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Entry version 83 (18 Sep 2019)
Sequence version 1 (08 Nov 2005)
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Protein

Cbb3-type cytochrome c oxidase subunit CcoP

Gene

ccoP

Organism
Rhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)
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

C-type cytochrome. Part of the cbb3-type cytochrome c oxidase complex. CcoP subunit is required for transferring electrons from donor cytochrome c via its heme groups to CcoO subunit. From there, electrons are shuttled to the catalytic binuclear center of CcoN subunit where oxygen reduction takes place. The complex also functions as a proton pump.By similarity2 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

heme cBy similarity1 PublicationNote: Binds 2 heme C groups per subunit.By similarity1 Publication

<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">'Function'</a> section describes the metabolic pathway(s) associated with a protein.<p><a href='/help/pathway' target='_top'>More...</a></p>Pathwayi: oxidative phosphorylation

This protein is involved in the pathway oxidative phosphorylation, which is part of Energy metabolism.By similarity
View all proteins of this organism that are known to be involved in the pathway oxidative phosphorylation and in Energy metabolism.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">Function</a> section describes the interaction between a single amino acid and another chemical entity. Priority is given to the annotation of physiological ligands.<p><a href='/help/binding' target='_top'>More...</a></p>Binding sitei122Heme C 1 (covalent)By similarity1
Binding sitei125Heme C 1 (covalent)By similarity1
<p>This subsection of the <a href="http://www.uniprot.org/help/function_section">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 bindingi126Iron (heme C 1 axial ligand)By similarity1
Metal bindingi174Iron (heme C 2 axial ligand)By similarity1
Binding sitei219Heme C 2 (covalent)By similarity1
Binding sitei222Heme C 2 (covalent)By similarity1
Metal bindingi223Iron (heme C 2 axial ligand)By similarity1
Metal bindingi264Iron (heme C 1 axial ligand)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

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

Molecular functionOxidoreductase
Biological processElectron transport, Hydrogen ion transport, Ion transport, Respiratory chain, Transport
LigandHeme, Iron, Metal-binding

Enzyme and pathway databases

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

More...
UniPathwayi
UPA00705

<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:
Cbb3-type cytochrome c oxidase subunit CcoPImported
Short name:
Cbb3-Cox subunit CcoPBy similarity
Alternative name(s):
C-type cytochrome CcoPBy similarity
Short name:
Cyt c(P)By similarity
Cytochrome c oxidase subunit IIIBy similarity
<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:ccoPImported
Ordered Locus Names:RHOS4_23010
ORF Names:RSP_0693
<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>OrganismiRhodobacter sphaeroides (strain ATCC 17023 / 2.4.1 / NCIB 8253 / DSM 158)
<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 identifieri272943 [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 lineageiBacteriaProteobacteriaAlphaproteobacteriaRhodobacteralesRhodobacteraceaeRhodobacter
<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
  • UP000002703 <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 1

<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

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular_location_section">'Subcellular location'</a> section describes the subcellular compartment where each non-membrane region of a membrane-spanning protein is found.<p><a href='/help/topo_dom' target='_top'>More...</a></p>Topological domaini1 – 37Cytoplasmic1 PublicationSequence analysisAdd BLAST37
<p>This subsection of the <a href="http://www.uniprot.org/help/subcellular_location_section">'Subcellular location'</a> section describes the extent of a membrane-spanning region of the protein. It denotes the presence of both alpha-helical transmembrane regions and the membrane spanning regions of beta-barrel transmembrane proteins.<p><a href='/help/transmem' target='_top'>More...</a></p>Transmembranei38 – 58HelicalSequence analysisAdd BLAST21
Topological domaini59 – 290Periplasmic1 PublicationSequence analysisAdd BLAST232

