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protein coding gene - smc5 (SPAC14C4.02c) - Smc5-6 complex SMC P-loop ATPase subunit Smc5

Gene summary

Standard name
smc5
Systematic ID
SPAC14C4.02c
Product
Smc5-6 complex SMC P-loop ATPase subunit Smc5
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
spr18
UniProt ID
O13710
ORFeome ID
30/30C03
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome I: 5226179..5229793 reverse strand

Annotation

Disease association

MONDO:0859576 - Atelis syndrome 2

References:

GO biological process

GO:0000724 - double-strand break repair via homologous recombination

References:

GO cellular component

GO:0005634 - nucleus

References:

GO:0030915 - Smc5-Smc6 complex

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GO molecular function

GO:0016887 - ATP hydrolysis activity

References:

GO:0061776 - ATP-dependent topological DNA co-entrapment activity

References:

GO:0005515 - protein binding

References:

GO:0003697 - single-stranded DNA binding

References:

Modification

MOD:00046 - O-phospho-L-serine

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MOD:00048 - O4'-phospho-L-tyrosine

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MOD:00696 - phosphorylated residue

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MOD:01149 - sumoylated lysine

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Multi-locus phenotype

FYPO:0000705 - abolished protein-protein interaction

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Genotypes:

FYPO:0001645 - decreased protein-protein interaction

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Genotypes:

FYPO:0001355 - decreased vegetative cell population growth

References:

Genotypes:

FYPO:0000703 - normal protein-protein interaction

References:

Genotypes:

Protein features

PBO:0111821 - SMC family

Qualitative gene expression

PomGeneEx:0000019 - protein level decreased

References:

PomGeneEx:0000011 - RNA level increased

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Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

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Single locus phenotype

FYPO:0000059 - abnormal mitotic cell cycle

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Genotypes:

FYPO:0000705 - abolished protein-protein interaction

References:

Genotypes:

FYPO:0000082 - decreased cell population growth at high temperature

References:

Genotypes:

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

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Genotypes:

FYPO:0001645 - decreased protein-protein interaction

References:

Genotypes:

FYPO:0004385 - decreased single-stranded DNA binding

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Genotypes:

FYPO:0003760 - inviable after spore germination, single or double cell division, arrest with cut

References:

Genotypes:

FYPO:0002724 - inviable after spore germination, single or double cell division, elongated cell

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Genotypes:

FYPO:0004076 - inviable after spore germination, single or double cell division, elongated multiseptate cell

References:

Genotypes:

FYPO:0004196 - inviable after spore germination, single or double cell division, elongated multiseptate cell with fragmented nucleus

References:

Genotypes:

FYPO:0002059 - inviable cell population

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

References:

Genotypes:

FYPO:0000969 - normal growth during cellular response to UV

References:

Genotypes:

FYPO:0001690 - normal growth on camptothecin

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Genotypes:

FYPO:0001164 - normal growth on glucose carbon source

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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:0000703 - normal protein-protein interaction

References:

Genotypes:

FYPO:0000085 - sensitive to camptothecin

References:

Genotypes:

FYPO:0000088 - sensitive to hydroxyurea

References:

Genotypes:

FYPO:0000089 - sensitive to methyl methanesulfonate

References:

Genotypes:

FYPO:0000268 - sensitive to UV during vegetative growth

References:

Genotypes:

Subunit composition

PBO:0015221 - heteromeric(2)

References:

Taxonomic conservation

PBO:0011072 - conserved in archaea

PBO:0011067 - conserved in bacteria

PBO:0011065 - conserved in eukaryotes

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

PBO:0011070 - conserved in vertebrates

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

Warnings

PBO:0000070 - gene structure updated

References:

Protein features

IDNameInterPro nameDB name
PF13476AAA_23Rad50/SbcC_AAAPfam
G3DSA:3.40.50.300:FF:000793CATH-FunFam
G3DSA:3.40.50.300:FF:001301CATH-FunFam
G3DSA:3.40.50.300P-loop_NTPaseCATH-Gene3D
SSF52540P-loop_NTPaseSUPERFAMILY
PTHR45916PANTHER
CoilCOILS

Orthologs

References / Literature

PMID:15601840 - Composition and architecture of the Schizosaccharomyces pombe Rad18 (Smc5-6) complex.
Sergeant J et al. Mol Cell Biol 2005 Jan;25(1):172-84
GO_REF:0000051 - S. pombe keyword mapping
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: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: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: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: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
PMID:16478984 - The Nse5-Nse6 dimer mediates DNA repair roles of the Smc5-Smc6 complex.
Pebernard S et al. Mol Cell Biol 2006 Mar;26(5):1617-30
PMID:30348841 - Brc1 Promotes the Focal Accumulation and SUMO Ligase Activity of Smc5-Smc6 during Replication Stress.
Oravcová M et al. Mol Cell Biol 2019 Jan 15;39(2)
PMID:17005570 - The Smc5-Smc6 DNA repair complex. bridging of the Smc5-Smc6 heads by the KLEISIN, Nse4, and non-Kleisin subunits.
Palecek J et al. J Biol Chem 2006 Dec 01;281(48):36952-9
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: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: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: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:10747036 - A novel SMC protein complex in Schizosaccharomyces pombe contains the Rad18 DNA repair protein.
Fousteri MI et al. EMBO J 2000 Apr 03;19(7):1691-702
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
PMID:28134253 - Specialized interfaces of Smc5/6 control hinge stability and DNA association.
Alt A et al. Nat Commun 2017 Jan 30;8:14011
PMID:32546830 - A role of the Nse4 kleisin and Nse1/Nse3 KITE subunits in the ATPase cycle of SMC5/6.
Vondrova L et al. Sci Rep 2020 Jun 16;10(1):9694
PMID:36793083 - The SAGA histone acetyltransferase module targets SMC5/6 to specific genes.
Mahrik L et al. Epigenetics Chromatin 2023 Feb 16;16(1):6
GO_REF:0000002 - Comments
PMID:30600397 - Recruitment, loading, and activation of the Smc5-Smc6 SUMO ligase.
Oravcová M et al. Curr Genet 2019 Jun;65(3):669-676
GO_REF:0000033 - Annotation inferences using phylogenetic trees
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:12966087 - Novel essential DNA repair proteins Nse1 and Nse2 are subunits of the fission yeast Smc5-Smc6 complex.
McDonald WH et al. J Biol Chem 2003 Nov 14;278(46):45460-7
PMID:12897162 - Replication checkpoint kinase Cds1 regulates recombinational repair protein Rad60.
Boddy MN et al. Mol Cell Biol 2003 Aug;23(16):5939-46
PB_REF:0000006 - Disease associations from Monarch via human-pombe orthologs
PMID:15331764 - Nse1, Nse2, and a novel subunit of the Smc5-Smc6 complex, Nse3, play a crucial role in meiosis.
Pebernard S et al. Mol Biol Cell 2004 Nov;15(11):4866-76
PMID:26446992 - Chromatin association of the SMC5/6 complex is dependent on binding of its NSE3 subunit to DNA.
Zabrady K et al. Nucleic Acids Res 2016 Feb 18;44(3):1064-79
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:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6