lim-8 PDZ domain-containing protein [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: lim-8
Official Full Name: PDZ domain-containing protein
Primary source: WormBase:WBGene00017904
Locus tag: CELE_F28F5.3
See related: AllianceGenome:WB:WBGene00017904
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 protein domain specific binding activity. Predicted to be involved in positive regulation of stress fiber assembly and regulation of focal adhesion assembly. Located in M band. Is expressed in several structures, including excretory canal; non-striated muscle; pharynx; spermatheca; and vulva. Orthologous to several human genes including LIMCH1 (LIM and calponin homology domains 1). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See lim-8 in Genome Data Viewer

Location:: chromosome: III

Exon count:: 21

Sequence:: Chromosome: III; NC_003281.10 (6802788..6815963)

Chromosome III - NC_003281.10 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003281.10

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

F28F5.2 (e-PCR)
- UniSTS:310010

F28F5.3 (e-PCR)
- UniSTS:310011

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables myosin II head/neck binding	IBA Inferred from Biological aspect of Ancestor more info
enables protein domain specific binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in positive regulation of stress fiber assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in regulation of focal adhesion assembly	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in M band	IDA Inferred from Direct Assay more info	PubMed
is_active_in stress fiber	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: PDZ domain-containing protein

NP_498483.1

Confirmed by transcript evidence

NP_498484.1

Confirmed by transcript evidence

NP_741201.1

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_003281.10 Reference assembly

Range

6802788..6815963

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_171173.5 → NP_741201.1 PDZ domain-containing protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_741201.1

Status: REVIEWED

UniProtKB/TrEMBL

Q8MNT0

Conserved Domains (2) summary

smart00132
Location:1030 → 1088

LIM; Zinc-binding domain present in Lin-11, Isl-1, Mec-3

cd00136
Location:431 → 489

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
NM_066082.6 → NP_498483.1 PDZ domain-containing protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_498483.1

Status: REVIEWED

UniProtKB/TrEMBL

Q95QI3

Conserved Domains (2) summary

smart00132
Location:935 → 993

LIM; Zinc-binding domain present in Lin-11, Isl-1, Mec-3

cd00136
Location:336 → 394

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...
NM_066083.8 → NP_498484.1 PDZ domain-containing protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_498484.1

Status: REVIEWED

UniProtKB/TrEMBL

Q95QI2

Conserved Domains (2) summary

smart00132
Location:799 → 857

LIM; Zinc-binding domain present in Lin-11, Isl-1, Mec-3

cd00136
Location:381 → 439

PDZ; PDZ domain, also called DHR (Dlg homologous region) or GLGF (after a conserved sequence motif). Many PDZ domains bind C-terminal polypeptides, though binding to internal (non-C-terminal) polypeptides and even to lipids has been demonstrated. ...