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Protein

Sorting nexin-4

Gene

SNX4

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Sorting nexin, involved in the separation or division of vacuoles throughout the entire life cycle of the cells (By similarity). Involved in retrieval of late-Golgi SNAREs from post-Golgi endosomes to the trans-Golgi network, for cytoplasm to vacuole transport (Cvt), mitophagy, and pexophagy. Involved in proper sorting of the v-SNARE protein SNC1.By similarity10 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Binding sitei78 – 781Phosphatidylinositol 3-phosphateBy similarity
Binding sitei80 – 801Phosphatidylinositol 3-phosphate; via amide nitrogen and carbonyl oxygenBy similarity
Binding sitei104 – 1041Phosphatidylinositol 3-phosphateBy similarity
Binding sitei123 – 1231Phosphatidylinositol 3-phosphateBy similarity

GO - Molecular functioni

  • phosphatidylinositol-3-phosphate binding Source: SGD

GO - Biological processi

  • CVT pathway Source: SGD
  • early endosome to Golgi transport Source: SGD
  • mitophagy Source: SGD
  • piecemeal microautophagy of nucleus Source: SGD
  • protein targeting to vacuole Source: SGD
Complete GO annotation...

Keywords - Biological processi

Protein transport, Transport

Keywords - Ligandi

Lipid-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-31502-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Sorting nexin-4
Alternative name(s):
Autophagy-related protein 24
Cytoplasm to vacuole targeting protein 13
Gene namesi
Name:SNX4
Synonyms:ATG24, CVT13
Ordered Locus Names:YJL036W
ORF Names:J1244
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome X

Organism-specific databases

EuPathDBiFungiDB:YJL036W.
SGDiS000003573. SNX4.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: SGD
  • early endosome Source: SGD
  • endosome membrane Source: UniProtKB-SubCell
  • extrinsic component of membrane Source: SGD
  • pre-autophagosomal structure Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Endosome, Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi79 – 791Y → A: Abolishes the intracellular punctate localization and decreases the cytoplasm to vacuole transport. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 423423Sorting nexin-4PRO_0000213818Add
BLAST

Proteomic databases

MaxQBiP47057.
PeptideAtlasiP47057.

PTM databases

iPTMnetiP47057.

Interactioni

Subunit structurei

Forms a complex with ATG20 and ATG17. Binds also to SNC1 and SNX41.

Binary interactionsi

WithEntry#Exp.IntActNotes
ATG17Q064103EBI-17610,EBI-30856
ATG20Q075287EBI-17610,EBI-36894
SNX41Q040537EBI-17610,EBI-30464

Protein-protein interaction databases

BioGridi33724. 133 interactions.
DIPiDIP-2707N.
IntActiP47057. 24 interactions.
MINTiMINT-407706.

Structurei

3D structure databases

ProteinModelPortaliP47057.
SMRiP47057. Positions 24-236.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini29 – 157129PXPROSITE-ProRule annotationAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili217 – 25236Sequence analysisAdd
BLAST
Coiled coili346 – 38136Sequence analysisAdd
BLAST

Domaini

The PX domain binds phosphatidylinositol 3-phosphate which is necessary for peripheral membrane localization to the perivacuolar punctate structures.By similarity

Sequence similaritiesi

Belongs to the sorting nexin family.Curated
Contains 1 PX (phox homology) domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

GeneTreeiENSGT00840000129805.
HOGENOMiHOG000192515.
InParanoidiP47057.
KOiK17919.
OMAiRCHSLQN.
OrthoDBiEOG7B320H.

