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Entry version 80 (02 Dec 2020)
Sequence version 2 (08 Mar 2011)
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Protein

Coiled-coil domain-containing protein 40

Gene

ccdc40

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
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 transcript 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

Required for assembly of dynein regulatory complex (DRC) and inner dynein arm (IDA) complexes, which are responsible for ciliary beat regulation, thereby playing a central role in motility in cilia and flagella. Probably acts together with ccdc39 to form a molecular ruler that determines the 96 nanometer (nm) repeat length and arrangements of components in cilia and flagella.By similarity

<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 - Biological processi

<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:
Coiled-coil domain-containing protein 40Curated
Alternative name(s):
Protein locke1 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:ccdc40
Synonyms:lok1 Publication
<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>OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
<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 identifieri7955 [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 lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesDanionidaeDanioninaeDanio
<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
  • UP000000437 <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 6

Organism-specific databases

Zebrafish Information Network genome database

More...
ZFINi
ZDB-GENE-060503-723, ccdc40

<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

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte & Seán O’Donoghue; Source: COMPARTMENTS

<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

Cell projection, Cilium, Cytoplasm

<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

Defects are the cause of the lok phenotype, a phenotype related to primary ciliary dyskinesia (PCD). PCD is characterized by curly-tail down phenotype, laterality defects and pronephric cysts, but without defects in sensory cilia and without the presence of hydrocephalus.1 Publication

Keywords - Diseasei

Ciliopathy, Primary ciliary dyskinesia

<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_00004058211 – 941Coiled-coil domain-containing protein 40Add BLAST941

Proteomic databases

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

More...
PaxDbi
Q56A40

<p>This section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms.<p><a href='/help/expression_section' target='_top'>More...</a></p>Expressioni

<p>This subsection of the 'Expression' section provides information on the expression of a gene at the mRNA or protein level in cells or in tissues of multicellular organisms. By default, the information is derived from experiments at the mRNA level, unless specified 'at protein level'.<br></br>Examples: <a href="http://www.uniprot.org/uniprot/P92958#expression">P92958</a>, <a href="http://www.uniprot.org/uniprot/Q8TDN4#expression">Q8TDN4</a>, <a href="http://www.uniprot.org/uniprot/O14734#expression">O14734</a><p><a href='/help/tissue_specificity' target='_top'>More...</a></p>Tissue specificityi

Expressed in tissues that contain motile cilia, including Kupffer's vesicle, the floorplate, the pronephric tubules and the otic vesicle.1 Publication

Gene expression databases

Bgee dataBase for Gene Expression Evolution

More...
Bgeei
ENSDARG00000100584, Expressed in testis and 36 other tissues

<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

STRING: functional protein association networks

More...
STRINGi
7955.ENSDARP00000121686

<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
Q56A40

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

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 coili130 – 154Sequence analysisAdd BLAST25
Coiled coili210 – 430Sequence analysisAdd BLAST221
Coiled coili548 – 572Sequence analysisAdd BLAST25
Coiled coili609 – 765Sequence analysisAdd BLAST157
Coiled coili814 – 856Sequence analysisAdd BLAST43
Coiled coili895 – 915Sequence analysisAdd BLAST21

<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 CCDC40 family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

evolutionary genealogy of genes: Non-supervised Orthologous Groups

More...
eggNOGi
ENOG502QQ91, Eukaryota

Ensembl GeneTree

More...
GeneTreei
ENSGT00440000035688

The HOGENOM Database of Homologous Genes from Fully Sequenced Organisms

More...
HOGENOMi
CLU_008826_1_0_1

InParanoid: Eukaryotic Ortholog Groups

More...
InParanoidi
Q56A40

Identification of Orthologs from Complete Genome Data

More...
OMAi
QLLQQWK

Database of Orthologous Groups

More...
OrthoDBi
323186at2759

Database for complete collections of gene phylogenies

More...
PhylomeDBi
Q56A40

TreeFam database of animal gene trees

More...
TreeFami
TF325559

Family and domain databases

Integrated resource of protein families, domains and functional sites

More...
InterProi
View protein in InterPro
IPR037386, CCDC40

The PANTHER Classification System

More...
PANTHERi
PTHR16275, PTHR16275, 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>Sequence (1+)i

<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.

This entry has 1 described isoform and 1 potential isoform that is computationally mapped.Show allAlign All

