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

Gene ID: 178361, updated on 9-Dec-2024

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_003282.8Genomic Context describing neighboring genes Neighboring gene Transposase Neighboring gene pseudo Neighboring gene DBC1/CARP1 catalytically inactive NUDIX hydrolase domain-containing protein;SAP domain-containing protein Neighboring gene CXXC-type zinc finger protein 1

Genomic regions, transcripts, and products

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Genomic Sequence:
NC_003282.8

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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Related articles in PubMed

  1. A conserved role for SNX9-family members in the regulation of phagosome maturation during engulfment of apoptotic cells. Almendinger J, et al. PLoS One, 2011 Apr 8. PMID 21494661, Free PMC Article
  2. Developmental biology. A pattern of precision. Sternberg PW. Science, 2004 Jan 30. PMID 14752152
  3. Two PI 3-kinases and one PI 3-phosphatase together establish the cyclic waves of phagosomal PtdIns(3)P critical for the degradation of apoptotic cells. Lu N, et al. PLoS Biol, 2012 Jan. PMID 22272187, Free PMC Article
  4. PtdIns(4,5)P₂ and PtdIns3P coordinate to regulate phagosomal sealing for apoptotic cell clearance. Cheng S, et al. J Cell Biol, 2015 Aug 3. PMID 26240185, Free PMC Article
  5. Developmentally programmed germ cell remodelling by endodermal cell cannibalism. Abdu Y, et al. Nat Cell Biol, 2016 Dec. PMID 27842058, Free PMC Article

See all (21) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. 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.
  2. 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.
Submit: New GeneRIF Correction

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

Homology

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

  1. NC_003282.8 Reference assembly

    Range
    14061000..14069860 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. 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

  2. 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

  3. 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

  4. 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

  5. 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

  6. 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

  7. 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

  8. 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
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q8I4E2.1

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