lst-4 PX domain-containing protein;Sorting nexin lst-4 [Caenorhabditis elegans] - Gene

Summary

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Official Symbol: lst-4
Official Full Name: PX domain-containing protein;Sorting nexin lst-4
Primary source: WormBase:WBGene00003086
Locus tag: CELE_Y37A1B.2
See related: AllianceGenome:WB:WBGene00003086
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 enzyme binding activity and phosphatidylinositol phosphate binding activity. Involved in execution phase of apoptosis and phagosome-lysosome fusion involved in apoptotic cell clearance. Located in early phagosome. Is expressed in embryonic cell and gonad. Orthologous to several human genes including SNX18 (sorting nexin 18) and SNX33 (sorting nexin 33). [provided by Alliance of Genome Resources, Dec 2024]
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Genomic context

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See lst-4 in Genome Data Viewer

Location:: chromosome: IV

Exon count:: 12

Sequence:: Chromosome: IV; NC_003282.8 (14061000..14069860, complement)

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?

The functional conservation between LST-4 and SNX33 indicate that these early steps of apoptotic phagosome maturation are likely conserved through evolution.
Title: A conserved role for SNX9-family members in the regulation of phagosome maturation during engulfment of apoptotic cells.
LST-4 and SNX-1 promote the extension of phagosomal tubules to facilitate the docking and fusion of intracellular vesicles.
Title: Three sorting nexins drive the degradation of apoptotic cells in response to PtdIns(3)P signaling.

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Pathways from PubChem

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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

Y37A1B.2a (e-PCR)
- UniSTS:322384

Y37A1B.3 (e-PCR)
- UniSTS:312831

Homology

Orthologs from OrthoDB

Gene Ontology Provided by WormBase

Function	Evidence Code	Pubs
enables GTPase binding	IPI Inferred from Physical Interaction more info	PubMed
enables lipid binding	IEA Inferred from Electronic Annotation more info
enables phosphatase binding	IPI Inferred from Physical Interaction more info	PubMed
enables phosphatidylinositol binding	IBA Inferred from Biological aspect of Ancestor more info
enables phosphatidylinositol binding	IDA Inferred from Direct Assay more info	PubMed
enables phosphatidylinositol binding	IEA Inferred from Electronic Annotation more info
enables phosphatidylinositol-3,4,5-trisphosphate binding	IDA Inferred from Direct Assay more info	PubMed
enables phosphatidylinositol-4,5-bisphosphate binding	IDA Inferred from Direct Assay more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in endocytosis	IBA Inferred from Biological aspect of Ancestor more info
involved_in endosomal transport	IBA Inferred from Biological aspect of Ancestor more info
involved_in execution phase of apoptosis	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in mitotic cell cycle	IEA Inferred from Electronic Annotation more info
involved_in phagolysosome assembly involved in apoptotic cell clearance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in phagosome maturation involved in apoptotic cell clearance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in phagosome-lysosome fusion involved in apoptotic cell clearance	IGI Inferred from Genetic Interaction more info	PubMed
involved_in phagosome-lysosome fusion involved in apoptotic cell clearance	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in plasma membrane tubulation	IBA Inferred from Biological aspect of Ancestor more info
involved_in protein transport	IEA Inferred from Electronic Annotation more info

Component	Evidence Code	Pubs
located_in cytoplasm	IDA Inferred from Direct Assay more info	PubMed
located_in cytoplasm	IEA Inferred from Electronic Annotation more info
is_active_in cytoplasmic vesicle	IBA Inferred from Biological aspect of Ancestor more info
located_in cytoplasmic vesicle	IEA Inferred from Electronic Annotation more info
located_in early phagosome	IDA Inferred from Direct Assay more info	PubMed
located_in membrane	IEA Inferred from Electronic Annotation more info
located_in phagocytic vesicle	IDA Inferred from Direct Assay more info	PubMed
located_in phagocytic vesicle membrane	IEA Inferred from Electronic Annotation more info
is_active_in plasma membrane	IBA Inferred from Biological aspect of Ancestor more info

