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Entry version 96 (02 Jun 2021)
Sequence version 1 (01 Jun 2002)
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Protein
Submitted name:

Archaeal-type opsin 2

Gene

cop4

Organism
Chlamydomonas reinhardtii (Chlamydomonas smithii)
Status
Unreviewed-Annotation score:

Annotation score:2 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

<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

Protein family/group databases

Transport Classification Database

More...
TCDBi
3.E.1.7.2, the ion-translocating microbial rhodopsin (mr) family

<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
Submitted name:
Archaeal-type opsin 2Imported
Submitted name:
Chlamyopsin 4 light-gated ion channelImported
Submitted name:
Retinal binding proteinImported
Submitted name:
Sensory opsin BImported
<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:cop4Imported
Synonyms:acop2Imported, COP4Imported, CSOBImported
ORF Names:CHLRE_02g085257v5Imported, CHLREDRAFT_182032Imported
<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>OrganismiChlamydomonas reinhardtii (Chlamydomonas smithii)Imported
<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 identifieri3055 [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 lineageiEukaryotaViridiplantaeChlorophytacore chlorophytesChlorophyceaeCS cladeChlamydomonadalesChlamydomonadaceaeChlamydomonas
<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
  • UP000006906 <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 2

<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%5Flocation%5Fsection">'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>Transmembranei54 – 72HelicalSequence analysisAdd BLAST19
Transmembranei175 – 193HelicalSequence analysisAdd BLAST19
Transmembranei214 – 233HelicalSequence analysisAdd BLAST20

<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>Keywords - Cellular componenti

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

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the PTM / Processing":/help/ptm_processing_section section describes the positions of cysteine residues participating in disulfide bonds.<p><a href='/help/disulfid' target='_top'>More...</a></p>Disulfide bondi34 ↔ 36Combined sources

Proteomic databases

PRoteomics IDEntifications database

More...
PRIDEi
Q8RUT8

<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

Protein-protein interaction databases

Molecular INTeraction database

More...
MINTi
Q8RUT8

STRING: functional protein association networks

More...
STRINGi
3055.EDP06700

<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
Q8RUT8

Database of comparative protein structure models

More...
ModBasei
Search...

Protein Data Bank in Europe - Knowledge Base

More...
PDBe-KBi
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

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
<p>This subsection of the 'Family and domains' section denotes the positions of regions of coiled coil within the protein.<p><a href='/help/coiled' target='_top'>More...</a></p>Coiled coili714 – 737Sequence analysisAdd BLAST24

<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 archaeal/bacterial/fungal opsin family.ARBA annotation

Keywords - Domaini

Coiled coilSequence analysis, Transmembrane, Transmembrane helixSequence analysisARBA annotation

Phylogenomic databases

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_388002_0_0_1

Database of Orthologous Groups

More...
OrthoDBi
1136848at2759

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR001425, Arc/bac/fun_rhodopsins

The PANTHER Classification System

More...
PANTHERi
PTHR28286, PTHR28286, 1 hit

Pfam protein domain database

More...
Pfami
View protein in Pfam
PF01036, Bac_rhodopsin, 1 hit

Protein Motif fingerprint database; a protein domain database

More...
PRINTSi
PR00251, BACTRLOPSIN

Simple Modular Architecture Research Tool; a protein domain database

More...
SMARTi
View protein in SMART
SM01021, Bac_rhodopsin, 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.

