ifa-4 Intermediate filament protein ifa-4 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: ifa-4
Official Full Name: Intermediate filament protein ifa-4
Primary source: WormBase:WBGene00002052
Locus tag: CELE_K05B2.3
See related: AllianceGenome:WB:WBGene00002052
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 be a structural constituent of cytoskeleton. Predicted to be involved in several processes, including heterochromatin formation; nucleus organization; and protein localization to nuclear envelope. Predicted to be located in intermediate filament. Predicted to be active in nuclear envelope and nuclear lamina. Is expressed in several structures, including egg-laying apparatus; excretory cell; pharyngeal-intestinal valve; rectum; and spermathecal-uterine valve cell. Human ortholog(s) of this gene implicated in partial lipodystrophy; primary autosomal recessive microcephaly; and progressive myoclonus epilepsy 9. Orthologous to human LMNB2 (lamin B2). [provided by Alliance of Genome Resources, Nov 2024]
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Genomic context

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See ifa-4 in Genome Data Viewer

Location:: chromosome: X

Exon count:: 10

Sequence:: Chromosome: X; NC_003284.9 (4912308..4915979, complement)

Chromosome X - NC_003284.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003284.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Genetic and imaging analyses suggest that IFB-1/IFA-4 and IFB-1/IFC-2 polymers form a perilumenal triple IF lattice, sandwiched between actin and helical tubulin. Our findings characterize a novel mechanism of capillary-like lumenogenesis, where a tensile trilayered cytoskeletal endotube transforms concentric into directional growth.
Title: A tensile trilayered cytoskeletal endotube drives capillary-like lumenogenesis.
IFA-4 lines the excretory canal apical surface and binds EXC-2.
Title: Tubular Excretory Canal Structure Depends on Intermediate Filaments EXC-2 and IFA-4 in Caenorhabditis elegans.

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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

K05B2.3 (e-PCR)
- UniSTS:311416

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 structural constituent of cytoskeleton	IBA Inferred from Biological aspect of Ancestor more info

Process	Evidence Code	Pubs
involved_in cytoskeleton organization	IEA Inferred from Electronic Annotation more info
involved_in heterochromatin formation	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear envelope organization	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in nuclear pore localization	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein localization to nuclear envelope	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
located_in intermediate filament	IEA Inferred from Electronic Annotation more info
located_in intermediate filament	ISS Inferred from Sequence or Structural Similarity more info	PubMed
is_active_in nuclear envelope	IBA Inferred from Biological aspect of Ancestor more info
is_active_in nuclear lamina	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: Intermediate filament protein ifa-4

NP_508836.5

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_003284.9 Reference assembly

Range

4912308..4915979 complement

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_076435.10 → NP_508836.5 Intermediate filament protein ifa-4 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_508836.5

Status: REVIEWED

UniProtKB/Swiss-Prot

P90900, Q9GYN4

Conserved Domains (3) summary

pfam00038
Location:70 → 422

Filament; Intermediate filament protein

pfam00932
Location:463 → 569

LTD; Lamin Tail Domain

cl19219
Location:135 → 254

DUF342; Protein of unknown function (DUF342)