clec-78 C-type LECtin [Caenorhabditis elegans] - Gene

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, Dec 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_003282.8 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003282.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

F47C12.2 (e-PCR)
- UniSTS:311273

Homology

Orthologs from OrthoDB

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

NC_003282.8 Reference assembly

Range

3989102..4014235

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

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 ...