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protein coding gene - ypt3 (SPAC18G6.03) - Rab11 family GTPase Ypt3

Gene summary

Standard name
ypt3
Systematic ID
SPAC18G6.03
Product
Rab11 family GTPase Ypt3
Organism
Schizosaccharomyces pombe (fission yeast)
UniProt ID
P17610
ORFeome ID
13/13C02
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome I: 2215672..2217134 forward strand

Annotation

Disease association

MONDO:0060624 - neurodevelopmental disorder with ataxic gait, absent speech, and decreased cortical white matter

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GO biological process

GO:0032120 - ascospore-type prospore membrane formation

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GO:0099638 - endosome to plasma membrane protein transport

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GO:0006887 - exocytosis

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GO:0061796 - membrane addition at site of mitotic cytokinesis

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GO:0000281 - mitotic cytokinesis

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GO:1990896 - protein localization to cell cortex of cell tip

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GO cellular component

GO:0090689 - cleavage furrow leading edge

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GO:0090726 - cortical dynamic polarity patch

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GO:0005737 - cytoplasm

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GO:0005829 - cytosol

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GO:0010008 - endosome membrane

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GO:0000139 - Golgi membrane

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GO:0035838 - growing cell tip

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GO:1990819 - mating projection actin fusion focus

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GO:0090619 - meiotic spindle pole

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GO:0035974 - meiotic spindle pole body

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GO:0005634 - nucleus

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GO:0005628 - prospore membrane

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GO:0055037 - recycling endosome

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GO molecular function

GO:0005525 - GTP binding

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GO:0003924 - GTPase activity

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Modification

MOD:00441 - geranylgeranylated residue

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MOD:00046 - O-phospho-L-serine

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MOD:00047 - O-phospho-L-threonine

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MOD:00440 - palmitoylated residue

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MOD:01148 - ubiquitinylated lysine

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Multi-locus phenotype

FYPO:0000046 - decreased cell population growth

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Genotypes:

FYPO:0002061 - inviable vegetative cell population

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Genotypes:

Protein features

PBO:0111858 - Ypt subfamily

Qualitative gene expression

PomGeneEx:0000019 - protein level decreased

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PomGeneEx:0000012 - RNA level decreased

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PomGeneEx:0000011 - RNA level increased

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Quantitative gene expression

PBO:0006310 - protein level

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PBO:0011963 - RNA level

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Single locus phenotype

FYPO:0001915 - abolished prospore membrane formation

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Genotypes:

FYPO:0000082 - decreased cell population growth at high temperature

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Genotypes:

FYPO:0001586 - decreased protein localization to cell tip during vegetative growth

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Genotypes:

FYPO:0002557 - decreased protein localization to medial cortex during vegetative growth

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Genotypes:

FYPO:0002772 - decreased protein localization to meiotic spindle pole body

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Genotypes:

FYPO:0001838 - decreased protein phosphorylation during vegetative growth

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Genotypes:

FYPO:0002086 - exocytic vesicles present in increased numbers

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Genotypes:

FYPO:0001677 - increased protein localization to medial cortex during vegetative growth

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Genotypes:

FYPO:0002151 - inviable spore

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Genotypes:

FYPO:0002061 - inviable vegetative cell population

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Genotypes:

FYPO:0000776 - normal protein phosphorylation during vegetative growth

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Genotypes:

FYPO:0007589 - protein mislocalized to endosome

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Genotypes:

FYPO:0004325 - sensitive to 5-fluorouracil

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Genotypes:

FYPO:0002641 - sensitive to micafungin

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Genotypes:

FYPO:0000110 - sensitive to pravastatin

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Genotypes:

FYPO:0000086 - sensitive to tacrolimus

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Genotypes:

FYPO:0000115 - sensitive to valproic acid

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Genotypes:

FYPO:0004609 - spindle pole bodies present in increased numbers during meiosis

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Genotypes:

FYPO:0002060 - viable vegetative cell population

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Genotypes:

Taxonomic conservation

PBO:0011065 - conserved in eukaryotes

PBO:0011071 - conserved in eukaryotes only

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

PBO:0011070 - conserved in vertebrates

Protein features

IDNameInterPro nameDB name
PF00071RasSmall_GTPasePFAM
cd01868Rab11_likeCDD
PS51419RABPROSITE_PROFILES
PS51420RHOPROSITE_PROFILES
PS51421RASSmall_GTPasePROSITE_PROFILES
SM00174rho_sub_3Small_GTPaseSMART
SM00175rab_sub_5SMART
SM00176ran_sub_2SMART
SM00173ras_sub_4SMART
PR00449RASTRNSFRMNGPRINTS
G3DSA:3.40.50.300:FF:000067FUNFAM
SSF52540P-loop containing nucleoside triphosphate hydrolasesP-loop_NTPaseSUPERFAMILY
G3DSA:3.40.50.300P-loop_NTPaseGENE3D
PTHR47979DRAB11-RELATEDRab_GTPases_membrane_trafficPANTHER
TIGR00231small_GTPSmall_GTP-bdNCBIFAM

