clh-3 Chloride channel protein;Chloride channel protein clh-3 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: clh-3
Official Full Name: Chloride channel protein;Chloride channel protein clh-3
Primary source: WormBase:WBGene00000530
Locus tag: CELE_E04F6.11
See related: AllianceGenome:WB:WBGene00000530
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: Enables voltage-gated chloride channel activity. Involved in chloride transmembrane transport. Located in plasma membrane. Is expressed in egg-laying apparatus; epithelial cell; excretory cell; intestine; and muscle cell. Human ortholog(s) of this gene implicated in several diseases, including idiopathic generalized epilepsy 11; myotonia congenita (multiple); primary hyperaldosteronism; renal tubular transport disease (multiple); and sensorineural hearing loss. Orthologous to several human genes including CLCN1 (chloride voltage-gated channel 1) and CLCN2 (chloride voltage-gated channel 2). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See clh-3 in Genome Data Viewer

Location:: chromosome: II

Exon count:: 21

Sequence:: Chromosome: II; NC_003280.10 (7217943..7225648, complement)

Chromosome II - NC_003280.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003280.10

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Channels encoded by the CLC-2 homolog clh-3 regulate the activity of neurons which control egg-laying behavior.
Title: The voltage-gated anion channels encoded by clh-3 regulate egg laying in C. elegans by modulating motor neuron excitability.
Postulate that the R-helix linker interacts with CBS2 alpha2, and that this putative interaction provides a pathway by which cytoplasmic C-terminus conformational changes induce conformational changes in membrane domains that in turn modulate CLH-3 function.
Title: Unique gating properties of C. elegans ClC anion channel splice variants are determined by altered CBS domain conformation and the R-helix linker.
These results suggest that the deleted COOH-terminal region of CLH-3bDeltaC functions to modulate channel sensitivity to voltage and extracellular ions.
Title: Altered gating and regulation of a carboxy-terminal ClC channel mutant expressed in the Caenorhabditis elegans oocyte.
Alternative splicing of CLH-3 amino- and carboxyl-termini modifies the functional properties of the channel by altering the accessibility and/or function of pore-associated ion-binding sites.
Title: Alternative splicing of N- and C-termini of a C. elegans ClC channel alters gating and sensitivity to external Cl- and H+.

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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

E04F6.11 (e-PCR)
- UniSTS:309532

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables voltage-gated chloride channel activity	IBA Inferred from Biological aspect of Ancestor more info
enables voltage-gated chloride channel activity	IDA Inferred from Direct Assay more info	PubMed
enables voltage-gated chloride channel activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in chloride transmembrane transport	IDA Inferred from Direct Assay more info	PubMed
involved_in chloride transmembrane transport	IEA Inferred from Electronic Annotation more info
involved_in chloride transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in chloride transport	IEA Inferred from Electronic Annotation more info
involved_in monoatomic ion transport	IEA Inferred from Electronic Annotation more info
involved_in transmembrane transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
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 plasma membrane	IDA Inferred from Direct Assay more info	PubMed
located_in plasma membrane	IEA Inferred from Electronic Annotation more info

General protein information

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Preferred Names: Chloride channel protein;Chloride channel protein clh-3

NP_001022060.1

Confirmed by transcript evidence

NP_001300529.1

Confirmed by transcript evidence

NP_001300530.1

Confirmed by transcript evidence

NP_001300531.1

Confirmed by transcript evidence

NP_001300532.1

Partially confirmed by transcript evidence

NP_001300533.1

Partially confirmed by transcript evidence

NP_001300534.1

Partially confirmed by transcript evidence

NP_001300535.1

Partially 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_003280.10 Reference assembly

Range

7217943..7225648 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001026889.6 → NP_001022060.1 Chloride channel protein clh-3 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001022060.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q7KKH7, Q9BMK9

Conserved Domains (5) summary

COG0517
Location:556 → 615

CBS; CBS domain [Signal transduction mechanisms]

cd03683
Location:51 → 543

ClC_1_like; ClC-1-like chloride channel proteins. This CD includes isoforms ClC-0, ClC-1, ClC-2 and ClC_K. ClC-1 is expressed in skeletal muscle and its mutation leads to both recessively and dominantly-inherited forms of muscle stiffness or myotonia. ClC-K is ...

cd04591
Location:727 → 834

CBS_pair_EriC_assoc_euk_bac; This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes and bacteria. These ion channels are proteins with a seemingly simple task of allowing the passive flow of ...

pfam00571
Location:556 → 613

CBS; CBS domain

pfam00654
Location:108 → 522

Voltage_CLC; Voltage gated chloride channel
NM_001313603.2 → NP_001300532.1 Chloride channel protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A0K3AWV4

Conserved Domains (5) summary

COG0517
Location:559 → 618

CBS; CBS domain [Signal transduction mechanisms]

cd03683
Location:51 → 546

ClC_1_like; ClC-1-like chloride channel proteins. This CD includes isoforms ClC-0, ClC-1, ClC-2 and ClC_K. ClC-1 is expressed in skeletal muscle and its mutation leads to both recessively and dominantly-inherited forms of muscle stiffness or myotonia. ClC-K is ...

cd04591
Location:805 → 851

CBS_pair_EriC_assoc_euk_bac; This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes and bacteria. These ion channels are proteins with a seemingly simple task of allowing the passive flow of ...

