PomBase home

protein coding gene - alp5 (SPBP23A10.08) - Ino80, NuA4 and Swr1 complex actin-like protein Arp4

Gene summary

Standard name
alp5
Systematic ID
SPBP23A10.08
Product
Ino80, NuA4 and Swr1 complex actin-like protein Arp4
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
arp4
UniProt ID
Q9P7X7
ORFeome ID
22/22F05
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome II: 2012999..2015005 forward strand

Annotation

Comment

PBO:0001051 - proteome hyperlink

References:

Disease association

MONDO:0032768 - developmental and epileptic encephalopathy, 76

References:

MONDO:0032770 - intellectual developmental disorder with severe speech and ambulation defects

References:

MONDO:0060596 - neurodevelopmental disorder with dysmorphic facies and distal limb anomalies

References:

MONDO:0018614 - undetermined early-onset epileptic encephalopathy

References:

GO biological process

GO:0006338 - chromatin remodeling

References:

GO:0140861 - DNA repair-dependent chromatin remodeling

References:

GO:0006357 - regulation of transcription by RNA polymerase II

References:

GO:0045815 - transcription initiation-coupled chromatin remodeling

References:

GO cellular component

GO:0043189 - H4/H2A histone acetyltransferase complex

References:

GO:0031011 - Ino80 complex

References:

GO:0035267 - NuA4 histone acetyltransferase complex

References:

GO:0005634 - nucleus

References:

GO:0000812 - Swr1 complex

References:

GO molecular function

GO:0003682 - chromatin binding

References:

Modification

MOD:01149 - sumoylated lysine

References:

Multi-locus phenotype

FYPO:0004318 - abolished mitotic spindle assembly checkpoint

References:

Genotypes:

FYPO:0002638 - increased activation of mitotic spindle assembly checkpoint

References:

Genotypes:

FYPO:0001513 - normal mitotic sister chromatid segregation

References:

Genotypes:

FYPO:0003241 - unequal mitotic sister chromatid segregation

References:

Genotypes:

Qualitative gene expression

PomGeneEx:0000011 - RNA level increased

References:

Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

References:

Single locus phenotype

FYPO:0000640 - abnormal chromatin silencing at centromere central core

References:

Genotypes:

FYPO:0003738 - abnormal mitotic cell cycle arrest with condensed chromosomes

References:

Genotypes:

FYPO:0000326 - abnormal mitotic sister chromatid biorientation

References:

Genotypes:

FYPO:0000141 - abnormal mitotic sister chromatid segregation

References:

Genotypes:

FYPO:0004700 - bent vegetative cell

References:

Genotypes:

FYPO:0005014 - decreased histone H4-K12 acetylation during vegetative growth

References:

Genotypes:

FYPO:0005012 - decreased histone H4-K5 acetylation during vegetative growth

References:

Genotypes:

FYPO:0005013 - decreased histone H4-K8 acetylation during vegetative growth

References:

Genotypes:

FYPO:0002638 - increased activation of mitotic spindle assembly checkpoint

References:

Genotypes:

FYPO:0001837 - increased duration of protein localization to mitotic spindle pole body

References:

Genotypes:

FYPO:0001840 - increased minichromosome loss during vegetative growth

References:

Genotypes:

FYPO:0002430 - inviable after spore germination, multiple cell divisions

References:

Genotypes:

FYPO:0004626 - inviable curved elongated mononucleate vegetative cell

References:

Genotypes:

FYPO:0002113 - inviable curved vegetative cell

References:

Genotypes:

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

FYPO:0001511 - inviable vegetative cell, abnormal cell shape, normal cell size

References:

Genotypes:

FYPO:0004742 - normal chromatin silencing at centromere outer repeat

References:

Genotypes:

FYPO:0003224 - normal histone H3-K14 acetylation during vegetative growth

References:

Genotypes:

FYPO:0003223 - normal histone H3-K9 acetylation during vegetative growth

References:

Genotypes:

FYPO:0002901 - normal protein localization to kinetochore during vegetative growth

References:

Genotypes:

FYPO:0000327 - resistance to trichostatin A

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

Protein features

IDNameInterPro nameDB name
PF00022ActinActinPFAM
cd13395ASKHA_NBD_Arp4_ACTL6-likeCDD
PS00432ACTINS_2Actin_CSPROSITE_PATTERNS
SM00268actin_3ActinSMART
G3DSA:3.30.420.40:FF:000289FUNFAM
G3DSA:3.30.420.40:FF:000058FUNFAM
G3DSA:3.30.420.40:FF:000184FUNFAM
SSF53067Actin-like ATPase domainATPase_NBDSUPERFAMILY
G3DSA:3.30.420.40GENE3D
G3DSA:3.90.640.10Actin; Chain A, domain 4GENE3D
PTHR11937ACTINActinPANTHER
mobidb-lite-Disorderdisorder_predictionMOBIDB-Disorder
mobidb-lite-Polardisorder_predictionMOBIDB-Polar