General protein information

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Preferred Names: PX domain-containing protein;Sorting nexin lst-4

NP_001255779.1

Confirmed by transcript evidence

NP_001293997.1

Confirmed by transcript evidence

NP_001294088.1

Confirmed by transcript evidence

NP_001379029.1

Confirmed by transcript evidence

NP_001379319.1

Confirmed by transcript evidence

NP_001380123.1

Confirmed by transcript evidence

NP_502694.1

Partially confirmed by transcript evidence

NP_872090.1

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

14061000..14069860 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_001392435.1 → NP_001379319.1 Sorting nexin lst-4 [Caenorhabditis elegans]

Status: REVIEWED

UniProtKB/Swiss-Prot

D3NQ98, J7SA60, Q8I4E1, Q8I4E2, Q9XXG2, Q9XXG3

Conserved Domains (3) summary

cd06862
Location:227 → 353

PX_SNX9_18_like; The phosphoinositide binding Phox Homology domain of Sorting Nexins 9 and 18

cd11763
Location:3 → 58

SH3_SNX9_like; Src Homology 3 domain of Sorting Nexin 9 and similar proteins

pfam10456
Location:336 → 566

BAR_3_WASP_bdg; WASP-binding domain of Sorting nexin protein
NM_001392436.1 → NP_001379029.1 Sorting nexin lst-4 [Caenorhabditis elegans]

Status: REVIEWED

Conserved Domains (2) summary

cd06862
Location:253 → 379

PX_SNX9_18_like; The phosphoinositide binding Phox Homology domain of Sorting Nexins 9 and 18

cl12013
Location:362 → 592

BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature
NM_182290.5 → NP_872090.1 Sorting nexin lst-4 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_872090.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q8I4E2

Conserved Domains (3) summary

cd06862
Location:227 → 351

PX_SNX9_18_like; The phosphoinositide binding Phox Homology domain of Sorting Nexins 9 and 18

cd11763
Location:3 → 58

SH3_SNX9_like; Src Homology 3 domain of Sorting Nexin 9 and similar proteins

pfam10456
Location:334 → 564

BAR_3_WASP_bdg; WASP-binding domain of Sorting nexin protein
NM_001392437.1 → NP_001380123.1 Sorting nexin lst-4 [Caenorhabditis elegans]

Status: REVIEWED

Conserved Domains (2) summary

cd06862
Location:166 → 292

PX_SNX9_18_like; The phosphoinositide binding Phox Homology domain of Sorting Nexins 9 and 18

cl12013
Location:275 → 505

BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature
NM_001307068.3 → NP_001293997.1 PX domain-containing protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001293997.1

Status: REVIEWED

UniProtKB/TrEMBL

A0A061AD14

Conserved Domains (2) summary

cd06862
Location:15 → 139

PX_SNX9_18_like; The phosphoinositide binding Phox Homology domain of Sorting Nexins 9 and 18

cl12013
Location:122 → 352

BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature
NM_001307159.3 → NP_001294088.1 PX domain-containing protein [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001294088.1

Status: REVIEWED

UniProtKB/TrEMBL

N1NVC3

Conserved Domains (2) summary

cd06862
Location:15 → 141

PX_SNX9_18_like; The phosphoinositide binding Phox Homology domain of Sorting Nexins 9 and 18

cl12013
Location:124 → 354

BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature
NM_001268850.3 → NP_001255779.1 Sorting nexin lst-4 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_001255779.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q8I4E2

Conserved Domains (1) summary

cl12013
Location:1 → 57

BAR; The Bin/Amphiphysin/Rvs (BAR) domain, a dimerization module that binds membranes and detects membrane curvature
NM_070293.6 → NP_502694.1 Sorting nexin lst-4 [Caenorhabditis elegans]

See identical proteins and their annotated locations for NP_502694.1

Status: REVIEWED

UniProtKB/Swiss-Prot

Q8I4E2

Conserved Domains (1) summary

cd11763
Location:3 → 58

SH3_SNX9_like; Src Homology 3 domain of Sorting Nexin 9 and similar proteins