cla-1 Protein clarinet [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: cla-1
Official Full Name: Protein clarinet
Primary source: WormBase:WBGene00018468
Locus tag: CELE_F45E4.3
See related: AllianceGenome:WB:WBGene00018468
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 SNARE binding activity; calcium ion sensor activity; and calcium-dependent phospholipid binding activity. Involved in maintenance of presynaptic active zone structure; spontaneous synaptic transmission; and synaptic vesicle cycle. Located in presynaptic active zone. Is expressed in nervous system. Human ortholog(s) of this gene implicated in pontocerebellar hypoplasia type 3. Orthologous to human BSN (bassoon presynaptic cytomatrix protein) and PCLO (piccolo presynaptic cytomatrix protein). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See cla-1 in Genome Data Viewer

Location:: chromosome: IV

Exon count:: 41

Sequence:: Chromosome: IV; NC_003282.8 (7588931..7628238)

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?

C. elegans Clarinet/CLA-1 recruits RIMB-1/RIM-binding protein and UNC-13 to orchestrate presynaptic neurotransmitter release.
Title: C. elegans Clarinet/CLA-1 recruits RIMB-1/RIM-binding protein and UNC-13 to orchestrate presynaptic neurotransmitter release.
In forward genetic screens, the authors isolated a novel Caenorhabditis elegans active zone gene, clarinet (cla-1). cla-1 mutants exhibit defects in synaptic vesicle clustering, active zone structure and synapse number.
Title: Clarinet (CLA-1), a novel active zone protein required for synaptic vesicle clustering and release.

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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

F45E4.3 (e-PCR)
- UniSTS:306319

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables SNARE binding	IBA Inferred from Biological aspect of Ancestor more info
enables calcium ion sensor activity	IBA Inferred from Biological aspect of Ancestor more info
enables calcium-dependent phospholipid binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables small GTPase binding	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in calcium-dependent activation of synaptic vesicle fusion	IBA Inferred from Biological aspect of Ancestor more info
involved_in exocytosis	IEA Inferred from Electronic Annotation more info
involved_in maintenance of presynaptic active zone structure	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in regulation of calcium ion-dependent exocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of synaptic vesicle exocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in spontaneous synaptic transmission	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in synaptic vesicle clustering	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in synaptic vesicle exocytosis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in vesicle-mediated transport	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
is_active_in axon	IBA Inferred from Biological aspect of Ancestor more info
located_in axon	IEA Inferred from Electronic Annotation more info
located_in cell projection	IEA Inferred from Electronic Annotation more info
is_active_in dense core granule	IBA Inferred from Biological aspect of Ancestor more info
is_active_in exocytic vesicle	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in presynaptic active zone	IDA Inferred from Direct Assay more info	PubMed
located_in synapse	IEA Inferred from Electronic Annotation more info
is_active_in synaptic vesicle membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: Protein clarinet

NP_001294143.1

Partially confirmed by transcript evidence

NP_001294144.1

Partially confirmed by transcript evidence

NP_001294148.2

Partially confirmed by transcript evidence

NP_001294149.2

Partially confirmed by transcript evidence

NP_001367468.1

Confirmed by transcript evidence

NP_001379640.1

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

7588931..7628238

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001307219.4 → NP_001294148.2 LOW QUALITY PROTEIN: Protein clarinet [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/Swiss-Prot

H2KYL0, Q9BI65, W6RT96, W6RTA4, W6SB84, W6SB91

Conserved Domains (3) summary

cd04031
Location:8714 → 8838

C2A_RIM1alpha; C2 domain first repeat contained in Rab3-interacting molecule (RIM) proteins

cd00992
Location:8568 → 8658

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

cl23849
Location:728 → 927

TrbI; Bacterial conjugation TrbI-like protein
NM_001307220.4 → NP_001294149.2 LOW QUALITY PROTEIN: Protein clarinet [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

W6SB91
NM_001307215.3 → NP_001294144.1 Protein clarinet [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001294144.1

Status: REVIEWED

UniProtKB/TrEMBL

W6SB84

Conserved Domains (4) summary

pfam09528
Location:586 → 1063

Ehrlichia_rpt; Ehrlichia tandem repeat (Ehrlichia_rpt)

cd04031
Location:2434 → 2558

C2A_RIM1alpha; C2 domain first repeat contained in Rab3-interacting molecule (RIM) proteins

PRK01741
Location:392 → 565

PRK01741; cell division protein ZipA; Provisional

cd00992
Location:2288 → 2378

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...
NM_001307214.3 → NP_001294143.1 Protein clarinet [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001294143.1

Status: REVIEWED

UniProtKB/TrEMBL

W6RT96
NM_001392336.1 → NP_001379640.1 Protein clarinet [Caenorhabditis elegans]

Status: REVIEWED

Conserved Domains (2) summary

cd00992
Location:877 → 967

PDZ_signaling; PDZ domain found in a variety of Eumetazoan signaling molecules, often in tandem arrangements. May be responsible for specific protein-protein interactions, as most PDZ domains bind C-terminal polypeptides, and binding to internal (non-C-terminal) ...

cl14603
Location:1023 → 1147

C2; C2 domain
NM_001380338.1 → NP_001367468.1 Protein clarinet [Caenorhabditis elegans]

Status: REVIEWED