Orthologs

References / Literature

PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs
PMID:31748520 - Chaperone-mediated ordered assembly of the SAGA and NuA4 transcription co-activator complexes in yeast.
Elías-Villalobos A et al. Nat Commun 2019 Nov 20;10(1):5237
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
PB_REF:0000003 - Disease Association Curation
PMID:19693008 - Histone H2A.Z cooperates with RNAi and heterochromatin factors to suppress antisense RNAs.
Zofall M et al. Nature 2009 Sep 17;461(7262):419-22
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:38269097 - Rapamycin-sensitive mechanisms confine the growth of fission yeast below the temperatures detrimental to cell physiology.
Morozumi Y et al. iScience 2024 Jan 19;27(1):108777
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:31474649 - Identification of 15 New Bypassable Essential Genes of Fission Yeast.
Takeda A et al. Cell Struct Funct 2019 Sep 27;44(2):113-119
PMID:20118936 - Schizosaccharomyces pombe genome-wide nucleosome mapping reveals positioning mechanisms distinct from those of Saccharomyces cerevisiae.
Lantermann AB et al. Nat Struct Mol Biol 2010 Feb;17(2):251-7
PMID:33468217 - Rbm10 facilitates heterochromatin assembly via the Clr6 HDAC complex.
Weigt M et al. Epigenetics Chromatin 2021 Jan 19;14(1):8
PMID:19915592 - An acetylated form of histone H2A.Z regulates chromosome architecture in Schizosaccharomyces pombe.
Kim HS et al. Nat Struct Mol Biol 2009 Dec;16(12):1286-93
PMID:19040720 - Chromatin Central: towards the comparative proteome by accurate mapping of the yeast proteomic environment.
Shevchenko A et al. Genome Biol 2008;9(11):R167
PMID:19933844 - Fission yeast Iec1-ino80-mediated nucleosome eviction regulates nucleotide and phosphate metabolism.
Hogan CJ et al. Mol Cell Biol 2010 Feb;30(3):657-74
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:19910462 - Histone variant H2A.Z regulates centromere silencing and chromosome segregation in fission yeast.
Hou H et al. J Biol Chem 2010 Jan 15;285(3):1909-18
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:19911051 - The Schizosaccharomyces pombe JmjC-protein, Msc1, prevents H2A.Z localization in centromeric and subtelomeric chromatin domains.
Buchanan L et al. PLoS Genet 2009 Nov;5(11):e1000726
PMID:15483052 - BAF53/Arp4 homolog Alp5 in fission yeast is required for histone H4 acetylation, kinetochore-spindle attachment, and gene silencing at centromere.
Minoda A et al. Mol Biol Cell 2005 Jan;16(1):316-27
PMID:26537787 - Targeting of SUMO substrates to a Cdc48-Ufd1-Npl4 segregase and STUbL pathway in fission yeast.
Køhler JB et al. Nat Commun 2015 Nov 05;6:8827
PMID:33378674 - The INO80 Complex Regulates Epigenetic Inheritance of Heterochromatin.
Shan CM et al. Cell Rep 2020 Dec 29;33(13):108561
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:9658169 - Identification of novel temperature-sensitive lethal alleles in essential beta-tubulin and nonessential alpha 2-tubulin genes as fission yeast polarity mutants.
Radcliffe P et al. Mol Biol Cell 1998 Jul;9(7):1757-71
PMID:22144913 - Widespread cotranslational formation of protein complexes.
Duncan CD et al. PLoS Genet 2011 Dec;7(12):e1002398
PMID:30134042 - The INO80 complex activates the transcription of S-phase genes in a cell cycle-regulated manner.
Knezevic I et al. FEBS J 2018 Oct;285(20):3870-3881
PMID:19443688 - Diverse roles of HP1 proteins in heterochromatin assembly and functions in fission yeast.
Fischer T et al. Proc Natl Acad Sci U S A 2009 Jun 02;106(22):8998-9003
PMID:40015273 - A comprehensive Schizosaccharomyces pombe atlas of physical transcription factor interactions with proteins and chromatin.
Skribbe M et al. Mol Cell 2025 Feb 19;
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:19111658 - HP1 proteins form distinct complexes and mediate heterochromatic gene silencing by nonoverlapping mechanisms.
Motamedi MR et al. Mol Cell 2008 Dec 26;32(6):778-90
GO_REF:0000111 - Gene Ontology annotations Inferred by Curator (IC) using at least one Inferred by Sequence Similarity (ISS) annotation to support the inference
PMID:21642955 - Tra1 has specific regulatory roles, rather than global functions, within the SAGA co-activator complex.
Helmlinger D et al. EMBO J 2011 Jun 03;30(14):2843-52