Free for academic non-profit institutions. Other users need a Commercial license

Aliases for SMC5 Gene

Aliases for SMC5 Gene

  • Structural Maintenance Of Chromosomes 5 2 3
  • SMC5L1 3 4 6
  • SMC Protein 5 3 4
  • KIAA0594 4 6
  • SMC-5 3 4
  • HSMC5 3 4
  • SMC5 Structural Maintenance Of Chromosomes 5-Like 1 (Yeast) 2
  • SMC5 Structural Maintenance Of Chromosomes 5-Like 1 3
  • Structural Maintenance Of Chromosomes Protein 5 3

External Ids for SMC5 Gene

Previous HGNC Symbols for SMC5 Gene

  • SMC5L1

Previous GeneCards Identifiers for SMC5 Gene

  • GC09P072063
  • GC09P072873
  • GC09P042713

Summaries for SMC5 Gene

GeneCards Summary for SMC5 Gene

SMC5 (Structural Maintenance Of Chromosomes 5) is a Protein Coding gene.

UniProtKB/Swiss-Prot for SMC5 Gene

  • Core component of the SMC5-SMC6 complex, a complex involved in repair of DNA double-strand breaks by homologous recombination. The complex may promote sister chromatid homologous recombination by recruiting the SMC1-SMC3 cohesin complex to double-strand breaks. The complex is required for telomere maintenance via recombination in ALT (alternative lengthening of telomeres) cell lines and mediates sumoylation of shelterin complex (telosome) components which is proposed to lead to shelterin complex disassembly in ALT-associated PML bodies (APBs). Required for recruitment of telomeres to PML nuclear bodies. Required for sister chromatid cohesion during prometaphase and mitotic progression; the function seems to be independent of SMC6.

Gene Wiki entry for SMC5 Gene

No data available for Entrez Gene Summary , Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SMC5 Gene

Genomics for SMC5 Gene

Epigenetics Products

  • DNA Methylation CpG Assay Predesigned for Pyrosequencing in human,mouse,rat

Genomic Location for SMC5 Gene

Start:
70,258,962 bp from pter
End:
70,354,888 bp from pter
Size:
95,927 bases
Orientation:
Plus strand

Genomic View for SMC5 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SMC5 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SMC5 Gene

Proteins for SMC5 Gene

  • Protein details for SMC5 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8IY18-SMC5_HUMAN
    Recommended name:
    Structural maintenance of chromosomes protein 5
    Protein Accession:
    Q8IY18
    Secondary Accessions:
    • A6NM81
    • O60335
    • Q05D92
    • Q5VZ60
    • Q96SB9

    Protein attributes for SMC5 Gene

    Size:
    1101 amino acids
    Molecular mass:
    128806 Da
    Quaternary structure:
    • Forms a heterodimer with SMC6. Component of the SMC5-SMC6 complex which consists at least of SMC5, SMC6, NSMCE2, NSMCE1, NSMCE4A or EID3 and NDNL2.
    SequenceCaution:
    • Sequence=AAH17666.1; Type=Miscellaneous discrepancy; Note=Contaminating sequence. Potential poly-A sequence.; Evidence={ECO:0000305};

neXtProt entry for SMC5 Gene

Proteomics data for SMC5 Gene at MOPED

Post-translational modifications for SMC5 Gene

Other Protein References for SMC5 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for SMC5 Gene

Domains for SMC5 Gene

Gene Families for SMC5 Gene

HGNC:
  • SMC :Structural maintenance of chromosomes proteins

Protein Domains for SMC5 Gene

Suggested Antigen Peptide Sequences for SMC5 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

Q8IY18

UniProtKB/Swiss-Prot:

SMC5_HUMAN :
  • Q8IY18
Domain:
  • The flexible hinge domain, which separates the large intramolecular coiled coil regions, allows the heterotypic interaction with the corresponding domain of SMC6, forming a V-shaped heterodimer.
Family:
  • Belongs to the SMC family. SMC5 subfamily.
genes like me logo Genes that share domains with SMC5: view

Function for SMC5 Gene

Molecular function for SMC5 Gene

UniProtKB/Swiss-Prot Function: Core component of the SMC5-SMC6 complex, a complex involved in repair of DNA double-strand breaks by homologous recombination. The complex may promote sister chromatid homologous recombination by recruiting the SMC1-SMC3 cohesin complex to double-strand breaks. The complex is required for telomere maintenance via recombination in ALT (alternative lengthening of telomeres) cell lines and mediates sumoylation of shelterin complex (telosome) components which is proposed to lead to shelterin complex disassembly in ALT-associated PML bodies (APBs). Required for recruitment of telomeres to PML nuclear bodies. Required for sister chromatid cohesion during prometaphase and mitotic progression; the function seems to be independent of SMC6.

