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protein coding gene - apl4 (SPCP1E11.06) - AP-1 adaptor complex gamma subunit Apl4

Gene summary

Standard name
apl4
Systematic ID
SPCP1E11.06
Product
AP-1 adaptor complex gamma subunit Apl4
Organism
Schizosaccharomyces pombe (fission yeast)
UniProt ID
Q9UU81
ORFeome ID
38/38E09
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome III: 2401997..2404803 forward strand

Annotation

Disease association

MONDO:0859174 - Usmani-Riazuddin syndrome, autosomal dominant

References:

MONDO:0859196 - Usmani-Riazuddin syndrome, autosomal recessive

References:

GO biological process

GO:0006886 - intracellular protein transport

References:

GO:0042147 - retrograde transport, endosome to Golgi

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GO cellular component

GO:0030121 - AP-1 adaptor complex

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GO:0005737 - cytoplasm

References:

GO:0005829 - cytosol

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GO:0005768 - endosome

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GO:0005794 - Golgi apparatus

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GO molecular function

GO:0030276 - clathrin binding

References:

GO:0035615 - clathrin-cargo adaptor activity

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Modification

MOD:00046 - O-phospho-L-serine

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MOD:00047 - O-phospho-L-threonine

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MOD:01148 - ubiquitinylated lysine

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Multi-locus phenotype

FYPO:0000082 - decreased cell population growth at high temperature

References:

Genotypes:

Protein features

PBO:0111787 - adaptin family

PBO:0111765 - HEAT repeat

Qualitative gene expression

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:0003625 - abnormal microtubule cytoskeleton morphology during mitotic interphase

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Genotypes:

FYPO:0002736 - abnormal mitotic cell cycle phase

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Genotypes:

FYPO:0001800 - abolished protein localization to cell tip, with protein distributed in plasma membrane or cortex

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Genotypes:

FYPO:0007588 - abolished protein localization to late endosome

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Genotypes:

FYPO:0002128 - abolished protein localization to plasma membrane, with protein mislocalized to cytoplasm, during vegetative growth

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Genotypes:

FYPO:0000082 - decreased cell population growth at high temperature

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Genotypes:

FYPO:0003743 - decreased cell population growth during glucose starvation

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Genotypes:

FYPO:0009078 - decreased cell population growth on ethanol carbon source

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Genotypes:

FYPO:0009100 - decreased cell population growth on glycerol and galactose carbon source

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Genotypes:

FYPO:0000684 - decreased cell population growth on glycerol carbon source

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Genotypes:

FYPO:0009091 - decreased cell population growth on lysine and proline nitrogen source

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Genotypes:

FYPO:0002924 - decreased cell population growth on maltose carbon source

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Genotypes:

FYPO:0009099 - decreased cell population growth on mannitol carbon source

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Genotypes:

FYPO:0001176 - decreased cell population growth on sucrose carbon source

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Genotypes:

FYPO:0009097 - decreased cell population growth on xylose carbon source

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Genotypes:

FYPO:0007059 - decreased protein localization to late endosome

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Genotypes:

FYPO:0009072 - increased cell population growth on lysine nitrogen source

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Genotypes:

FYPO:0009028 - increased cell population growth on proline nitrogen source

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Genotypes:

FYPO:0002273 - inviable vegetative cell with abnormal cell morphology

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Genotypes:

FYPO:0000233 - long cytoplasmic microtubules

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Genotypes:

FYPO:0000245 - loss of viability in stationary phase

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Genotypes:

FYPO:0002401 - microtubule bundles present in increased numbers

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Genotypes:

FYPO:0002619 - normal growth on sodium butyrate

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Genotypes:

FYPO:0002620 - normal growth on trichostatin A

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Genotypes:

FYPO:0000703 - normal protein-protein interaction

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Genotypes:

FYPO:0009036 - resistance to benzamidine

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Genotypes:

