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protein coding gene - smc6 (SPCC5E4.06) - Smc5-6 complex SMC P-loop ATPase subunit Smc6

Gene summary

Standard name
smc6
Systematic ID
SPCC5E4.06
Product
Smc5-6 complex SMC P-loop ATPase subunit Smc6
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
rad18
UniProt ID
P53692
ORFeome ID
48/48D06
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome III: 652609..656420 forward strand

Annotation

GO biological process

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

References:

GO cellular component

GO:0005634 - nucleus

References:

GO:0035861 - site of double-strand break

References:

GO:0030915 - Smc5-Smc6 complex

References:

GO molecular function

GO:0016887 - ATP hydrolysis activity

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GO:0008094 - ATP-dependent activity, acting on DNA

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

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GO:0003684 - damaged DNA binding

References:

GO:0005515 - protein binding

References:

GO:0003697 - single-stranded DNA binding

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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:0001355 - decreased vegetative cell population growth

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Genotypes:

FYPO:0005868 - increased mitotic recombination at rDNA

References:

Genotypes:

FYPO:0007551 - increased protein localization to chromatin during cellular response to hydroxyurea

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Genotypes:

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

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Genotypes:

FYPO:0002061 - inviable vegetative cell population

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Genotypes:

FYPO:0000245 - loss of viability in stationary phase

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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:0001310 - normal viability in stationary phase

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Genotypes:

FYPO:0000267 - sensitive to ionizing radiation during vegetative growth

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Genotypes:

FYPO:0000089 - sensitive to methyl methanesulfonate

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Genotypes:

FYPO:0000268 - sensitive to UV during vegetative growth

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Genotypes:

Protein features

PBO:0111821 - SMC family

Protein sequence feature

SO:0001528 - nuclear_localization_signal

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Quantitative gene expression

PBO:0006310 - protein level

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PBO:0011963 - RNA level

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Single locus phenotype

FYPO:0000777 - abnormal double-strand break repair during vegetative growth

References:

Genotypes:

FYPO:0000059 - abnormal mitotic cell cycle

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Genotypes:

FYPO:0000705 - abolished protein-protein interaction

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Genotypes:

FYPO:0000229 - cut

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Genotypes:

FYPO:0003165 - cut with abnormal chromosome segregation

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Genotypes:

FYPO:0000708 - decreased mating efficiency

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Genotypes:

FYPO:0006321 - decreased protein localization to chromatin at stalled replication fork

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Genotypes:

FYPO:0002385 - decreased protein localization to heterochromatin during vegetative growth

References:

Genotypes:

FYPO:0001645 - decreased protein-protein interaction

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Genotypes:

FYPO:0004031 - decreased UV-damage excision repair

References:

Genotypes:

FYPO:0005868 - increased mitotic recombination at rDNA

References:

Genotypes:

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

References:

Genotypes:

FYPO:0000839 - inviable elongated mononucleate aseptate cell

References:

Genotypes:

FYPO:0001490 - inviable elongated vegetative cell

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Genotypes:

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

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

References:

Genotypes:

FYPO:0000674 - normal cell population growth at high temperature

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Genotypes:

FYPO:0000969 - normal growth during cellular response to UV

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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:0004404 - normal growth on JM216

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Genotypes:

FYPO:0004410 - normal growth on tetraplatin

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Genotypes:

FYPO:0005236 - normal protein localization to chromatin at stalled replication fork

References:

Genotypes:

FYPO:0007552 - normal protein ubiquitination during cellular response to hydroxyurea

References:

Genotypes:

FYPO:0000703 - normal protein-protein interaction

References:

Genotypes:

FYPO:0000085 - sensitive to camptothecin

References:

Genotypes:

FYPO:0000102 - sensitive to cisplatin

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Genotypes:

FYPO:0000088 - sensitive to hydroxyurea

References:

Genotypes:

FYPO:0000267 - sensitive to ionizing radiation during vegetative growth

References:

Genotypes:

FYPO:0004405 - sensitive to JM335

References:

Genotypes:

FYPO:0000089 - sensitive to methyl methanesulfonate

References:

