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protein coding gene - cdm1 (SPBC12D12.02c) - DNA polymerase delta subunit Cdm1

Gene summary

Standard name
cdm1
Systematic ID
SPBC12D12.02c
Product
DNA polymerase delta subunit Cdm1
Organism
Schizosaccharomyces pombe (fission yeast)
UniProt ID
O59835
ORFeome ID
31/31D12
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome II: 2305691..2306373 reverse strand

Annotation

Comment

PBO:0017749 - DNA polymerase delta 3'-5' exonuclease-to-polymerase ratio is about 1:30

References:

PBO:0017750 - DNA polymerase delta exists predominantly as a dimer of the heterotetramer (Pol3, Cdc1, Cdc27, and Cdm1)

References:

PBO:0017748 - DNA polymerase delta nucleotide misincorporation rate 4.5-5.3x10^-4

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GO biological process

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

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GO:1904161 - DNA synthesis involved in UV-damage excision repair

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GO:1903459 - mitotic DNA replication lagging strand elongation

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GO cellular component

GO:0005829 - cytosol

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GO:0043625 - delta DNA polymerase complex

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GO:0005634 - nucleus

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GO molecular function

GO:0008408 - 3'-5' exonuclease activity

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GO:0003887 - DNA-directed DNA polymerase activity

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Modification

MOD:00046 - O-phospho-L-serine

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MOD:01148 - ubiquitinylated lysine

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Multi-locus phenotype

FYPO:0001532 - normal duration of mitotic S phase

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Genotypes:

FYPO:0004629 - normal mitotic DNA replication

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Genotypes:

FYPO:0001357 - normal vegetative cell population growth

References:

Genotypes:

FYPO:0002060 - viable vegetative cell population

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Genotypes:

FYPO:0002177 - viable vegetative cell with normal cell morphology

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Genotypes:

Qualitative gene expression

PomGeneEx:0000018 - protein level increased

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PomGeneEx:0000011 - RNA level increased

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Quantitative gene expression

PBO:0011963 - RNA level

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Single locus phenotype

FYPO:0000251 - decreased cell population growth on galactose 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:0009073 - decreased cell population growth on lysine nitrogen source

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Genotypes:

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

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Genotypes:

FYPO:0006518 - loss of viability in G0

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Genotypes:

FYPO:0007553 - normal G1 to G0 transition

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Genotypes:

FYPO:0000969 - normal growth during cellular response to UV

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Genotypes:

FYPO:0003906 - normal growth on bleomycin

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Genotypes:

FYPO:0000963 - normal growth on hydroxyurea

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Genotypes:

FYPO:0000957 - normal growth on methyl methanesulfonate

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Genotypes:

FYPO:0001357 - normal vegetative cell population growth

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Genotypes:

FYPO:0007921 - sensitive to benzamidine

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Genotypes:

FYPO:0000096 - sensitive to cadmium

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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:0007931 - sensitive to egtazic acid

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Genotypes:

FYPO:0000842 - sensitive to ethanol during vegetative growth

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Genotypes:

FYPO:0000087 - sensitive to hydrogen peroxide

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Genotypes:

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

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Genotypes:

FYPO:0000111 - sensitive to rapamycin

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Genotypes:

FYPO:0000797 - sensitive to tert-butyl hydroperoxide

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Genotypes:

FYPO:0000115 - sensitive to valproic acid

References:

Genotypes:

FYPO:0002060 - viable vegetative cell population

References:

Genotypes:

FYPO:0002177 - viable vegetative cell with normal cell morphology

References:

Genotypes:

Subunit composition

PBO:0017751 - heteromeric(4)

References:

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:0000055 - no apparent S. cerevisiae ortholog

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

Protein features

IDNameInterPro nameDB name
PF04081DNA_pol_delta_4DNA_pol_delta_4Pfam
PTHR14303DNA_pol_delta_4PANTHER
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Polardisorder_predictionMobiDB-Polar

Orthologs

References / Literature

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: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: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: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:25076038 - Large scale screening of genetic interaction with sgf73(+) in fission yeast.
Guo Y et al. Yi Chuan 2014 Jul;36(7):723-31
PMID:33796794 - Increased expression of Polδ does not alter the canonical replication program in vivo .
Zach R et al. Wellcome Open Res 2021;6:44
PMID:32282918 - Genetic interactions and transcriptomics implicate fission yeast CTD prolyl isomerase Pin1 as an agent of RNA 3' processing and transcription termination that functions via its effects on CTD phosphatase Ssu72.
Sanchez AM et al. Nucleic Acids Res 2020 May 21;48(9):4811-4826
PMID:8887553 - The fission yeast Cdc1 protein, a homologue of the small subunit of DNA polymerase delta, binds to Pol3 and Cdc27.
MacNeill SA et al. EMBO J 1996 Sep 02;15(17):4613-28
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:10671561 - Structure and activity associated with multiple forms of Schizosaccharomyces pombe DNA polymerase delta.
Zuo S et al. J Biol Chem 2000 Feb 18;275(7):5153-62
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: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: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:12161753 - The transcriptional program of meiosis and sporulation in fission yeast.
Mata J et al. Nat Genet 2002 Sep;32(1):143-7
PMID:18818364 - Conservation and rewiring of functional modules revealed by an epistasis map in fission yeast.
Roguev A et al. Science 2008 Oct 17;322(5900):405-10
PMID:29432178 - General amino acid control in fission yeast is regulated by a nonconserved transcription factor, with functions analogous to Gcn4/Atf4.
Duncan CDS et al. Proc Natl Acad Sci U S A 2018 Feb 20;115(8):E1829-E1838
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:9326594 - DNA polymerase delta isolated from Schizosaccharomyces pombe contains five subunits.
Zuo S et al. Proc Natl Acad Sci U S A 1997 Oct 14;94(21):11244-9
PMID:9799358 - Cdm1, the smallest subunit of DNA polymerase d in the fission yeast Schizosaccharomyces pombe, is non-essential for growth and division.
Reynolds N et al. Curr Genet 1998 Oct;34(4):250-8
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:31626996 - Multiplexed proteome profiling of carbon source perturbations in two yeast species with SL-SP3-TMT.
Paulo JA et al. J Proteomics 2020 Jan 06;210:103531
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:22681890 - Hierarchical modularity and the evolution of genetic interactomes across species.
Ryan CJ et al. Mol Cell 2012 Jun 08;46(5):691-704
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:12124382 - The influence of the Cdc27 subunit on the properties of the Schizosaccharomyces pombe DNA polymerase delta.
Bermudez VP et al. J Biol Chem 2002 Sep 27;277(39):36853-62
PMID:37970674 - SUMOylation regulates Lem2 function in centromere clustering and silencing.
Strachan J et al. J Cell Sci 2023 Dec 01;136(23)