Orthologs

References / Literature

PMID:2328721 - Identification of ras-related, YPT family genes in Schizosaccharomyces pombe.
Miyake S et al. EMBO J 1990 May;9(5):1417-22
PMID:23697806 - A genome-wide resource of cell cycle and cell shape genes of fission yeast.
Hayles J et al. Open Biol 2013 May 22;3(5):130053
PMID:27255861 - Genetic evidence for involvement of membrane trafficking in the action of 5-fluorouracil.
Hu L et al. Fungal Genet Biol 2016 Aug;93:17-24
PMID:19486165 - Pleiotropic phenotypes caused by an opal nonsense mutation in an essential gene encoding HMG-CoA reductase in fission yeast.
Fang Y et al. Genes Cells 2009 Jun;14(6):759-71
PMID:22848669 - Studies on the roles of clathrin-mediated membrane trafficking and zinc transporter Cis4 in the transport of GPI-anchored proteins in fission yeast.
Jaiseng W et al. PLoS One 2012;7(7):e41946
PMID:15047861 - Loss of Apm1, the micro1 subunit of the clathrin-associated adaptor-protein-1 complex, causes distinct phenotypes and synthetic lethality with calcineurin deletion in fission yeast.
Kita A et al. Mol Biol Cell 2004 Jun;15(6):2920-31
PMID:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.
Strachan J et al. J Cell Sci 2023 Dec 01;136(23)
PMID:30044717 - Roles of the fission yeast UNC-13/Munc13 protein Ync13 in late stages of cytokinesis.
Zhu YH et al. Mol Biol Cell 2018 Sep 15;29(19):2259-2279
PMID:27082518 - Roles of the TRAPP-II Complex and the Exocyst in Membrane Deposition during Fission Yeast Cytokinesis.
Wang N et al. PLoS Biol 2016 Apr;14(4):e1002437
PMID:18199682 - Cation diffusion facilitator Cis4 is implicated in Golgi membrane trafficking via regulating zinc homeostasis in fission yeast.
Fang Y et al. Mol Biol Cell 2008 Apr;19(4):1295-303
PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs
PMID:1597466 - Post-translational processing of Schizosaccharomyces pombe YPT proteins.
Newman CM et al. J Biol Chem 1992 Jun 05;267(16):11329-36
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:30355493 - Expanded Interactome of the Intrinsically Disordered Protein Dss1.
Schenstrøm SM et al. Cell Rep 2018 Oct 23;25(4):862-870
PMID:22891673 - Fission yeast sec3 bridges the exocyst complex to the actin cytoskeleton.
Jourdain I et al. Traffic 2012 Nov;13(11):1481-95
PMID:31495586 - Capping Protein Insulates Arp2/3-Assembled Actin Patches from Formins.
Billault-Chaumartin I et al. Curr Biol 2019 Oct 07;29(19):3165-3176.e6
PMID:33823663 - A TOR (target of rapamycin) and nutritional phosphoproteome of fission yeast reveals novel targets in networks conserved in humans.
Halova L et al. Open Biol 2021 Apr;11(4):200405
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:23101633 - Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.
Marguerat S et al. Cell 2012 Oct 26;151(3):671-83
PMID:16537923 - Sterol regulatory element binding protein is a principal regulator of anaerobic gene expression in fission yeast.
Todd BL et al. Mol Cell Biol 2006 Apr;26(7):2817-31
PMID:22137473 - Shaping fission yeast cells by rerouting actin-based transport on microtubules.
Lo Presti L et al. Curr Biol 2011 Dec 20;21(24):2064-9
PMID:24350606 - Functional link between Rab GTPase-mediated membrane trafficking and PI4,5P2 signaling.
Li C et al. Genes Cells 2014 Mar;19(3):177-97
PMID:27630265 - The exocytic Rabs Ypt3 and Ypt2 regulate the early step of biogenesis of the spore plasma membrane in fission yeast.
Imada K et al. Mol Biol Cell 2016 Nov 01;27(21):3317-3328
PMID:30726745 - Fission Yeast NDR/LATS Kinase Orb6 Regulates Exocytosis via Phosphorylation of the Exocyst Complex.
Tay YD et al. Cell Rep 2019 Feb 05;26(6):1654-1667.e7