Genotypes:

FYPO:0002345 - sensitive to oxaliplatin

References:

Genotypes:

FYPO:0004407 - sensitive to triplatin tetranitrate

References:

Genotypes:

FYPO:0000268 - sensitive to UV during vegetative growth

References:

Genotypes:

FYPO:0001492 - viable elongated vegetative cell

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)

Protein features

IDNameInterPro nameDB name
PF02463SMC_NRecF/RecN/SMC_NPfam
G3DSA:3.40.50.300:FF:003232CATH-FunFam
G3DSA:1.10.287.1490CATH-Gene3D
G3DSA:3.40.50.300P-loop_NTPaseCATH-Gene3D
SSF52540P-loop_NTPaseSUPERFAMILY
PTHR19306PANTHER
CoilCOILS
mobidb-lite-Disorderdisorder_predictionMobiDB-Disorder
mobidb-lite-Polyampholytedisorder_predictionMobiDB-Polyampholyte

Orthologs

References / Literature

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:20495382 - SMC complexes and topoisomerase II work together so that sister chromatids can work apart.
Tapia-Alveal C et al. Cell Cycle 2010 Jun 01;9(11):2065-70
PMID:18031226 - The role of Schizosaccharomyces pombe SUMO ligases in genome stability.
Watts FZ et al. Biochem Soc Trans 2007 Dec;35(Pt 6):1379-84
PMID:34296454 - The TOR-dependent phosphoproteome and regulation of cellular protein synthesis.
Mak T et al. EMBO J 2021 Aug 16;40(16):e107911
PMID:20885950 - Characterisation of the SUMO-like domains of Schizosaccharomyces pombe Rad60.
Boyd LK et al. PLoS One 2010 Sep 27;5(9):e13009
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:14701739 - Coordination of DNA damage responses via the Smc5/Smc6 complex.
Harvey SH et al. Mol Cell Biol 2004 Jan;24(2):662-74
PMID:28382430 - DNA Topoisomerase II modulates acetyl-regulation of cohesin-mediated chromosome dynamics.
Lin SJ et al. Curr Genet 2017 Oct;63(5):923-930
PMID:22366461 - Brc1-dependent recovery from replication stress.
Bass KL et al. J Cell Sci 2012 Jun 01;125(Pt 11):2753-64
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:28784724 - Multi-BRCT Domain Protein Brc1 Links Rhp18/Rad18 and γH2A To Maintain Genome Stability during S Phase.
Reubens MC et al. Mol Cell Biol 2017 Nov 15;37(22)
PMID:39476757 - Characterization of Ksg1 protein kinase-dependent phosphoproteome in the fission yeast S. pombe.
Cipak L et al. Biochem Biophys Res Commun 2024 Oct 25;736:150895
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:28134253 - Specialized interfaces of Smc5/6 control hinge stability and DNA association.
Alt A et al. Nat Commun 2017 Jan 30;8:14011
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:28718400 - Histone H3G34R mutation causes replication stress, homologous recombination defects and genomic instability in S. pombe .
Yadav RK et al. Elife 2017 Jul 18;6
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:10473635 - Rad18 is required for DNA repair and checkpoint responses in fission yeast.
Verkade HM et al. Mol Biol Cell 1999 Sep;10(9):2905-18
PMID:22907753 - Posttranscriptional regulation of cell-cell interaction protein-encoding transcripts by Zfs1p in Schizosaccharomyces pombe.
Wells ML et al. Mol Cell Biol 2012 Oct;32(20):4206-14
PMID:25002536 - A novel histone deacetylase complex in the control of transcription and genome stability.
Zilio N et al. Mol Cell Biol 2014 Sep 15;34(18):3500-14
GO_REF:0000033 - Annotation inferences using phylogenetic trees
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:35011726 - Role of Nse1 Subunit of SMC5/6 Complex as a Ubiquitin Ligase.
Kolesar P et al. Cells 2022 Jan 04;11(1)
PMID:19528228 - Smc5-Smc6-dependent removal of cohesin from mitotic chromosomes.
Outwin EA et al. Mol Cell Biol 2009 Aug;29(16):4363-75
PMID:38780300 - Nitrogen availability is important for preventing catastrophic mitosis in fission yeast.
Zemlianski V et al. J Cell Sci 2024 May 23;
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:9870697 - Differential effects of caffeine on DNA damage and replication cell cycle checkpoints in the fission yeast Schizosaccharomyces pombe.