Q8RUT8-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MDYGGALSAV GRELLFVTNP VVVNGSVLVP EDQCYCAGWI ESRGTNGAQT
60 70 80 90 100
ASNVLQWLAA GFSILLLMFY AYQTWKSTCG WEEIYVCAIE MVKVILEFFF
110 120 130 140 150
EFKNPSMLYL ATGHRVQWLR YAEWLLTCPV ILIHLSNLTG LSNDYSRRTM
160 170 180 190 200
GLLVSDIGTI VWGATSAMAT GYVKVIFFCL GLCYGANTFF HAAKAYIEGY
210 220 230 240 250
HTVPKGRCRQ VVTGMAWLFF VSWGMFPILF ILGPEGFGVL SVYGSTVGHT
260 270 280 290 300
IIDLMSKNCW GLLGHYLRVL IHEHILIHGD IRKTTKLNIG GTEIEVETLV
310 320 330 340 350
EDEAEAGAVN KGTGKYASRE SFLVMRDKMK EKGIDVRASL DNSKEVEQEQ
360 370 380 390 400
AARAAMMMMN GNGMGMGMGM NGMNGMGGMN GMAGGAKPGL ELTPQLQPGR
410 420 430 440 450
VILAVPDISM VDFFREQFAQ LSVTYELVPA LGADNTLALV TQAQNLGGVD
460 470 480 490 500
FVLIHPEFLR DRSSTSILSR LRGAGQRVAA FGWAQLGPMR DLIESANLDG
510 520 530 540 550
WLEGPSFGQG ILPAHIVALV AKMQQMRKMQ QMQQIGMMTG GMNGMGGGMG
560 570 580 590 600
GGMNGMGGGN GMNNMGNGMG GGMGNGMGGN GMNGMGGGNG MNNMGGNGMA
610 620 630 640 650
GNGMGGGMGG NGMGGSMNGM SSGVVANVTP SAAGGMGGMM NGGMAAPQSP
660 670 680 690 700
GMNGGRLGTN PLFNAAPSPL SSQLGAEAGM GSMGGMGGMS GMGGMGGMGG
710 720 730
MGGAGAATTQ AAGGNAEAEM LQNLMNEINR LKRELGE
Length:737
Mass (Da):77,247
Last modified:June 1, 2002 - 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:i80DDEA9E69E51419
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
AF461397 Genomic DNA Translation: AAM15777.1
AF508966 mRNA Translation: AAM44040.1
AF508968 Genomic DNA Translation: AAM44042.1
AB058891 mRNA Translation: BAB68567.1
DS496114 Genomic DNA Translation: EDP06700.1
CM008963 Genomic DNA Translation: PNW86407.1

NCBI Reference Sequences

More...
RefSeqi
XP_001701725.1, XM_001701673.1

Genome annotation databases

Ensembl plant genome annotation project

More...
EnsemblPlantsi
PNW86407; PNW86407; CHLRE_02g085257v5

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
5727376

Gramene; a comparative resource for plants

More...
Gramenei
PNW86407; PNW86407; CHLRE_02g085257v5

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
cre:CHLREDRAFT_182032

<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
AF461397 Genomic DNA Translation: AAM15777.1
AF508966 mRNA Translation: AAM44040.1
AF508968 Genomic DNA Translation: AAM44042.1
AB058891 mRNA Translation: BAB68567.1
DS496114 Genomic DNA Translation: EDP06700.1
CM008963 Genomic DNA Translation: PNW86407.1
RefSeqiXP_001701725.1, XM_001701673.1

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
3UG9X-ray2.30A207-309[»]
4YZIX-ray2.50A207-303[»]
6EIDX-ray2.39A/B1-315[»]
6EIGX-ray2.70A/B1-315[»]
SMRiQ8RUT8
ModBaseiSearch...
PDBe-KBiSearch...

Protein-protein interaction databases

MINTiQ8RUT8
STRINGi3055.EDP06700

Protein family/group databases

TCDBi3.E.1.7.2, the ion-translocating microbial rhodopsin (mr) family

Proteomic databases

PRIDEiQ8RUT8

Genome annotation databases

EnsemblPlantsiPNW86407; PNW86407; CHLRE_02g085257v5
GeneIDi5727376
GrameneiPNW86407; PNW86407; CHLRE_02g085257v5
KEGGicre:CHLREDRAFT_182032

Phylogenomic databases

HOGENOMiCLU_388002_0_0_1
OrthoDBi1136848at2759

Family and domain databases

InterProiView protein in InterPro
IPR001425, Arc/bac/fun_rhodopsins
PANTHERiPTHR28286, PTHR28286, 1 hit
PfamiView protein in Pfam
PF01036, Bac_rhodopsin, 1 hit
PRINTSiPR00251, BACTRLOPSIN
SMARTiView protein in SMART
SM01021, Bac_rhodopsin, 1 hit

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 nameiQ8RUT8_CHLRE
<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: Q8RUT8
<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/TrEMBL: June 1, 2002
Last sequence update: June 1, 2002
Last modified: June 2, 2021
This is version 96 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 statusiUnreviewed (UniProtKB/TrEMBL)

<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-structureCombined sources, Reference proteomeImported
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