Q56A40-1 [UniParc]FASTAAdd to basket
« Hide
        10         20         30         40         50
MEGRQEDQMN RQEEVEQSNN YDRSVDHART GRSSWIDNSE INSKWIPQHS
60 70 80 90 100
LQLEMNNIEG EGSVRENDEE EEEIVVLDPE HPLMKRFQTA LKNNFTNQLE
110 120 130 140 150
RLNLDLCEKV VVEKAEAQRR HDLAEEVYMV QEMLARLQAS LEVCQETNSE
160 170 180 190 200
AAAQHRQAED HLYVVKNQYQ DTASQTNVQR LQVLELQSKV DNLALKLLYM
210 220 230 240 250
QEAKSDLCSD IKAIINASNK AQKERTQTEE QKHQQDIYVE RLTNRVEKLL
260 270 280 290 300
EQISLYDLQL ISQTEQTRAA KDSLSEAQLE LDSVIVEHRQ LLQQWKSSLL
310 320 330 340 350
MMKRRDEAYT AMQEELRQAN DQMLSLDTEI ESYKKSITQE EEQNECLTLR
360 370 380 390 400
LNRGQTDCTT SRKLITHSQN LQEVLQAQLS TYTRILQETE NTLSTLHGNL
410 420 430 440 450
EMHQSALKAL RKQMEKVSAV RLDLESQIMN KLQEQLTHNN AAKYSRRMND
460 470 480 490 500
KTAVYRREKE AQLIKFENDF NTVTLEGQEL ATHLDSLLAF QAELEQKSTQ
510 520 530 540 550
RHLLLSSREE EIVKQITDIE RKQATISIYN KKIKDIVSST GHEDLGPLEI
560 570 580 590 600
HAATLSKELE EVGAKIKECQ QLWLWQQGEL VRFTQEKQAH SSSVQILQTQ
610 620 630 640 650
LTILQQGKIR RESEMEQDQS ELADLDKQIK VLMADMVKLN SLLNKNSDLN
660 670 680 690 700
HALQQSSNLM ETEFRQRLKE AEKDSAETQL KLERLNEEKE RLINSLVEAE
710 720 730 740 750
RQVMLWGKRT QLMQETCSAI DSDIGQGDIR TMRAEIHRME VRYAQLMKQQ
760 770 780 790 800
ERLLRDMESV VAKSKTIAVW SEAQARTQAH KQPTHNDYHN TIQSLRRKIL
810 820 830 840 850
QTKKQTEECD GVIAQLEERL GSMTSRLQDK QMHLNNIQNT EAFLSQDLRR
860 870 880 890 900
LQEIKERNLY RLPVLQTRAK HLHAVKEGRY TPMATGVTAL ELGTHKQEER
910 920 930 940
LKMVSLTLQR LAQEYPQHHS TLHRMNSILA EHLHGECPNS Q
Length:941
Mass (Da):109,492
Last modified:March 8, 2011 - v2
<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:i197773239C344FEC
GO

<p>In eukaryotic reference proteomes, unreviewed entries that are likely to belong to the same gene are computationally mapped, based on gene identifiers from Ensembl, EnsemblGenomes and model organism databases.<p><a href='/help/gene_centric_isoform_mapping' target='_top'>More...</a></p>Computationally mapped potential isoform sequencesi

There is 1 potential isoform mapped to this entry.BLASTAlignShow allAdd to basket
EntryEntry nameProtein names
Gene namesLengthAnnotation
A0A2R8PW94A0A2R8PW94_DANRE
Coiled-coil domain-containing prote...
ccdc40
941Annotation score:

Annotation score:1 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 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 conflicti337I → G in AAH92181 (Ref. 2) Curated1
Sequence conflicti466F → L in AAH92181 (Ref. 2) Curated1
Sequence conflicti730R → Q in AAH92181 (Ref. 2) Curated1
Sequence conflicti765K → E in AAH92181 (Ref. 2) Curated1
Sequence conflicti780H → Q in AAH92181 (Ref. 2) Curated1
Sequence conflicti854I → T in AAH92181 (Ref. 2) Curated1
Sequence conflicti882P → A in AAH92181 (Ref. 2) 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
BX005286 Genomic DNA No translation available.
CR854963 Genomic DNA No translation available.
BC092181 mRNA Translation: AAH92181.1

NCBI Reference Sequences

More...
RefSeqi
NP_001258742.1, NM_001271813.1

Genome annotation databases

Ensembl eukaryotic genome annotation project

More...
Ensembli
ENSDART00000169752; ENSDARP00000139124; ENSDARG00000100584

Database of genes from NCBI RefSeq genomes

More...
GeneIDi
568590

KEGG: Kyoto Encyclopedia of Genes and Genomes

More...
KEGGi
dre:568590

<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
BX005286 Genomic DNA No translation available.
CR854963 Genomic DNA No translation available.
BC092181 mRNA Translation: AAH92181.1
RefSeqiNP_001258742.1, NM_001271813.1

3D structure databases

SMRiQ56A40
ModBaseiSearch...

Protein-protein interaction databases

STRINGi7955.ENSDARP00000121686

Proteomic databases

PaxDbiQ56A40

Genome annotation databases

EnsembliENSDART00000169752; ENSDARP00000139124; ENSDARG00000100584
GeneIDi568590
KEGGidre:568590

Organism-specific databases

Comparative Toxicogenomics Database

More...
CTDi
55036
ZFINiZDB-GENE-060503-723, ccdc40

Phylogenomic databases

eggNOGiENOG502QQ91, Eukaryota
GeneTreeiENSGT00440000035688
HOGENOMiCLU_008826_1_0_1
InParanoidiQ56A40
OMAiQLLQQWK
OrthoDBi323186at2759
PhylomeDBiQ56A40
TreeFamiTF325559

Miscellaneous databases

Protein Ontology

More...
PROi
PR:Q56A40

Gene expression databases

BgeeiENSDARG00000100584, Expressed in testis and 36 other tissues

Family and domain databases

InterProiView protein in InterPro
IPR037386, CCDC40
PANTHERiPTHR16275, PTHR16275, 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 nameiCCD40_DANRE
<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: Q56A40
<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 8, 2011
Last sequence update: March 8, 2011
Last modified: December 2, 2020
This is version 80 of the entry and version 2 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 programChordata 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. SIMILARITY comments
    Index of protein domains and families
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