Family and domain databases

Gene3Di3.30.1520.10. 1 hit.
InterProiIPR001683. Phox.
[Graphical view]
PfamiPF00787. PX. 1 hit.
[Graphical view]
SMARTiSM00312. PX. 1 hit.
[Graphical view]
SUPFAMiSSF64268. SSF64268. 1 hit.
PROSITEiPS50195. PX. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P47057-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTDKGKNDLT SKAKDKARGN PEKPPYWFEI IVSDPQKRTG DPGSSSGYVS
60 70 80 90 100
YQISTKTNNT SFYDNRGDPE SIIVVHRRYS DLLLLHDILL NRFPTCIIPP
110 120 130 140 150
LPDKKVFQYI AGDRFSQRFT QKRCHSLQNF LRRVSLHPDL SQSKVFKTFL
160 170 180 190 200
VSKDWESHRK VLQDSLQPNK DEVTDAFMNA FKTVHKQNEE FTEIREKSDK
210 220 230 240 250
LDRTVTKIDK LFHKVVKKND SMSEDYTKLG SNLQELQELV TGENEELAAK
260 270 280 290 300
LKIFNEGVTQ LSYGLQDLTK YLDYEYIVDL KDLEHYIDSM RQLIKLKDQK
310 320 330 340 350
QIDYEELSDY LTRSIKEKNN LISGYGGSNF FANKLEELAG INQEASRREK
360 370 380 390 400
INKLEGKITS LTGELENAKK VADGFEQECL KEIDHFESVK TAEIKKSLGS
410 420
LADHHIEFYE RILEAWEKVD DSL
Length:423
Mass (Da):49,002
Last modified:February 1, 1996 - v1
Checksum:i10964322A1A22F16
GO

Sequence cautioni

The sequence CAA88260.1 differs from that shown. Reason: Frameshift at position 404. Curated

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti292 – 30413QLIKL…KQIDY → PDQIERPETDRL in CAA88260 (Ref. 1) CuratedAdd
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z48229 Genomic DNA. Translation: CAA88260.1. Frameshift.
Z49311 Genomic DNA. Translation: CAA89327.1.
AY693177 Genomic DNA. Translation: AAT93196.1.
BK006943 Genomic DNA. Translation: DAA08763.1.
PIRiS56808.
RefSeqiNP_012498.1. NM_001181470.1.

Genome annotation databases

EnsemblFungiiYJL036W; YJL036W; YJL036W.
GeneIDi853416.
KEGGisce:YJL036W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z48229 Genomic DNA. Translation: CAA88260.1. Frameshift.
Z49311 Genomic DNA. Translation: CAA89327.1.
AY693177 Genomic DNA. Translation: AAT93196.1.
BK006943 Genomic DNA. Translation: DAA08763.1.
PIRiS56808.
RefSeqiNP_012498.1. NM_001181470.1.

3D structure databases

ProteinModelPortaliP47057.
SMRiP47057. Positions 24-236.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33724. 133 interactions.
DIPiDIP-2707N.
IntActiP47057. 24 interactions.
MINTiMINT-407706.

PTM databases

iPTMnetiP47057.

Proteomic databases

MaxQBiP47057.
PeptideAtlasiP47057.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYJL036W; YJL036W; YJL036W.
GeneIDi853416.
KEGGisce:YJL036W.

Organism-specific databases

EuPathDBiFungiDB:YJL036W.
SGDiS000003573. SNX4.

Phylogenomic databases

GeneTreeiENSGT00840000129805.
HOGENOMiHOG000192515.
InParanoidiP47057.
KOiK17919.
OMAiRCHSLQN.
OrthoDBiEOG7B320H.

Enzyme and pathway databases

BioCyciYEAST:G3O-31502-MONOMER.

Miscellaneous databases

PROiP47057.

