protein coding gene - pcf1 (SPBC29A10.03c) - histone H3-H4 chaperone, CAF assembly factor (CAF-1) complex subunit A Pcf1

Gene summary

Standard name: pcf1
Systematic ID: SPBC29A10.03c
Product: histone H3-H4 chaperone, CAF assembly factor (CAF-1) complex subunit A Pcf1
Organism: Schizosaccharomyces pombe (fission yeast)
Synonyms: rlf2, SPBC365.19c
UniProt ID: Q1MTN9
ORFeome ID: 26/26B02
Characterisation status: biological role published
Feature type: mRNA gene
Genomic location: chromosome II: 2538128..2539984 reverse strand

Annotation

GO biological process

GO:0140861 - DNA repair-dependent chromatin remodeling

References:

GO_REF:0000111

GO:0006335 - DNA replication-dependent chromatin assembly

References:

GO:1990426 - mitotic recombination-dependent replication fork processing

References:

PMID:25313826

GO cellular component

GO:0033186 - CAF-1 complex

References:

PMID:18761674

GO:0000785 - chromatin

References:

GO:0043596 - nuclear replication fork

References:

PMID:18761674

GO:0005634 - nucleus

References:

GO molecular function

GO:0000510 - H3-H4 histone complex chaperone activity

References:

PMID:38376141

Modification

MOD:00046 - O-phospho-L-serine

References:

PMID:30726745

Multi-locus phenotype

FYPO:0000278 - decreased cell population growth following spore germination

References:

PMID:38376141

Genotypes:

hip1delta pcf1-ED*(Y340A,W348A aa)

FYPO:0001355 - decreased vegetative cell population growth

References:

PMID:34580178

Genotypes:

abo1delta pcf1-I213-fs(214-544 Δaa)

FYPO:0002151 - inviable spore

References:

PMID:31584934

Genotypes:

hip1delta pcf1delta

FYPO:0002150 - inviable spore population

References:

PMID:38376141

Genotypes:

FYPO:0003587 - loss of gross chromosomal rearrangement during replication fork processing

References:

PMID:25313826

Genotypes:

pcf1delta rqh1delta

FYPO:0001357 - normal vegetative cell population growth

References:

PMID:18761674

Genotypes:

FYPO:0000085 - sensitive to camptothecin

References:

PMID:31584934

Genotypes:

pcf1delta rqh1delta

FYPO:0000088 - sensitive to hydroxyurea

References:

PMID:24478943

Genotypes:

clr6-1(G269D aa) pcf1delta

FYPO:0000089 - sensitive to methyl methanesulfonate

References:

Genotypes:

Qualitative gene expression

PomGeneEx:0000019 - protein level decreased

References:

PMID:39367033

Quantitative gene expression

PBO:0006310 - protein level

References:

PMID:24763107

PBO:0011963 - RNA level

References:

PMID:23101633

Single locus phenotype

FYPO:0001352 - abnormal chromatin organization during vegetative growth

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0002346 - abnormal chromatin silencing at centromere outer repeat

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0007160 - abnormal DNA replication-dependent nucleosome assembly

References:

Genotypes:

FYPO:0000705 - abolished protein-protein interaction

References:

Genotypes:

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

References:

PMID:24478943

Genotypes:

pcf1+(wild type)[Overexpression]

FYPO:0009053 - decreased cell population growth on glutamate nitrogen source

References:

PMID:37787768

Genotypes:

pcf1delta

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

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0009092 - decreased cell population growth on lysine and serine nitrogen source

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0009073 - decreased cell population growth on lysine nitrogen source

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0000250 - decreased cell population growth on proline nitrogen source

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0007562 - decreased cell population growth on serine nitrogen source

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0003412 - decreased chromatin silencing at centromere outer repeat

References:

PMID:38376141

Genotypes:

FYPO:0002827 - decreased chromatin silencing at silent mating-type cassette

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0006920 - decreased DNA recombination at mitotic DNA replication fork barriers

References:

PMID:31584934

Genotypes:

pcf1delta

FYPO:0005018 - decreased double-stranded DNA binding

References:

PMID:38376141

Genotypes:

pcf1-KER*(R147E,K150E,K154E,R161E,K168E aa)

FYPO:0005093 - decreased duration of protein phosphorylation during cellular response to hydroxyurea

References:

PMID:24478943

Genotypes:

pcf1delta

FYPO:0005094 - decreased duration of S-phase DNA damage checkpoint during cellular response to hydroxyurea

References:

PMID:24478943

Genotypes:

pcf1delta

FYPO:0007478 - decreased epigenetic heterochromatin inheritance

References:

PMID:29899117

Genotypes:

pcf1delta

FYPO:0007158 - decreased histone H3 binding

References:

PMID:38376141

Genotypes:

pcf1-ED*(Y340A,W348A aa)

FYPO:0003096 - decreased histone H3-K9 methylation at centromere outer repeat during vegetative growth

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0003571 - decreased histone H3-K9 methylation at silent mating-type cassette during vegetative growth

