protein coding gene - sof1 (SPBC1A4.07c) - small subunit processome, U3 snoRNP-associated protein Sof1

Gene summary

Standard name: sof1
Systematic ID: SPBC1A4.07c
Product: small subunit processome, U3 snoRNP-associated protein Sof1
Organism: Schizosaccharomyces pombe (fission yeast)
UniProt ID: O74340
ORFeome ID: 21/21B08
Characterisation status: biological role published
Feature type: mRNA gene
Genomic location: chromosome II: 1988498..1990369 reverse strand

Annotation

GO biological process

GO:0000462 - maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)

References:

GO_REF:0000033

GO cellular component

GO:0072686 - mitotic spindle

References:

PMID:16823372

GO:0005730 - nucleolus

References:

PMID:16823372

GO:0005634 - nucleus

References:

PMID:16823372

GO:0032040 - small-subunit processome

References:

PMID:36423630

GO molecular function

GO:0030515 - snoRNA binding

References:

GO_REF:0000024

Modification

MOD:01149 - sumoylated lysine

References:

PMID:26537787

MOD:01148 - ubiquitinylated lysine

References:

PMID:37970674

Protein features

PBO:0111751 - WD repeat protein

Qualitative gene expression

PomGeneEx:0000012 - RNA level decreased

References:

PMID:33313903

Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

References:

PMID:23101633

Single locus phenotype

FYPO:0000059 - abnormal mitotic cell cycle

References:

PMID:23697806

Genotypes:

sof1delta

FYPO:0002379 - inviable after spore germination, without cell division, with elongated germ tube

References:

PMID:23697806

Genotypes:

sof1delta

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

sof1delta

FYPO:0002273 - inviable vegetative cell with abnormal cell morphology

References:

PMID:23697806

Genotypes:

sof1delta

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)

Protein features

ID	Name	InterPro name	DB name
PF00400	WD40	WD40_rpt	PFAM
PF04158	Sof1	Sof1	PFAM
cd00200	WD40		CDD
PS50294	WD_REPEATS_REGION		PROSITE_PROFILES
PS50082	WD_REPEATS_2	WD40_rpt	PROSITE_PROFILES
SM00320	WD40_4	WD40_rpt	SMART
PR00320	GPROTEINBRPT	WD40_PAC1	PRINTS
G3DSA:2.130.10.10:FF:001105			FUNFAM
SSF50998	Quinoprotein alcohol dehydrogenase-like	Quinoprotein_ADH-like_sf	SUPERFAMILY
G3DSA:2.130.10.10		WD40/YVTN_repeat-like_dom_sf	GENE3D
PTHR22851	U3 SMALL NUCLEOLAR RNA U3 SNORNA ASSOCIATED PROTEIN	WD_repeat_DCAF13/WDSOF1	PANTHER
Coil	Coil		COILS
mobidb-lite-Disorder	disorder_prediction		MOBIDB-Disorder
mobidb-lite-Polyampholyte	disorder_prediction		MOBIDB-Polyampholyte

Orthologs

DCAF13 (HGNC:24535) Homo sapiens
sof1 (SJAG_03569) Schizosaccharomyces japonicus
SOF1 (YLL011W) Saccharomyces cerevisiae

References / Literature

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: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:19336419 - Cotranscriptional recruitment of the nuclear poly(A)-binding protein Pab2 to nascent transcripts and association with translating mRNPs.: Lemieux C et al. Nucleic Acids Res 2009 Jun;37(10):3418-30
PMID:24713849 - Post-transcriptional regulation of meiotic genes by a nuclear RNA silencing complex.: Egan ED et al. RNA 2014 Jun;20(6):867-81
PMID:21652630 - Characterization of Mug33 reveals complementary roles for actin cable-dependent transport and exocyst regulators in fission yeast exocytosis.: Snaith HA et al. J Cell Sci 2011 Jul 01;124(Pt 13):2187-99
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:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.: Strachan J et al. J Cell Sci 2023 Dec 01;136(23)
GO_REF:0000024 - Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity.
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:36423630 - Chromatin localization of nucleophosmin organizes ribosome biogenesis.: Ugolini I et al. Mol Cell 2022 Dec 01;82(23):4443-4457.e9
PMID:25375137 - Systematic analysis of the role of RNA-binding proteins in the regulation of RNA stability.: Hasan A et al. PLoS Genet 2014 Nov;10(11):e1004684
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:33313903 - Ribosome profiling reveals ribosome stalling on tryptophan codons and ribosome queuing upon oxidative stress in fission yeast.: Rubio A et al. Nucleic Acids Res 2021 Jan 11;49(1):383-399
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: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:21511999 - Comparative functional genomics of the fission yeasts.: Rhind N et al. Science 2011 May 20;332(6032):930-6
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:30321377 - Proteomic profiling and functional characterization of post-translational modifications of the fission yeast RNA exosome.: Telekawa C et al. Nucleic Acids Res 2018 Nov 30;46(21):11169-11183