PMID:39476757 - Characterization of Ksg1 protein kinase-dependent phosphoproteome in the fission yeast S. pombe.
Cipak L et al. Biochem Biophys Res Commun 2024 Oct 25;736:150895
PMID:12637524 - Zinc finger protein Prz1 regulates Ca2+ but not Cl- homeostasis in fission yeast. Identification of distinct branches of calcineurin signaling pathway in fission yeast.
Hirayama S et al. J Biol Chem 2003 May 16;278(20):18078-84
PMID:39705284 - Proteomic and phosphoproteomic analyses reveal that TORC1 is reactivated by pheromone signaling during sexual reproduction in fission yeast.
Bérard M et al. PLoS Biol 2024 Dec 20;22(12):e3002963
PMID:16483310 - Genetic and functional interaction between Ryh1 and Ypt3: two Rab GTPases that function in S. pombe secretory pathway.
He Y et al. Genes Cells 2006 Mar;11(3):207-21
PMID:41335110 - High-resolution mapping of the actin fusion focus reveals myosin V-dependent formin transport for aster formation.
Thomas V et al. J Cell Biol 2026 Feb 02;225(2)
PMID:24763107 - Absolute proteome and phosphoproteome dynamics during the cell cycle of Schizosaccharomyces pombe (Fission Yeast).
Carpy A et al. Mol Cell Proteomics 2014 Aug;13(8):1925-36
PMID:17287531 - Valproic acid affects membrane trafficking and cell-wall integrity in fission yeast.
Miyatake M et al. Genetics 2007 Apr;175(4):1695-705
PMID:29996109 - Quantitative Phosphoproteomics Reveals the Signaling Dynamics of Cell-Cycle Kinases in the Fission Yeast Schizosaccharomyces pombe.
Swaffer MP et al. Cell Rep 2018 Jul 10;24(2):503-514
PMID:39367033 - Quantitative proteomics and phosphoproteomics profiling of meiotic divisions in the fission yeast Schizosaccharomyces pombe.
Sivakova B et al. Sci Rep 2024 Oct 04;14(1):23105
PMID:20473289 - Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.
Kim DU et al. Nat Biotechnol 2010 Jun;28(6):617-623
PMID:21035342 - Rab-family GTPase regulates TOR complex 2 signaling in fission yeast.
Tatebe H et al. Curr Biol 2010 Nov 23;20(22):1975-82
PMID:16980382 - Genetic evidence for phospholipid-mediated regulation of the Rab GDP-dissociation inhibitor in fission yeast.
Ma Y et al. Genetics 2006 Nov;174(3):1259-71
PMID:25720772 - Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1.
Kettenbach AN et al. Mol Cell Proteomics 2015 May;14(5):1275-87
PMID:12161753 - The transcriptional program of meiosis and sporulation in fission yeast.
Mata J et al. Nat Genet 2002 Sep;32(1):143-7
PMID:16823372 - ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe.
Matsuyama A et al. Nat Biotechnol 2006 Jul;24(7):841-7
PMID:34382996 - Ultrastructural plasma membrane asymmetries in tension and curvature promote yeast cell fusion.
Muriel O et al. J Cell Biol 2021 Oct 04;220(10)
PMID:27020743 - Local Pheromone Release from Dynamic Polarity Sites Underlies Cell-Cell Pairing during Yeast Mating.
Merlini L et al. Curr Biol 2016 Apr 25;26(8):1117-25
PMID:12181359 - Role of the Rab GTP-binding protein Ypt3 in the fission yeast exocytic pathway and its connection to calcineurin function.
Cheng H et al. Mol Biol Cell 2002 Aug;13(8):2963-76
PMID:34910579 - Involvement of Smi1 in cell wall integrity and glucan synthase Bgs4 localization during fission yeast cytokinesis.
Longo LVG et al. Mol Biol Cell 2022 Feb 01;33(2):ar17
PMID:41171630 - Septins function in exocytosis via physical interactions with the exocyst complex in fission yeast cytokinesis.
Singh D et al. Elife 2025 Oct 31;13
PMID:26412298 - A Degenerate Cohort of Yeast Membrane Trafficking DUBs Mediates Cell Polarity and Survival.
Beckley JR et al. Mol Cell Proteomics 2015 Dec;14(12):3132-41