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Protein

Sorting nexin lst-4

Gene

lst-4

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Involved in the signaling of vulval development by acting as a negative regulator of epidermal growth factor receptor (EGFR) signaling. Aids in phagosomal membrane tubule formation which is required for phagosomal fusion with endosomes and lysosomes. Also recruits rab-7 to phagosomes by an intereaction with dyn-1. These are events leading to phagosome maturation which is a step in apoptotic cell corpse clearance. Binds phosphatidylinositol-3,4,5-trisphosphate.4 Publications

GO - Molecular functioni

  • GTPase binding Source: WormBase
  • phosphatase binding Source: WormBase
  • phosphatidylinositol-3,4,5-trisphosphate binding Source: WormBase
  • phosphatidylinositol-4,5-bisphosphate binding Source: WormBase
  • phosphatidylinositol binding Source: UniProtKB
  • protein self-association Source: WormBase

GO - Biological processi

  • execution phase of apoptosis Source: UniProtKB
  • mitotic cell cycle Source: InterPro
  • phagolysosome assembly involved in apoptotic cell clearance Source: UniProtKB
  • phagosome-lysosome fusion involved in apoptotic cell clearance Source: WormBase
  • phagosome maturation involved in apoptotic cell clearance Source: UniProtKB
  • protein transport Source: InterPro

Keywordsi

LigandLipid-binding

Enzyme and pathway databases

ReactomeiR-CEL-432722 Golgi Associated Vesicle Biogenesis
R-CEL-8856828 Clathrin-mediated endocytosis

Names & Taxonomyi

Protein namesi
Recommended name:
Sorting nexin lst-4By similarity
Alternative name(s):
Lateral signaling target protein 42 Publications
Gene namesi
Name:lst-4Imported
ORF Names:Y37A1B.2
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome IV

Organism-specific databases

WormBaseiY37A1B.2a ; CE19071 ; WBGene00003086 ; lst-4
Y37A1B.2b ; CE32245 ; WBGene00003086 ; lst-4
Y37A1B.2c ; CE32246 ; WBGene00003086 ; lst-4
Y37A1B.2d ; CE32247 ; WBGene00003086 ; lst-4
Y37A1B.2e ; CE44602 ; WBGene00003086 ; lst-4
Y37A1B.2f ; CE47745 ; WBGene00003086 ; lst-4

Subcellular locationi

Keywords - Cellular componenti

Cytoplasm, Cytoplasmic vesicle, Membrane

Pathology & Biotechi

Disruption phenotypei

Aberrant vulval development, ectopic vulval induction, retained cell corpses and defective recruitment of dyn-1 and rab-7 to phagosomal surfaces.3 Publications

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi265 – 267RYK → QAA: Defective recruitment to the phagosome. 1 Publication3
Mutagenesisi265R → Q: Defect recruitment by phosphoinositide to phagosomal surface. 1 Publication1
Mutagenesisi494K → E: Defective recruitment to the phagosome. 1 Publication1
Mutagenesisi501R → E: Defective recruitment to the phagosome. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00004227721 – 566Sorting nexin lst-4Add BLAST566

Proteomic databases

EPDiQ8I4E2
PaxDbiQ8I4E2
PeptideAtlasiQ8I4E2
PRIDEiQ8I4E2

Expressioni

Tissue specificityi

Expressed in vulval precursor cells (VPCs) and apoptotic germ cells. Colocalizes with actin, dyn-1 and rab-5 in early phagosomes.2 Publications

Developmental stagei

Highly expressed in all 6 vulval precursor cells (VPCs). At the time of inductive signaling, expression forms a gradient in response to inductive signal: expression is low in P6.p, intermediate in P5.p and P7.p and undiminished in P3.p, P4.p, and P8.p. Later, expression becomes strong again in P5.p and P7.p.1 Publication

Gene expression databases

BgeeiWBGene00003086
ExpressionAtlasiQ8I4E2 baseline and differential

Interactioni

Subunit structurei

Homodimer. Isoform d interacts (via SH3 domain) with dyn-1.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
dyn-1P390554EBI-4325777,EBI-317945

GO - Molecular functioni

  • GTPase binding Source: WormBase
  • phosphatase binding Source: WormBase
  • protein self-association Source: WormBase