GO - Cellular componenti

Keywords - Cellular componenti

Cell inner membrane, Cell membrane, Membrane

<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

<p>This subsection of the ‘Pathology and Biotech’ section describes the in vivo effects caused by ablation of the gene (or one or more transcripts) coding for the protein described in the entry. This includes gene knockout and knockdown, provided experiments have been performed in the context of a whole organism or a specific tissue, and not at the single-cell level.<p><a href='/help/disruption_phenotype' target='_top'>More...</a></p>Disruption phenotypei

Single ccoP mutant as well as ccoP rdxB double mutant give rise to colonies with very deep red pigmentation compared to wild-type when grown on SIS agar plates in the presence of O2. The same mutants don't have cytochrome c oxidase activity and they accumulate high levels of a yellow carotenoid spheroidenone (SO) during anoxygenic photosynthetic and diazotrophic growth. Expression of crtA in the ccoP rdxB double mutant is approximately 60% higher than that observed for wild-type. Disruption of crtA together with ccoP and rdxB mutants prevent the accumulation of SO. CcoP and rdxB mutants, either singly or in combination, are found to synthesize photosynthetic complexes compared with wild-type when grown in the presence of 30% oxygen. They show a greater than 10-fold increase in levels of transcription of genes encoding photosynthetic light-harvesting complexes compared to the levels with wild-type. CcoP single mutant shows increased levels of photopigments bacteriochlorophyll and carotenoid under aerobic conditions. It produces more light-harvesting complexes and photopigments under photosynthetic conditions than under anaerobic dark conditions. It has no cytochrome c oxidase activity under anaerobic dark conditions. Addition of dimethyl sulfoxide (DMSO) to photosynthetic cultures of the ccoP mutant leads to decreased levels of photosynthetic light-harvesting complexes.2 Publications

<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_00004122931 – 290Cbb3-type cytochrome c oxidase subunit CcoPAdd BLAST290

<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

Component of the cbb3-type cytochrome c oxidase at least composed of CcoN, CcoO, CcoQ and CcoP.

By similarity1 Publication

Protein-protein interaction databases

STRING: functional protein association networks

More...
STRINGi
272943.RSP_0693

<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
Q3J015

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

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the <a href="http://www.uniprot.org/help/family_and_domains_section">Family and Domains</a> section describes the position and type of a domain, which is defined as a specific combination of secondary structures organized into a characteristic three-dimensional structure or fold.<p><a href='/help/domain' target='_top'>More...</a></p>Domaini109 – 199Cytochrome c 1PROSITE-ProRule annotationAdd BLAST91
Domaini206 – 287Cytochrome c 2PROSITE-ProRule annotationAdd BLAST82

<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 CcoP / FixP family.Curated

Keywords - Domaini

Repeat, Transmembrane, Transmembrane helix

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
ENOG4105D6P Bacteria
COG2010 LUCA

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
HOG000277941

KEGG Orthology (KO)

More...
KOi
K00406

Identification of Orthologs from Complete Genome Data

More...
OMAi
TDNDWLY

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q3J015

Family and domain databases

Gene3D Structural and Functional Annotation of Protein Families

More...
Gene3Di
1.10.760.10, 2 hits
1.20.58.1490, 1 hit

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR032858 CcoP_N
IPR038414 CcoP_N_sf
IPR009056 Cyt_c-like_dom
IPR036909 Cyt_c-like_dom_sf
IPR008168 Cyt_C_IC
IPR004678 Cyt_c_oxidase_cbb3_su3

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF13442 Cytochrome_CBB3, 2 hits
PF14715 FixP_N, 1 hit

PIRSF; a whole-protein classification database

More...
PIRSFi
PIRSF000006 Cbb3-Cox_fixP, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00605 CYTCHROMECIC

Superfamily database of structural and functional annotation

More...
SUPFAMi
SSF46626 SSF46626, 2 hits

TIGRFAMs; a protein family database

More...
TIGRFAMsi
TIGR00782 ccoP, 1 hit

PROSITE; a protein domain and family database

More...
PROSITEi
View protein in PROSITE
PS51007 CYTC, 2 hits

<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.

