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protein coding gene - rfc1 (SPBC23E6.07c) - DNA replication factor C complex subunit Rfc1

Gene summary

Standard name
rfc1
Systematic ID
SPBC23E6.07c
Product
DNA replication factor C complex subunit Rfc1
Organism
Schizosaccharomyces pombe (fission yeast)
UniProt ID
O60182
ORFeome ID
29/29G10
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome II: 3852657..3856022 reverse strand

Annotation

Disease association

MONDO:0044720 - cerebellar ataxia with neuropathy and bilateral vestibular areflexia syndrome

References:

GO biological process

GO:1902983 - DNA strand elongation involved in mitotic DNA replication

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GO:1903460 - mitotic DNA replication leading strand elongation

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GO:0070914 - UV-damage excision repair

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GO cellular component

GO:0000785 - chromatin

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GO:0043599 - nuclear DNA replication factor C complex

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GO:0005634 - nucleus

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GO molecular function

GO:0005524 - ATP binding

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GO:0016887 - ATP hydrolysis activity

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GO:0003682 - chromatin binding

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GO:0003677 - DNA binding

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GO:0003689 - DNA clamp loader 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:00696 - phosphorylated residue

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MOD:01149 - sumoylated lysine

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MOD:01148 - ubiquitinylated lysine

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Multi-locus phenotype

FYPO:0001407 - decreased cell population growth on glucose carbon source

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Genotypes:

FYPO:0001355 - decreased vegetative cell population growth

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Genotypes:

FYPO:0001490 - inviable elongated vegetative cell

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Genotypes:

FYPO:0002061 - inviable vegetative cell population

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Genotypes:

FYPO:0000674 - normal cell population growth at high temperature

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Genotypes:

FYPO:0000088 - sensitive to hydroxyurea

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Genotypes:

FYPO:0000089 - sensitive to methyl methanesulfonate

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Genotypes:

Protein features

PBO:0111792 - AAA family ATPase

PBO:0111779 - BRCT domain

Qualitative gene expression

PomGeneEx:0000012 - RNA level decreased

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Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

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Single locus phenotype

FYPO:0000611 - abnormal cell cycle arrest in mitotic S phase

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Genotypes:

FYPO:0000059 - abnormal mitotic cell cycle

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Genotypes:

FYPO:0004481 - abolished cell population growth at high temperature

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Genotypes:

FYPO:0005183 - abolished protein polyubiquitination during cellular response to UV

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Genotypes:

FYPO:0000082 - decreased cell population growth at high temperature

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Genotypes:

FYPO:0001407 - decreased cell population growth on glucose carbon source

References:

Genotypes:

FYPO:0005182 - decreased protein degradation during cellular response to UV

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Genotypes:

FYPO:0005194 - decreased protein degradation during mitotic S phase

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Genotypes:

FYPO:0000255 - increased nuclear protein level during vegetative growth

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Genotypes:

FYPO:0002148 - inviable after spore germination, multiple cell divisions, abnormal morphology

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Genotypes:

FYPO:0003529 - inviable after spore germination, multiple cell divisions, cell cycle arrest in mitotic interphase, elongated cells

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Genotypes:

FYPO:0002262 - inviable after spore germination, multiple cell divisions, elongated cell

References:

Genotypes:

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

FYPO:0001387 - loss of viability at high temperature

References:

Genotypes:

FYPO:0000088 - sensitive to hydroxyurea

References:

Genotypes:

FYPO:0000089 - sensitive to methyl methanesulfonate

References:

Genotypes:

FYPO:0002060 - viable vegetative cell population

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)

