last sequence update: July 21, 1986
Last modified: November 13, 2019
This is version 115 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene
  3. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
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