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0007159 - decreased histone H4 binding

References:

PMID:38376141

Genotypes:

pcf1-ED*(Y340A,W348A aa)

FYPO:0000708 - decreased mating efficiency

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0000470 - decreased mating type switching

References:

PMID:29852001

Genotypes:

pcf1delta

FYPO:0001324 - decreased protein level during vegetative growth

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0003573 - decreased protein localization to heterochromatin at silent mating-type cassette

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0005338 - decreased protein localization to nucleus during cellular response to hydroxyurea

References:

PMID:24478943

Genotypes:

pcf1delta

FYPO:0001514 - decreased protein localization to nucleus during vegetative growth

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0002386 - decreased protein localization to pericentric heterochromatin at centromere outer repeat region

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0001645 - decreased protein-protein interaction

References:

PMID:25313826

Genotypes:

pcf1-PIPmut(Q172A,L175A,F178A,F179A aa)

FYPO:0002624 - decreased punctate nuclear protein localization

References:

Genotypes:

FYPO:0004709 - increased number of Rad52 foci

References:

PMID:38376141

Genotypes:

FYPO:0005339 - increased protein localization to nucleus during cellular response to hydroxyurea

References:

PMID:24478943

Genotypes:

pcf1+(wild type)[Overexpression]

FYPO:0001571 - increased protein-protein interaction

References:

PMID:38376141

Genotypes:

pcf1-ED*(Y340A,W348A aa)

FYPO:0005116 - increased punctate nuclear protein localization

References:

PMID:38376141

Genotypes:

pcf1-ED*(Y340A,W348A aa)

FYPO:0004026 - loss of template switch-mediated chromosomal rearrangement during replication fork processing

References:

PMID:25313826

Genotypes:

FYPO:0006518 - loss of viability in G0

References:

PMID:33260998

Genotypes:

pcf1delta

FYPO:0001000 - normal cell cycle arrest in mitotic G1 phase during nitrogen starvation

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0004742 - normal chromatin silencing at centromere outer repeat

References:

PMID:38376141

Genotypes:

pcf1-deltaWHD(478-544 Δaa)

FYPO:0003555 - normal chromatin silencing at subtelomere

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0007542 - normal double-stranded DNA binding

References:

PMID:38376141

Genotypes:

pcf1-deltaWHD(478-544 Δaa)

FYPO:0007479 - normal epigenetic heterochromatin inheritance

References:

PMID:39094570

Genotypes:

pcf1delta

FYPO:0007553 - normal G1 to G0 transition

References:

PMID:33260998

Genotypes:

pcf1delta

FYPO:0000969 - normal growth during cellular response to UV

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0003906 - normal growth on bleomycin

References:

PMID:31584934

Genotypes:

pcf1delta

FYPO:0001690 - normal growth on camptothecin

References:

PMID:31584934

Genotypes:

pcf1delta

FYPO:0001164 - normal growth on glucose carbon source

References:

PMID:24478943

Genotypes:

pcf1delta

FYPO:0000963 - normal growth on hydroxyurea

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0000957 - normal growth on methyl methanesulfonate

References:

Genotypes:

pcf1delta

FYPO:0008272 - normal histone H3 binding

References:

PMID:38376141

Genotypes:

pcf1-KER*(R147E,K150E,K154E,R161E,K168E aa)

FYPO:0003574 - normal histone H3-K14 acetylation at centromere outer repeat during vegetative growth

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0003575 - normal histone H3-K9 acetylation at centromere outer repeat during vegetative growth

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0008273 - normal histone H4 binding

References:

PMID:38376141

Genotypes:

pcf1-KER*(R147E,K150E,K154E,R161E,K168E aa)

FYPO:0005340 - normal histone H4 deacetylation during cellular response to hydroxyurea

References:

PMID:24478943

Genotypes:

pcf1delta

FYPO:0000478 - normal meiosis

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0003246 - normal mitotic S phase progression

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0007328 - normal number of Rad52 foci during vegetative growth

References:

PMID:38376141

Genotypes:

pcf1-deltaWHD(478-544 Δaa)

FYPO:0000833 - normal protein level during vegetative growth

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0003576 - normal protein localization to subtelomeric heterochromatin

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0000776 - normal protein phosphorylation during vegetative growth

References:

PMID:24478943

Genotypes:

pcf1+(wild type)[Overexpression]

FYPO:0000703 - normal protein-protein interaction

References:

Genotypes:

FYPO:0004910 - normal punctate nuclear protein localization

References:

PMID:38376141

Genotypes:

pcf1-deltaWHD(478-544 Δaa)

FYPO:0001357 - normal vegetative cell population growth

References:

PMID:18761674

Genotypes:

pcf1delta

FYPO:0000763 - resistance to cadmium

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0002693 - resistance to diamide

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0009038 - resistance to egtazic acid

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0009034 - resistance to ethylenediaminetetraacetic acid

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0009043 - resistance to potassium chloride and sodium dodecyl sulfate