pfam00571
Location:559 → 616

CBS; CBS domain

pfam00654
Location:108 → 525

Voltage_CLC; Voltage gated chloride channel
NM_001313600.3 → NP_001300529.1 Chloride channel protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A0K3ATX5

Conserved Domains (4) summary

cd03683
Location:122 → 614

ClC_1_like; ClC-1-like chloride channel proteins. This CD includes isoforms ClC-0, ClC-1, ClC-2 and ClC_K. ClC-1 is expressed in skeletal muscle and its mutation leads to both recessively and dominantly-inherited forms of muscle stiffness or myotonia. ClC-K is ...

cd04591
Location:798 → 905

CBS_pair_EriC_assoc_euk_bac; This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes and bacteria. These ion channels are proteins with a seemingly simple task of allowing the passive flow of ...

pfam00571
Location:627 → 684

CBS; CBS domain

pfam00654
Location:179 → 593

Voltage_CLC; Voltage gated chloride channel
NM_001313606.3 → NP_001300535.1 Chloride channel protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A0K3AR06

Conserved Domains (4) summary

cd03683
Location:122 → 617

ClC_1_like; ClC-1-like chloride channel proteins. This CD includes isoforms ClC-0, ClC-1, ClC-2 and ClC_K. ClC-1 is expressed in skeletal muscle and its mutation leads to both recessively and dominantly-inherited forms of muscle stiffness or myotonia. ClC-K is ...

cd04591
Location:876 → 922

CBS_pair_EriC_assoc_euk_bac; This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes and bacteria. These ion channels are proteins with a seemingly simple task of allowing the passive flow of ...

pfam00571
Location:630 → 687

CBS; CBS domain

pfam00654
Location:179 → 596

Voltage_CLC; Voltage gated chloride channel
NM_001313601.3 → NP_001300530.1 Chloride channel protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A0K3AR01

Conserved Domains (4) summary

cd03683
Location:113 → 605

ClC_1_like; ClC-1-like chloride channel proteins. This CD includes isoforms ClC-0, ClC-1, ClC-2 and ClC_K. ClC-1 is expressed in skeletal muscle and its mutation leads to both recessively and dominantly-inherited forms of muscle stiffness or myotonia. ClC-K is ...

cd04591
Location:789 → 896

CBS_pair_EriC_assoc_euk_bac; This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes and bacteria. These ion channels are proteins with a seemingly simple task of allowing the passive flow of ...

pfam00571
Location:618 → 675

CBS; CBS domain

pfam00654
Location:170 → 584

Voltage_CLC; Voltage gated chloride channel
NM_001313604.3 → NP_001300533.1 Chloride channel protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A0K3ARJ6

Conserved Domains (4) summary

cd03683
Location:113 → 608

ClC_1_like; ClC-1-like chloride channel proteins. This CD includes isoforms ClC-0, ClC-1, ClC-2 and ClC_K. ClC-1 is expressed in skeletal muscle and its mutation leads to both recessively and dominantly-inherited forms of muscle stiffness or myotonia. ClC-K is ...

cd04591
Location:867 → 913

CBS_pair_EriC_assoc_euk_bac; This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes and bacteria. These ion channels are proteins with a seemingly simple task of allowing the passive flow of ...

pfam00571
Location:621 → 678

CBS; CBS domain

pfam00654
Location:170 → 587

Voltage_CLC; Voltage gated chloride channel
NM_001313602.3 → NP_001300531.1 Chloride channel protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A0K3AUJ7

Conserved Domains (5) summary

COG0517
Location:588 → 647

CBS; CBS domain [Signal transduction mechanisms]

cd03683
Location:83 → 575

ClC_1_like; ClC-1-like chloride channel proteins. This CD includes isoforms ClC-0, ClC-1, ClC-2 and ClC_K. ClC-1 is expressed in skeletal muscle and its mutation leads to both recessively and dominantly-inherited forms of muscle stiffness or myotonia. ClC-K is ...

cd04591
Location:759 → 866

CBS_pair_EriC_assoc_euk_bac; This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes and bacteria. These ion channels are proteins with a seemingly simple task of allowing the passive flow of ...

pfam00571
Location:588 → 645

CBS; CBS domain

pfam00654
Location:140 → 554

Voltage_CLC; Voltage gated chloride channel
NM_001313605.3 → NP_001300534.1 Chloride channel protein [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/TrEMBL

A0A0K3ATY0

Conserved Domains (4) summary

cd03683
Location:83 → 578

ClC_1_like; ClC-1-like chloride channel proteins. This CD includes isoforms ClC-0, ClC-1, ClC-2 and ClC_K. ClC-1 is expressed in skeletal muscle and its mutation leads to both recessively and dominantly-inherited forms of muscle stiffness or myotonia. ClC-K is ...

cd04591
Location:837 → 883

CBS_pair_EriC_assoc_euk_bac; This cd contains two tandem repeats of the cystathionine beta-synthase (CBS pair) domains in the EriC CIC-type chloride channels in eukaryotes and bacteria. These ion channels are proteins with a seemingly simple task of allowing the passive flow of ...

pfam00571
Location:591 → 648

CBS; CBS domain

pfam00654
Location:140 → 557

Voltage_CLC; Voltage gated chloride channel