FYPO:0000077 - resistance to rapamycin

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Genotypes:

FYPO:0003595 - S-shaped cell

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Genotypes:

FYPO:0004325 - sensitive to 5-fluorouracil

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Genotypes:

FYPO:0009067 - sensitive to amorolfine

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Genotypes:

FYPO:0000095 - sensitive to bleomycin

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Genotypes:

FYPO:0001701 - sensitive to bortezomib

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Genotypes:

FYPO:0001501 - sensitive to brefeldin A

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Genotypes:

FYPO:0000097 - sensitive to caffeine during vegetative growth

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Genotypes:

FYPO:0009080 - sensitive to calcofluor and sodium dodecyl sulfate

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Genotypes:

FYPO:0000104 - sensitive to cycloheximide

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Genotypes:

FYPO:0000799 - sensitive to diamide

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Genotypes:

FYPO:0000842 - sensitive to ethanol during vegetative growth

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Genotypes:

FYPO:0007928 - sensitive to ethylenediaminetetraacetic acid

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Genotypes:

FYPO:0000785 - sensitive to formamide

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Genotypes:

FYPO:0007358 - sensitive to heavy water

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Genotypes:

FYPO:0000088 - sensitive to hydroxyurea

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Genotypes:

FYPO:0001719 - sensitive to lithium

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Genotypes:

FYPO:0009086 - sensitive to lithium chloride and sodium dodecyl sulfate

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Genotypes:

FYPO:0006836 - sensitive to magnesium chloride

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Genotypes:

FYPO:0009088 - sensitive to magnesium chloride and sodium dodecyl sulfate

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Genotypes:

FYPO:0000089 - sensitive to methyl methanesulfonate

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Genotypes:

FYPO:0001214 - sensitive to potassium chloride

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Genotypes:

FYPO:0007924 - sensitive to potassium chloride and sodium dodecyl sulfate

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Genotypes:

FYPO:0000086 - sensitive to tacrolimus

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Genotypes:

FYPO:0000797 - sensitive to tert-butyl hydroperoxide

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Genotypes:

FYPO:0002701 - sensitive to torin1

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Genotypes:

FYPO:0001457 - sensitive to tunicamycin

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Genotypes:

FYPO:0000115 - sensitive to valproic acid

References:

Genotypes:

FYPO:0003656 - sensitive to vanadate

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Genotypes:

FYPO:0000281 - small vacuoles present in increased numbers during vegetative growth

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Genotypes:

FYPO:0000024 - stubby vegetative cell

References:

Genotypes:

FYPO:0001492 - viable elongated vegetative cell

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Genotypes:

FYPO:0002060 - viable vegetative cell population

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Genotypes:

FYPO:0002197 - viable vegetative cell with abnormal cell shape

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Genotypes:

FYPO:0001510 - viable vegetative cell, abnormal cell shape, normal cell size

References:

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

PBO:0006222 - predominantly single copy (one to one)

Warnings

PBO:0000070 - gene structure updated

Protein features

IDNameInterPro nameDB name
PF01602Adaptin_NClathrin/coatomer_adapt-like_NPfam
PF02883Alpha_adaptinC2Clathrin_a/b/g-adaptin_app_IgPfam
PS50180GAEGAE_domPROSITE profiles
SM00809Alpha_adaptinC2Clathrin_a/b/g-adaptin_app_IgSMART
G3DSA:1.25.10.10:FF:000030CATH-FunFam
G3DSA:2.60.40.1230:FF:000008CATH-FunFam
G3DSA:1.25.10.10ARM-likeCATH-Gene3D
G3DSA:2.60.40.1230CATH-Gene3D
SSF48371ARM-type_foldSUPERFAMILY
SSF49348Clathrin_app_Ig-like_sfSUPERFAMILY
PTHR22780Adaptor_Complx_Large_SubunitPANTHER
PIRSF037094AP1_complex_gammaAP1_complex_gsuPIRSF
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Polardisorder_predictionMobiDB-Polar