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0003383 - resistance to tert-butyl hydroperoxide

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0007933 - sensitive to 2,2′-dipyridyl

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0001097 - sensitive to amitrole

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0009067 - sensitive to amorolfine

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0009069 - sensitive to ciclopirox olamine

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0000088 - sensitive to hydroxyurea

References:

PMID:24478943

Genotypes:

pcf1delta

FYPO:0000089 - sensitive to methyl methanesulfonate

References:

PMID:37787768

Genotypes:

pcf1delta

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

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0002328 - sensitive to terbinafine

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0003656 - sensitive to vanadate

References:

PMID:37787768

Genotypes:

pcf1delta

FYPO:0002060 - viable vegetative cell population

References:

Genotypes:

pcf1delta

FYPO:0002177 - viable vegetative cell with normal cell morphology

References:

PMID:23697806

Genotypes:

pcf1delta

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
PF21796	Cac1_C	Cac1-like_C	PFAM
PF12253	CAF1A_dimeriz	CAF1A_DD	PFAM
PTHR15272	CHROMATIN ASSEMBLY FACTOR 1 SUBUNIT A CAF-1 SUBUNIT A		PANTHER
Coil	Coil		COILS
mobidb-lite-Disorder	disorder_prediction		MOBIDB-Disorder
mobidb-lite-Low-complexity	disorder_prediction		MOBIDB-Low-complexity
mobidb-lite-Negative-Polyelectrolyte	disorder_prediction		MOBIDB-Negative-Polyelectrolyte
mobidb-lite-Polar	disorder_prediction		MOBIDB-Polar
mobidb-lite-Polyampholyte	disorder_prediction		MOBIDB-Polyampholyte

Orthologs

CHAF1A (HGNC:1910) Homo sapiens
pcf1 (SJAG_04272) Schizosaccharomyces japonicus
RLF2 (YPR018W) Saccharomyces cerevisiae

References / Literature

PMID:31584934 - Histone deposition promotes recombination-dependent replication at arrested forks.: Hardy J et al. PLoS Genet 2019 Oct;15(10):e1008441
PMID:39094570 - A replisome-associated histone H3-H4 chaperone required for epigenetic inheritance.: Yu J et al. Cell 2024 Sep 05;187(18):5010-5028.e24
PMID:24478943 - Pcf1, a large subunit of CAF-1, required for maintenance of checkpoint kinase Cds1 activity.: Kunoh T et al. Springerplus 2014;3:30
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: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:29899117 - Ccp1 modulates epigenetic stability at centromeres and affects heterochromatin distribution in Schizosaccharomyces pombe .: Lu M et al. J Biol Chem 2018 Aug 03;293(31):12068-12080
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:38376141 - Disordered regions and folded modules in CAF-1 promote histone deposition in Schizosaccharomyces pombe .: Ouasti F et al. Elife 2024 Feb 20;12
PMID:21511999 - Comparative functional genomics of the fission yeasts.: Rhind N et al. Science 2011 May 20;332(6032):930-6
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:19547744 - Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species.: Beltrao P et al. PLoS Biol 2009 Jun 16;7(6):e1000134
PMID:18761674 - Fission yeast chromatin assembly factor 1 assists in the replication-coupled maintenance of heterochromatin.: Dohke K et al. Genes Cells 2008 Oct;13(10):1027-43
PMID:25313826 - The chromatin assembly factor 1 promotes Rad51-dependent template switches at replication forks by counteracting D-loop disassembly by the RecQ-type helicase Rqh1.: Pietrobon V et al. PLoS Biol 2014 Oct;12(10):e1001968
PMID:29852001 - New insights into donor directionality of mating-type switching in Schizosaccharomyces pombe.: Maki T et al. PLoS Genet 2018 May;14(5):e1007424
PMID:26771498 - A Proteome-wide Fission Yeast Interactome Reveals Network Evolution Principles from Yeasts to Human.: Vo TV et al. Cell 2016 Jan 14;164(1-2):310-323
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:21211723 - Asf1/HIRA facilitate global histone deacetylation and associate with HP1 to promote nucleosome occupancy at heterochromatic loci.: Yamane K et al. Mol Cell 2011 Jan 07;41(1):56-66
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: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:37787768 - Broad functional profiling of fission yeast proteins using phenomics and machine learning.: Rodríguez-López M et al. Elife 2023 Oct 03;12
PMID:33260998 - High-Throughput Flow Cytometry Combined with Genetic Analysis Brings New Insights into the Understanding of Chromatin Regulation of Cellular Quiescence.: Zahedi Y et al. Int J Mol Sci 2020 Nov 27;21(23)
PMID:34580178 - ATAD2 controls chromatin-bound HIRA turnover.: Wang T et al. Life Sci Alliance 2021 Dec;4(12)
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:29967244 - Histone Chaperone Asf1 Is Required for the Establishment of Repressive Chromatin in Schizosaccharomyces pombe fbp1 Gene Repression.: Umeda M et al. Mol Cell Biol 2018 Sep 15;38(18)