Protein features

IDNameInterPro nameDB name
PF00004AAAATPase_AAA_corePfam
PF00533BRCTBRCT_domPfam
PF08519RFC1DNA_replication_fac_RFC1_CPfam
PF25361AAA_lid_RFC1Pfam
cd00009AAACDD
cd17752BRCT_RFC1CDD
cd18140HLD_clamp_RFCRFC_lidCDD
PS50172BRCTBRCT_domPROSITE profiles
SM00292BRCTBRCT_domSMART
SM00382AAAAAA+_ATPaseSMART
G3DSA:1.10.8.60:FF:000021CATH-FunFam
G3DSA:1.20.272.10:FF:000005CATH-FunFam
G3DSA:3.40.50.10190:FF:000001CATH-FunFam
G3DSA:3.40.50.300:FF:000395CATH-FunFam
G3DSA:1.10.8.60CATH-Gene3D
G3DSA:1.20.272.10CATH-Gene3D
G3DSA:3.40.50.10190BRCT_dom_sfCATH-Gene3D
G3DSA:3.40.50.300P-loop_NTPaseCATH-Gene3D
SSF48019DNA_pol3_clamp-load_cplx_CSUPERFAMILY
SSF52113BRCT_dom_sfSUPERFAMILY
SSF52540P-loop_NTPaseSUPERFAMILY
PTHR23389PANTHER
PIRSF036578RFC1RFC1PIRSF
CoilCOILS
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Low-complexitydisorder_predictionMobiDB-Low-complexity
mobidb-lite-Negative-Polyelectrolytedisorder_predictionMobiDB-Negative-Polyelectrolyte
mobidb-lite-Polardisorder_predictionMobiDB-Polar
mobidb-lite-Polyampholytedisorder_predictionMobiDB-Polyampholyte
mobidb-lite-Positive-Polyelectrolytedisorder_predictionMobiDB-Positive-Polyelectrolyte

Orthologs

References / Literature

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: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:16040599 - Contrasting effects of Elg1-RFC and Ctf18-RFC inactivation in the absence of fully functional RFC in fission yeast.
Kim J et al. Nucleic Acids Res 2005;33(13):4078-89
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:27298342 - Identification of S-phase DNA damage-response targets in fission yeast reveals conservation of damage-response networks.
Willis NA et al. Proc Natl Acad Sci U S A 2016 Jun 28;113(26):E3676-85
PMID:26368543 - Critical Function of γH2A in S-Phase.
Mejia-Ramirez E et al. PLoS Genet 2015 Sep;11(9):e1005517
PMID:34706246 - Cross talk between the upstream exon-intron junction and Prp2 facilitates splicing of non-consensus introns.
Hümmer S et al. Cell Rep 2021 Oct 26;37(4):109893
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
GO_REF:0000024 - Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity.
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:0000002 - Comments
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: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:21493688 - Cdt1 proteolysis is promoted by dual PIP degrons and is modulated by PCNA ubiquitylation.
Guarino E et al. Nucleic Acids Res 2011 Aug;39(14):5978-90
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
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:19547744 - Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species.
Beltrao P et al. PLoS Biol 2009 Jun 16;7(6):e1000134
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
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:18257517 - Phosphoproteome analysis of fission yeast.
Wilson-Grady JT et al. J Proteome Res 2008 Mar;7(3):1088-97
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:11313455 - Fission yeast Rad17 associates with chromatin in response to aberrant genomic structures.
Kai M et al. Mol Cell Biol 2001 May;21(10):3289-301
PMID:10704216 - In vitro reconstitution of the Schizosaccharomyces pombe alternative excision repair pathway.
Alleva JL et al. Biochemistry 2000 Mar 14;39(10):2659-66
PMID:21712547 - Mitotic substrates of the kinase aurora with roles in chromatin regulation identified through quantitative phosphoproteomics of fission yeast.
Koch A et al. Sci Signal 2011 Jun 28;4(179):rs6
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:9891039 - Fission yeast cdc24 is a replication factor C- and proliferating cell nuclear antigen-interacting factor essential for S-phase completion.
Tanaka H et al. Mol Cell Biol 1999 Feb;19(2):1038-48
PMID:10748208 - Fidelity of eucaryotic DNA polymerase delta holoenzyme from Schizosaccharomyces pombe.
Chen X et al. J Biol Chem 2000 Jun 09;275(23):17677-82
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: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:0000006 - Disease associations from Monarch via human-pombe orthologs
GO_REF:0000051 - S. pombe keyword mapping
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: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: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: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