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clec-78 C-type LECtin [ Caenorhabditis elegans ]

Gene ID: 185915, updated on 2-Nov-2024

Summary

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Official Symbol
clec-78
Official Full Name
C-type LECtin
Primary source
WormBase:WBGene00018547
Locus tag
CELE_F47C12.2
See related
AllianceGenome:WB:WBGene00018547
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Caenorhabditis elegans (strain: Bristol N2)
Lineage
Eukaryota; Metazoa; Ecdysozoa; Nematoda; Chromadorea; Rhabditida; Rhabditina; Rhabditomorpha; Rhabditoidea; Rhabditidae; Peloderinae; Caenorhabditis
Summary
Predicted to enable calcium ion binding activity and serine-type peptidase activity. Involved in defense response to Gram-positive bacterium. Predicted to be located in extracellular region and membrane. Is expressed in pharyngeal muscle cell. [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See clec-78 in Genome Data Viewer
Location:
chromosome: IV
Exon count:
26
Sequence:
Chromosome: IV; NC_003282.8 (3989102..4014235)

Chromosome IV - NC_003282.8Genomic Context describing neighboring genes Neighboring gene Serpentine Receptor, class H Neighboring gene Serpentine Receptor, class H Neighboring gene Uncharacterized protein Neighboring gene pseudo Neighboring gene Uncharacterized protein Neighboring gene TransThyretin-Related family domain Neighboring gene pseudo Neighboring gene SET domain-containing protein Neighboring gene CX3C2 protein;Proteolipid protein 2 Neighboring gene Helix-loop-helix protein 30 Neighboring gene ncRNA Neighboring gene ncRNA

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003282.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. Genomic clusters, putative pathogen recognition molecules, and antimicrobial genes are induced by infection of C. elegans with M. nematophilum. O'Rourke D, et al. Genome Res, 2006 Aug. PMID 16809667, Free PMC Article
  2. Mechanistic impacts of bacterial diet on dopaminergic neurodegeneration in a Caenorhabditis elegans α-synuclein model of Parkinson's disease. Gaeta AL, et al. iScience, 2023 Jun 16. PMID 37260751, Free PMC Article
  3. Novel LOTUS-domain proteins are organizational hubs that recruit C. elegans Vasa to germ granules. Cipriani PG, et al. Elife, 2021 Jul 5. PMID 34223818, Free PMC Article
  4. OrthoList: a compendium of C. elegans genes with human orthologs. Shaye DD, et al. PLoS One, 2011. PMID 21647448, Free PMC Article
  5. OrthoList 2: A New Comparative Genomic Analysis of Human and Caenorhabditis elegans Genes. Kim W, et al. Genetics, 2018 Oct. PMID 30120140, Free PMC Article

See all (6) citations in PubMed

GeneRIFs: Gene References Into Functions

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by WormBase

Function Evidence Code Pubs
enables calcium ion binding IEA
Inferred from Electronic Annotation
more info
  
enables serine-type peptidase activity IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in defense response to Gram-positive bacterium IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in extracellular region IEA
Inferred from Electronic Annotation
more info
  
located_in membrane IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
C-type LECtin
NP_500454.2
  • Product from WormBase gene class clec;
    Confirmed by transcript evidence

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NC_003282.8 Reference assembly

    Range
    3989102..4014235
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_068053.5 → NP_500454.2  C-type LECtin [Caenorhabditis elegans]

    See identical proteins and their annotated locations for NP_500454.2

    Status: REVIEWED

    UniProtKB/TrEMBL
    Q20531
    Conserved Domains (16) summary
    cd00033
    Location:1037 → 1092
    CCP; Complement control protein (CCP) modules (aka short consensus repeats SCRs or SUSHI repeats) have been identified in several proteins of the complement system
    smart00034
    Location:48 → 179
    CLECT; C-type lectin (CTL) or carbohydrate-recognition domain (CRD)
    smart00042
    Location:234 → 333
    CUB; Domain first found in C1r, C1s, uEGF, and bone morphogenetic protein
    smart00179
    Location:806 → 845
    EGF_CA; Calcium-binding EGF-like domain
    smart00231
    Location:1297 → 1429
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain
    cd00041
    Location:340 → 447
    CUB; CUB domain; extracellular domain; present in proteins mostly known to be involved in development; not found in prokaryotes, plants and yeast.
    cd00054
    Location:2244 → 2280
    EGF_CA; Calcium-binding EGF-like domain, present in a large number of membrane-bound and extracellular (mostly animal) proteins. Many of these proteins require calcium for their biological function and calcium-binding sites have been found to be located at the ...
    cd00057
    Location:1288 → 1428
    FA58C; Coagulation factor 5/8 C-terminal domain, discoidin domain; Cell surface-attached carbohydrate-binding domain, present in eukaryotes and assumed to have horizontally transferred to eubacterial genomes.
    cd00112
    Location:183 → 217
    LDLa; Low Density Lipoprotein Receptor Class A domain, a cysteine-rich repeat that plays a central role in mammalian cholesterol metabolism; the receptor protein binds LDL and transports it into cells by endocytosis; 7 successive cysteine-rich repeats of about ...
    pfam00084
    Location:1172 → 1232
    Sushi; Sushi repeat (SCR repeat)
    pfam02494
    Location:1540 → 1621
    HYR; HYR domain
    pfam07699
    Location:1965 → 2012
    GCC2_GCC3; GCC2 and GCC3
    pfam12947
    Location:3296 → 3336
    EGF_3; EGF domain
    pfam14670
    Location:974 → 1000
    FXa_inhibition; Coagulation Factor Xa inhibitory site
    cl03620
    Location:1455 → 1539
    DUF5011; Domain of unknown function (DUF5011)
    cl22861
    Location:2558 → 2713
    LamG; Laminin G domain; Laminin G-like domains are usually Ca++ mediated receptors that can have binding sites for steroids, beta1 integrins, heparin, sulfatides, fibulin-1, and alpha-dystroglycans. Proteins that contain LamG domains serve a variety of ...
Nucleotide Protein
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