Gene Ontology (GO) - Molecular Function for SMC5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding IPI 15601840
GO:0005524 ATP binding IEA --
genes like me logo Genes that share ontologies with SMC5: view

Phenotypes for SMC5 Gene

GenomeRNAi human phenotypes for SMC5:
genes like me logo Genes that share phenotypes with SMC5: view

Animal Model Products

CRISPR Products

No data available for Enzyme Numbers (IUBMB) , Animal Models , miRNA , Transcription Factor Targeting and HOMER Transcription for SMC5 Gene

Localization for SMC5 Gene

Subcellular locations from UniProtKB/Swiss-Prot for SMC5 Gene

Nucleus. Chromosome. Chromosome, telomere. Note=Associates with chromatin. Localizes to PML nuclear bodies in ALT cell lines.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SMC5 Gene COMPARTMENTS Subcellular localization image for SMC5 gene
Compartment Confidence
nucleus 5
cytosol 2
endoplasmic reticulum 1
mitochondrion 1

Gene Ontology (GO) - Cellular Components for SMC5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000781 chromosome, telomeric region IDA 17589526
GO:0005634 nucleus ISS --
GO:0005654 nucleoplasm TAS --
GO:0016605 PML body IDA 17589526
GO:0030054 cell junction IDA --
genes like me logo Genes that share ontologies with SMC5: view

Pathways for SMC5 Gene

SuperPathways for SMC5 Gene

No Data Available

Gene Ontology (GO) - Biological Process for SMC5 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000722 telomere maintenance via recombination IMP 17589526
GO:0000724 double-strand break repair via homologous recombination IMP 16810316
GO:0006303 NOT double-strand break repair via nonhomologous end joining IMP 16810316
GO:0007067 mitotic nuclear division IEA --
GO:0016925 protein sumoylation TAS --
genes like me logo Genes that share ontologies with SMC5: view

No data available for Pathways by source for SMC5 Gene

Transcripts for SMC5 Gene

Unigene Clusters for SMC5 Gene

Structural maintenance of chromosomes 5:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SMC5

Primer Products

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SMC5 Gene

No ASD Table

Relevant External Links for SMC5 Gene

GeneLoc Exon Structure for
SMC5
ECgene alternative splicing isoforms for
SMC5

Expression for SMC5 Gene

mRNA expression in normal human tissues for SMC5 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SMC5 Gene

SOURCE GeneReport for Unigene cluster for SMC5 Gene Hs.534189

mRNA Expression by UniProt/SwissProt for SMC5 Gene

Q8IY18-SMC5_HUMAN
Tissue specificity: Widely expressed.
genes like me logo Genes that share expressions with SMC5: view

In Situ Assay Products

No data available for mRNA differential expression in normal tissues for SMC5 Gene

Orthologs for SMC5 Gene

This gene was present in the common ancestor of eukaryotes.