Protein-protein interaction databases

BioGridi43445, 2 interactors
IntActiQ8I4E2, 6 interactors
STRINGi6239.Y37A1B.2b

Structurei

3D structure databases

ProteinModelPortaliQ8I4E2
SMRiQ8I4E2
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini1 – 61SH3PROSITE-ProRule annotationAdd BLAST61
Domaini227 – 339PXPROSITE-ProRule annotationAdd BLAST113
Domaini362 – 566BARSequence analysisAdd BLAST205

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi64 – 115Pro-richSequence analysisAdd BLAST52

Domaini

The BAR and PX domains are required for recruitment to the phagosome.1 Publication
The SH3 domain is involved in phagosome maturation.1 Publication

Sequence similaritiesi

Belongs to the sorting nexin family.Sequence analysis

Keywords - Domaini

SH3 domain

Phylogenomic databases

eggNOGiKOG2528 Eukaryota
ENOG410XPHZ LUCA
GeneTreeiENSGT00510000046469
HOGENOMiHOG000261633
KOiK17923
OMAiGSMVGRN
OrthoDBiEOG091G05JE

Family and domain databases

Gene3Di1.20.1270.60, 1 hit
3.30.1520.10, 1 hit
InterProiView protein in InterPro
IPR027267 AH/BAR_dom_sf
IPR001683 Phox
IPR036871 PX_dom_sf
IPR036028 SH3-like_dom_sf
IPR001452 SH3_domain
IPR014536 Snx9_fam
IPR019497 Sorting_nexin_WASP-bd-dom
PfamiView protein in Pfam
PF10456 BAR_3_WASP_bdg, 1 hit
PF00787 PX, 1 hit
PF14604 SH3_9, 1 hit
PIRSFiPIRSF027744 Snx9, 1 hit
PRINTSiPR00452 SH3DOMAIN
SMARTiView protein in SMART
SM00312 PX, 1 hit
SM00326 SH3, 1 hit
SUPFAMiSSF50044 SSF50044, 1 hit
SSF64268 SSF64268, 1 hit
PROSITEiView protein in PROSITE
PS50195 PX, 1 hit
PS50002 SH3, 1 hit

Sequences (6)i

Sequence statusi: Complete.

This entry describes 6 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform c1 Publication (identifier: Q8I4E2-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MAQVKAEYDF QSQPNTGELS ISAGEVLTVI RENIDGGWIE GRNVRGSVGL
60 70 80 90 100
FPESYVTPYQ ASRPPPVLPP PLPPTSSGPP AASSRPFDDW GGASEVAAPP
110 120 130 140 150
SYGAQHHHQP TPSVPEVTRS SYPSQNDDFD DEWTDEDDEQ EPTRPNVQSS
160 170 180 190 200
IGSNSRRDLS RSHSEHGGPD RGSNKVNKNI NRFSNFVKSG VEAYVIGESK
210 220 230 240 250
TTSQISERHE VVMNNGIIQW KPIQQYYTCI VDKPKKESKL KGLKSFIAYS
260 270 280 290 300
ITSSLTNIQR QVSRRYKHFD WLHEQLSAKY VLIPIPPLPE KQVAGRYEED
310 320 330 340 350
LIDHRKHILQ LWVNKICRHP VLSQSEVWLH FISCTDEKDW KNGKRRAEKD
360 370 380 390 400
EYIGGAFLNC ITVPHQPLDP NNVDMQVERF QRSVKTSEEA MRVMQERMNM
410 420 430 440 450
FQKVFAGPVK QNWQKMGSAF KTLQQSFEID ETVASRRLTE ALAYTASEYH
460 470 480 490 500
EIGQVFDAHT KNDMEPVLEN LYSYKGTVQN VPDIIQVHKQ AVQKFRDSEG
510 520 530 540 550
RLSSAEAEKM KQRIDAMSYT VIAEVQHQTA EKVEDMKSTM GTYLKKQAMF
560
YQEVATKLTS LAARYD
Note: No experimental confirmation available.Curated
Length:566
Mass (Da):64,329
Last modified:March 1, 2003 - v1
Checksum:i77CFBE901A3E3B24
GO
Isoform a1 Publication (identifier: Q8I4E2-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     141-163: EPTRPNVQSSIGSNSRRDLSRSH → VFLKFYFNFLIVQFLSVLFIPSN
     165-566: Missing.