Osman F et al. Mol Gen Genet 1998 Nov;260(4):319-34
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: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: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:17277362 - Brc1-mediated rescue of Smc5/6 deficiency: requirement for multiple nucleases and a novel Rad18 function.
Lee KM et al. Genetics 2007 Apr;175(4):1585-95
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
PMID:7254221 - Spontaneous and UV-induced recombination in radiation-sensitive mutants of Schizosaccharomyces pombe.
Grossenbacher-Grunder AM et al. Mutat Res 1981 Mar;81(1):37-48
PMID:9658208 - Sensitivity to cisplatin and platinum-containing compounds of Schizosaccharomyces pombe rad mutants.
Perego P et al. Mol Pharmacol 1998 Jul;54(1):213-9
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
GO_REF:0000051 - S. pombe keyword mapping
PMID:15485909 - Rad62 protein functionally and physically associates with the smc5/smc6 protein complex and is required for chromosome integrity and recombination repair in fission yeast.
Morikawa H et al. Mol Cell Biol 2004 Nov;24(21):9401-13
PMID:17213188 - Regulation of the nuclear poly(A)-binding protein by arginine methylation in fission yeast.
Perreault A et al. J Biol Chem 2007 Mar 09;282(10):7552-62
PMID:18257517 - Phosphoproteome analysis of fission yeast.
Wilson-Grady JT et al. J Proteome Res 2008 Mar;7(3):1088-97
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: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:8290359 - Cloning and characterisation of the Schizosaccharomyces pombe rad8 gene, a member of the SNF2 helicase family.
Doe CL et al. Nucleic Acids Res 1993 Dec 25;21(25):5964-71
PMID:18769921 - Genetic analysis reveals different roles of Schizosaccharomyces pombe sfr1/dds20 in meiotic and mitotic DNA recombination and repair.
Khasanov FK et al. Curr Genet 2008 Oct;54(4):197-211
PMID:15972456 - Brc1-mediated DNA repair and damage tolerance.
Sheedy DM et al. Genetics 2005 Oct;171(2):457-68
PMID:8524274 - The rad18 gene of Schizosaccharomyces pombe defines a new subgroup of the SMC superfamily involved in DNA repair.
Lehmann AR et al. Mol Cell Biol 1995 Dec;15(12):7067-80
PMID:166019 - Genetic control of radiation sensitivity in Schizosaccharomyces pombe.
Nasim A et al. Genetics 1975 Apr;79(4):573-82
PMID:19755492 - Schizosaccharomyces pombe Cds1Chk2 regulates homologous recombination at stalled replication forks through the phosphorylation of recombination protein Rad60.
Miyabe I et al. J Cell Sci 2009 Oct 15;122(Pt 20):3638-43
PMID:24687850 - H2A.Z-dependent regulation of cohesin dynamics on chromosome arms.
Tapia-Alveal C et al. Mol Cell Biol 2014 Jun;34(11):2092-104
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: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: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:19158664 - Smc5/6 maintains stalled replication forks in a recombination-competent conformation.
Irmisch A et al. EMBO J 2009 Jan 21;28(2):144-55
PMID:30600397 - Recruitment, loading, and activation of the Smc5-Smc6 SUMO ligase.
Oravcová M et al. Curr Genet 2019 Jun;65(3):669-676
PMID:15601841 - Nse2, a component of the Smc5-6 complex, is a SUMO ligase required for the response to DNA damage.
Andrews EA et al. Mol Cell Biol 2005 Jan;25(1):185-96
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:27798241 - An acetyltransferase-independent function of Eso1 regulates centromere cohesion.
Lin SJ et al. Mol Biol Cell 2016 Dec 15;27(25):4002-4010
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: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: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: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