Family and domain databases

Gene3Di3.30.1520.10. 1 hit.
InterProiIPR001683. Phox.
[Graphical view]
PfamiPF00787. PX. 1 hit.
[Graphical view]
SMARTiSM00312. PX. 1 hit.
[Graphical view]
SUPFAMiSSF64268. SSF64268. 1 hit.
PROSITEiPS50195. PX. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Sora S., Tiboni O., Sanangelantoni A.M.
    Submitted (FEB-1995) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X."
    Galibert F., Alexandraki D., Baur A., Boles E., Chalwatzis N., Chuat J.-C., Coster F., Cziepluch C., de Haan M., Domdey H., Durand P., Entian K.-D., Gatius M., Goffeau A., Grivell L.A., Hennemann A., Herbert C.J., Heumann K.
    , Hilger F., Hollenberg C.P., Huang M.-E., Jacq C., Jauniaux J.-C., Katsoulou C., Kirchrath L., Kleine K., Kordes E., Koetter P., Liebl S., Louis E.J., Manus V., Mewes H.-W., Miosga T., Obermaier B., Perea J., Pohl T.M., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rasmussen S.W., Rose M., Rossau R., Schaaff-Gerstenschlaeger I., Smits P.H.M., Scarcez T., Soriano N., To Van D., Tzermia M., Van Broekhoven A., Vandenbol M., Wedler H., von Wettstein D., Wambutt R., Zagulski M., Zollner A., Karpfinger-Hartl L.
    EMBO J. 15:2031-2049(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  5. "Genetic and phenotypic overlap between autophagy and the cytoplasm to vacuole protein targeting pathway."
    Harding T.M., Hefner-Gravink A., Thumm M., Klionsky D.J.
    J. Biol. Chem. 271:17621-17624(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  6. "Cooperative binding of the cytoplasm to vacuole targeting pathway proteins, Cvt13 and Cvt20, to phosphatidylinositol 3-phosphate at the pre-autophagosomal structure is required for selective autophagy."
    Nice D.C. III, Sato T.K., Stromhaug P.E., Emr S.D., Klionsky D.J.
    J. Biol. Chem. 277:30198-30207(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH ATG17 AND ATG20, MUTAGENESIS OF TYR-79.
  7. Cited for: NOMENCLATURE.
  8. "Retromer and the sorting nexins Snx4/41/42 mediate distinct retrieval pathways from yeast endosomes."
    Hettema E.H., Lewis M.J., Black M.W., Pelham H.R.B.
    EMBO J. 22:548-557(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH SNX41 AND SNC1.
  9. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  10. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  11. "Control of Ste6 recycling by ubiquitination in the early endocytic pathway in yeast."
    Krsmanovic T., Pawelec A., Sydor T., Kolling R.
    Mol. Biol. Cell 16:2809-2821(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  12. "Grd19/Snx3p functions as a cargo-specific adapter for retromer-dependent endocytic recycling."
    Strochlic T.I., Setty T.G., Sitaram A., Burd C.G.
    J. Cell Biol. 177:115-125(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION.
  13. "Mitophagy in yeast occurs through a selective mechanism."
    Kanki T., Klionsky D.J.
    J. Biol. Chem. 283:32386-32393(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  14. "A genomic screen for yeast mutants defective in selective mitochondria autophagy."
    Kanki T., Wang K., Baba M., Bartholomew C.R., Lynch-Day M.A., Du Z., Geng J., Mao K., Yang Z., Yen W.L., Klionsky D.J.
    Mol. Biol. Cell 20:4730-4738(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  15. "Membrane delivery to the yeast autophagosome from the Golgi-endosomal system."
    Ohashi Y., Munro S.
    Mol. Biol. Cell 21:3998-4008(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  16. "Lipid binding requirements for oxysterol-binding protein Kes1 inhibition of autophagy and endosome-trans-Golgi trafficking pathways."
    LeBlanc M.A., McMaster C.R.
    J. Biol. Chem. 285:33875-33884(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  17. "Mitophagy in yeast is independent of mitochondrial fission and requires the stress response gene WHI2."
    Mendl N., Occhipinti A., Muller M., Wild P., Dikic I., Reichert A.S.
    J. Cell Sci. 124:1339-1350(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.

Entry informationi

Entry nameiSNX4_YEAST
AccessioniPrimary (citable) accession number: P47057
Secondary accession number(s): D6VWE7, Q06794
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: February 1, 1996
Last modified: June 8, 2016
This is version 143 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 358 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  3. Yeast chromosome X
    Yeast (Saccharomyces cerevisiae) chromosome X: entries and gene names

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.