Q3J015-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MSVKPTKQKP GEPPTTGHSW DGIEEFDNPM PRWWLWTFYV TIVWAIGYSI
60 70 80 90 100
LYPAWPLING ATNGLIGHST RADVQRDIEA FAEANATIRQ QLVNTDLTAI
110 120 130 140 150
AADPNLLQYA TNAGAAVFRT NCVQCHGSGA AGNVGYPNLL DDDWLWGGDI
160 170 180 190 200
ESIHTTVTHG IRNTTDDEAR YSEMPRFGAD GLLDSTQISQ VVEYVLQISG
210 220 230 240 250
QDHDAALSAE GATIFADNCA ACHGEDGTGS RDVGAPNLTD AIWLYGGDRA
260 270 280 290
TVTETVTYAR FGVMPNWNAR LTEADIRSVA VYVHGLGGGE
Length:290
Mass (Da):31,362
Last modified:November 8, 2005 - 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:i69815B0408599881
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 conflicti166D → E in AAC44983 (PubMed:9068641).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
U58092 Genomic DNA Translation: AAB02559.1
CP000143 Genomic DNA Translation: ABA79869.1
AF202779 Genomic DNA Translation: AAC44983.1

NCBI Reference Sequences

More...
RefSeqi
WP_011338422.1, NZ_CP030271.1
YP_353770.1, NC_007493.2

Genome annotation databases

Ensembl bacterial and archaeal genome annotation project

More...
EnsemblBacteriai
ABA79869; ABA79869; RSP_0693

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
3718343

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
rsp:RSP_0693

Pathosystems Resource Integration Center (PATRIC)

More...
PATRICi
fig|272943.9.peg.2645

<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
U58092 Genomic DNA Translation: AAB02559.1
CP000143 Genomic DNA Translation: ABA79869.1
AF202779 Genomic DNA Translation: AAC44983.1
RefSeqiWP_011338422.1, NZ_CP030271.1
YP_353770.1, NC_007493.2

3D structure databases

SMRiQ3J015
ModBaseiSearch...

Protein-protein interaction databases

STRINGi272943.RSP_0693

Genome annotation databases

EnsemblBacteriaiABA79869; ABA79869; RSP_0693
GeneIDi3718343
KEGGirsp:RSP_0693
PATRICifig|272943.9.peg.2645

Phylogenomic databases

eggNOGiENOG4105D6P Bacteria
COG2010 LUCA
HOGENOMiHOG000277941
KOiK00406
OMAiTDNDWLY
PhylomeDBiQ3J015

Enzyme and pathway databases

UniPathwayiUPA00705

Family and domain databases

Gene3Di1.10.760.10, 2 hits
1.20.58.1490, 1 hit
InterProiView protein in InterPro
IPR032858 CcoP_N
IPR038414 CcoP_N_sf
IPR009056 Cyt_c-like_dom
IPR036909 Cyt_c-like_dom_sf
IPR008168 Cyt_C_IC
IPR004678 Cyt_c_oxidase_cbb3_su3
PfamiView protein in Pfam
PF13442 Cytochrome_CBB3, 2 hits
PF14715 FixP_N, 1 hit
PIRSFiPIRSF000006 Cbb3-Cox_fixP, 1 hit
PRINTSiPR00605 CYTCHROMECIC
SUPFAMiSSF46626 SSF46626, 2 hits
TIGRFAMsiTIGR00782 ccoP, 1 hit
PROSITEiView protein in PROSITE
PS51007 CYTC, 2 hits

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 nameiCCOP_RHOS4
<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: Q3J015
Secondary accession number(s): P72340, Q53114
<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: September 21, 2011
Last sequence update: November 8, 2005
Last modified: September 18, 2019
This is version 83 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

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. PATHWAY comments
    Index of metabolic and biosynthesis pathways
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