Note: No experimental confirmation available.Curated
Show »
Length:164
Mass (Da):18,014
Checksum:i090A42146AAC080C
GO
Isoform b1 Publication (identifier: Q8I4E2-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-66: MAQVKAEYDF...TPYQASRPPP → MLFTSSLRKA...FKKSGAISKS

Note: No experimental confirmation available.Curated
Show »
Length:592
Mass (Da):67,553
Checksum:i156B568888CD5E78
GO
Isoform d1 Publication (identifier: Q8I4E2-4) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     260-261: Missing.

Note: No experimental confirmation available.Curated
Show »
Length:564
Mass (Da):64,045
Checksum:i224A0F3052A1CA3D
GO
Isoform e1 Publication (identifier: Q8I4E2-5) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-509: Missing.

Note: No experimental confirmation available.Curated
Show »
Length:57
Mass (Da):6,580
Checksum:i5AE1F0267B8630F8
GO
Isoform f1 Publication (identifier: Q8I4E2-6) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     2-79: AQVKAEYDFQ...PPLPPTSSGP → STDDETRSSQ...SNRSHHDQNK
     80-140: Missing.

Note: No experimental confirmation available.Curated
Show »
Length:505
Mass (Da):58,155
Checksum:i1514E1BFE36F43FE
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0466281 – 509Missing in isoform e. 1 PublicationAdd BLAST509
Alternative sequenceiVSP_0466291 – 66MAQVK…SRPPP → MLFTSSLRKAVENYPTPPGG SSEDAHRQLLERRRKQMLRR HTCSTLIKQDTSASPHKMKP PILMEEEDEQHSTGKHSSRK SSFKKSGAISKS in isoform b. 1 PublicationAdd BLAST66
Alternative sequenceiVSP_0466302 – 79AQVKA…TSSGP → STDDETRSSQQDGAYPSSKR NGSVGSSTRSTSTKKRLSRQ DSTARRRRLSEERDSRRRVE KSVSSCLSSNRSHHDQNK in isoform f. 1 PublicationAdd BLAST78
Alternative sequenceiVSP_04663180 – 140Missing in isoform f. 1 PublicationAdd BLAST61
Alternative sequenceiVSP_046632141 – 163EPTRP…LSRSH → VFLKFYFNFLIVQFLSVLFI PSN in isoform a. 1 PublicationAdd BLAST23
Alternative sequenceiVSP_046633165 – 566Missing in isoform a. 1 PublicationAdd BLAST402
Alternative sequenceiVSP_046634260 – 261Missing in isoform d. 1 Publication2

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AL023835 Genomic DNA Translation: CAA19486.1
AL023835 Genomic DNA Translation: CAA19487.2
AL023835 Genomic DNA Translation: CAD56253.1
AL023835 Genomic DNA Translation: CAD56254.1
AL023835 Genomic DNA Translation: CBK19491.1
AL023835 Genomic DNA Translation: CCM09420.1
RefSeqiNP_001255779.1, NM_001268850.1 [Q8I4E2-5]
NP_001263811.1, NM_001276882.1 [Q8I4E2-6]
NP_502693.2, NM_070292.4 [Q8I4E2-1]
NP_502694.1, NM_070293.5 [Q8I4E2-2]
NP_502695.2, NM_070294.4 [Q8I4E2-3]
NP_872090.1, NM_182290.3 [Q8I4E2-4]
UniGeneiCel.22885

Genome annotation databases

EnsemblMetazoaiY37A1B.2c; Y37A1B.2c; WBGene00003086 [Q8I4E2-1]
GeneIDi178361
KEGGicel:CELE_Y37A1B.2
UCSCiY37A1B.2b c. elegans

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Entry informationi

Entry nameiLST4_CAEEL
AccessioniPrimary (citable) accession number: Q8I4E2
Secondary accession number(s): D3NQ98
, J7SA60, Q8I4E1, Q9XXG2, Q9XXG3
Entry historyiIntegrated into UniProtKB/Swiss-Prot: June 26, 2013
Last sequence update: March 1, 2003
Last modified: May 23, 2018
This is version 121 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. SIMILARITY comments
    Index of protein domains and families
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