Orthologs

References / Literature

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:24013502 - Epe1 recruits BET family bromodomain protein Bdf2 to establish heterochromatin boundaries.
Wang J et al. Genes Dev 2013 Sep 01;27(17):1886-902
PMID:37787768 - Broad functional profiling of fission yeast proteins using phenomics and machine learning.
Rodríguez-López M et al. Elife 2023 Oct 03;12
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: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: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:34250083 - Barcode sequencing and a high-throughput assay for chronological lifespan uncover ageing-associated genes in fission yeast.
Romila CA et al. Microb Cell 2021 Jul 05;8(7):146-160
GO_REF:0000108 - Automatic assignment of GO terms using logical inference, based on on inter-ontology links.
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:21850271 - Genome-wide screening for genes associated with FK506 sensitivity in fission yeast.
Ma Y et al. PLoS One 2011;6(8):e23422
GO_REF:0000024 - Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity.
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:28218250 - Chromatin remodeller Fun30 Fft3 induces nucleosome disassembly to facilitate RNA polymerase II elongation.
Lee J et al. Nat Commun 2017 Feb 20;8:14527
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:19624755 - Deletion mutants of AP-1 adaptin subunits display distinct phenotypes in fission yeast.
Ma Y et al. Genes Cells 2009 Aug;14(8):1015-28
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
PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs
PMID:23028933 - Sip1, a conserved AP-1 accessory protein, is important for Golgi/endosome trafficking in fission yeast.
Yu Y et al. PLoS One 2012;7(9):e45324
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: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: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
PMID:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.
Strachan J et al. J Cell Sci 2023 Dec 01;136(23)
PMID:34805795 - The fission yeast FLCN/FNIP complex augments TORC1 repression or activation in response to amino acid (AA) availability.
Calvo IA et al. iScience 2021 Nov 19;24(11):103338
PMID:30824696 - Systematic analysis reveals the prevalence and principles of bypassable gene essentiality.
Li J et al. Nat Commun 2019 Mar 01;10(1):1002
PMID:22194353 - Intracellular trafficking and ubiquitination of the Schizosaccharomyces pombe amino acid permease Aat1p.
Nakase M et al. Microbiology (Reading) 2012 Mar;158(Pt 3):659-673
GO_REF:0000111 - Gene Ontology annotations Inferred by Curator (IC) using at least one Inferred by Sequence Similarity (ISS) annotation to support the inference
GO_REF:0000002 - Comments
PMID:23297348 - Comprehensive proteomics analysis reveals new substrates and regulators of the fission yeast clp1/cdc14 phosphatase.
Chen JS et al. Mol Cell Proteomics 2013 May;12(5):1074-86
PMID:23861937 - Genome-wide screening for genes associated with valproic acid sensitivity in fission yeast.
Zhang L et al. PLoS One 2013;8(7):e68738
PMID:25373780 - A genomic Multiprocess survey of machineries that control and link cell shape, microtubule organization, and cell-cycle progression.
Graml V et al. Dev Cell 2014 Oct 27;31(2):227-239
PMID:21304827 - Role of the Small GTPase Rho3 in Golgi/Endosome trafficking through functional interaction with adaptin in Fission Yeast.
Kita A et al. PLoS One 2011 Feb 03;6(2):e16842
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:32142608 - Mutations in a Single Signaling Pathway Allow Cell Growth in Heavy Water.
Kampmeyer C et al. ACS Synth Biol 2020 Apr 17;9(4):733-748
PMID:17021256 - Noncore components of the fission yeast gamma-tubulin complex.
Anders A et al. Mol Biol Cell 2006 Dec;17(12):5075-93
PMID:23840894 - Sip1, an AP-1 accessory protein in fission yeast, is required for localization of Rho3 GTPase.
Yu Y et al. PLoS One 2013;8(7):e68488