Orthologs for SMC5 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SMC5 35
  • 99.67 (n)
  • 99.46 (a)
SMC5 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SMC5 35
  • 92.19 (n)
  • 92.64 (a)
SMC5 36
  • 92 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SMC5 35
  • 90.86 (n)
  • 93.19 (a)
SMC5 36
  • 93 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Smc5 35
  • 87.06 (n)
  • 89.55 (a)
Smc5 16
Smc5 36
  • 89 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SMC5 36
  • 66 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia SMC5 36
  • 67 (a)
OneToOne
rat
(Rattus norvegicus)
Mammalia Smc5 35
  • 87.21 (n)
  • 90.87 (a)
chicken
(Gallus gallus)
Aves SMC5 35
  • 70.12 (n)
  • 64.63 (a)
SMC5 36
  • 59 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SMC5 36
  • 62 (a)
OneToOne
African clawed frog
(Xenopus laevis)
Amphibia smc5 35
tropical clawed frog
(Silurana tropicalis)
Amphibia smc5 35
  • 68.85 (n)
  • 68.38 (a)
zebrafish
(Danio rerio)
Actinopterygii -- 35
smc5 35
  • 60.65 (n)
  • 58.5 (a)
smc5 36
  • 57 (a)
OneToOne
African malaria mosquito
(Anopheles gambiae)
Insecta AgaP_AGAP011623 35
  • 42.3 (n)
  • 32.11 (a)
fruit fly
(Drosophila melanogaster)
Insecta Smc5 35
  • 43.55 (n)
  • 30.85 (a)
Smc5 36
  • 27 (a)
OneToOne
worm
(Caenorhabditis elegans)
Secernentea smc-5 36
  • 27 (a)
OneToOne
A. gosspyii yeast
(Ashbya gossypii)
Saccharomycetes AGOS_AEL337C 35
  • 55.56 (n)
  • 53.74 (a)
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SMC5 35
  • 59.01 (n)
  • 52.7 (a)
SMC5 36
  • 26 (a)
OneToOne
K. lactis yeast
(Kluyveromyces lactis)
Saccharomycetes KLLA0F07997g 35
  • 44.78 (n)
  • 30.38 (a)
thale cress
(Arabidopsis thaliana)
eudicotyledons SMC5 35
  • 46.1 (n)
  • 35.3 (a)
corn
(Zea mays)
Liliopsida Zm.1043 35
rice
(Oryza sativa)
Liliopsida Os05g0596600 35
  • 46.39 (n)
  • 35.26 (a)
bread mold
(Neurospora crassa)
Ascomycetes NCU09065 35
  • 43.49 (n)
  • 32.17 (a)
fission yeast
(Schizosaccharomyces pombe)
Schizosaccharomycetes smc5 35
  • 44.64 (n)
  • 32.69 (a)
Species with no ortholog for SMC5:
  • Actinobacteria (Mycobacterium tuberculosis)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SMC5 Gene

ENSEMBL:
Gene Tree for SMC5 (if available)
TreeFam:
Gene Tree for SMC5 (if available)

Paralogs for SMC5 Gene

Pseudogenes.org Pseudogenes for SMC5 Gene

genes like me logo Genes that share paralogs with SMC5: view

No data available for Paralogs for SMC5 Gene

Variants for SMC5 Gene

Sequence variations from dbSNP and Humsavar for SMC5 Gene

SNP ID Clin Chr 09 pos Sequence Context AA Info Type MAF
rs943536 -- 70,285,373(+) atttt(A/T)aaagt intron-variant
rs954808 -- 70,348,429(-) CAGGC(A/G)TGAGC intron-variant
rs1052684 -- 70,354,601(+) TATTT(A/T)AAAAC utr-variant-3-prime
rs1104709 -- 70,329,882(+) gggag(G/T)cctca intron-variant
rs1112937 -- 70,299,336(-) TTAAA(A/T)AAAAA intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SMC5 Gene

Variant ID Type Subtype PubMed ID
nsv6555 CNV Insertion 18451855
nsv831615 CNV Gain 17160897
nsv507515 CNV Insertion 20534489
esv2484591 CNV Deletion 19546169

Relevant External Links for SMC5 Gene

HapMap Linkage Disequilibrium report
SMC5

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SMC5 Gene

Disorders for SMC5 Gene

Relevant External Links for SMC5

Genetic Association Database (GAD)
SMC5
Human Genome Epidemiology (HuGE) Navigator
SMC5
genes like me logo Genes that share disorders with SMC5: view

No data available for UniProtKB/Swiss-Prot for SMC5 Gene

Publications for SMC5 Gene

  1. Prediction of the coding sequences of unidentified human genes. IX. The complete sequences of 100 new cDNA clones from brain which can code for large proteins in vitro. (PMID: 9628581) Nagase T. … Ohara O. (DNA Res. 1998) 2 3 4
  2. Characterization of a novel human SMC heterodimer homologous to the Schizosaccharomyces pombe Rad18/Spr18 complex. (PMID: 11408570) Taylor E.M. … Lehmann A.R. (Mol. Biol. Cell 2001) 3 4
  3. Construction of expression-ready cDNA clones for KIAA genes: manual curation of 330 KIAA cDNA clones. (PMID: 12168954) Nakajima D. … Nagase T. (DNA Res. 2002) 3 4
  4. DNA sequence and analysis of human chromosome 9. (PMID: 15164053) Humphray S.J. … Dunham I. (Nature 2004) 3 4
  5. The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC). (PMID: 15489334) Gerhard D.S. … Malek J. (Genome Res. 2004) 3 4

Products for SMC5 Gene

Sources for SMC5 Gene

Back to Top

Content