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Aliases for SMC1B Gene

Aliases for SMC1B Gene

  • Structural Maintenance Of Chromosomes 1B 2 3
  • SMC1 (Structural Maintenance Of Chromosomes 1, Yeast)-Like 1 2 3
  • SMC Protein 1B 3 4
  • SMC1L2 3 4
  • Mitosis-Specific Chromosome Segregation Protein Like Protein Beta 3
  • SMC1 Structural Maintenance Of Chromosomes 1-Like 2 (Yeast) 2
  • SMC1 Structural Maintenance Of Chromosomes 1-Like 2 3
  • Structural Maintenance Of Chromosomes Protein 1B 3
  • SMC-1-Beta 4
  • SMC1BETA 3
  • SMC-1B 4

External Ids for SMC1B Gene

Previous HGNC Symbols for SMC1B Gene

  • SMC1L2

Previous GeneCards Identifiers for SMC1B Gene

  • GC22M044118
  • GC22M045739
  • GC22M028686

Summaries for SMC1B Gene

Entrez Gene Summary for SMC1B Gene

  • SMC1L2 belongs to a family of proteins required for chromatid cohesion and DNA recombination during meiosis and mitosis (3:Revenkova et al., 2001 [PubMed 11564881]).[supplied by OMIM, Mar 2008]

GeneCards Summary for SMC1B Gene

SMC1B (Structural Maintenance Of Chromosomes 1B) is a Protein Coding gene. Among its related pathways are Cell Cycle, Mitotic and Oocyte meiosis. An important paralog of this gene is SMC1A.

UniProtKB/Swiss-Prot for SMC1B Gene

  • Meiosis-specific component of cohesin complex. Required for the maintenance of meiotic cohesion, but not, or only to a minor extent, for its establishment. Contributes to axial element (AE) formation and the organization of chromatin loops along the AE. Plays a key role in synapsis, recombination and chromosome movements. The cohesin complex is required for the cohesion of sister chromatids after DNA replication. The cohesin complex apparently forms a large proteinaceous ring within which sister chromatids can be trapped. At anaphase, the complex is cleaved and dissociates from chromatin, allowing sister chromatids to segregate. The meiosis-specific cohesin complex probably replaces mitosis specific cohesin complex when it dissociates from chromatin during prophase I (By similarity).

Gene Wiki entry for SMC1B Gene

No data available for Tocris Summary , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for SMC1B Gene

Genomics for SMC1B Gene

Epigenetics Products

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

Genomic Location for SMC1B Gene

Start:
45,344,063 bp from pter
End:
45,413,619 bp from pter
Size:
69,557 bases
Orientation:
Minus strand

Genomic View for SMC1B Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for SMC1B Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for SMC1B Gene

Proteins for SMC1B Gene

  • Protein details for SMC1B Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8NDV3-SMC1B_HUMAN
    Recommended name:
    Structural maintenance of chromosomes protein 1B
    Protein Accession:
    Q8NDV3
    Secondary Accessions:
    • A0AV46
    • B0QY23
    • B0QY24
    • Q5TIC3
    • Q6ZUF9
    • Q9Y3G5

    Protein attributes for SMC1B Gene

    Size:
    1235 amino acids
    Molecular mass:
    143908 Da
    Quaternary structure:
    • Forms a heterodimer with SMC3. Component of a meiosis-specific cohesin complex, probably composed of the SMC1B and SMC3 heterodimer attached via their hinge domain, RAD21 (or its meiosis-specific related protein REC8), which link them, and STAG3, which interacts with RAD21 or REC8 (By similarity).
    SequenceCaution:
    • Sequence=BAC86266.1; Type=Erroneous initiation; Note=Translation N-terminally shortened.; Evidence={ECO:0000305};

    Alternative splice isoforms for SMC1B Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for SMC1B Gene

Proteomics data for SMC1B Gene at MOPED

Post-translational modifications for SMC1B Gene

  • Ubiquitination at Lys529
  • Modification sites at PhosphoSitePlus

Other Protein References for SMC1B Gene

ENSEMBL proteins:
Reactome Protein details:
REFSEQ proteins:

No data available for DME Specific Peptides for SMC1B Gene

Domains for SMC1B Gene

Gene Families for SMC1B Gene

HGNC:
  • SMC :Structural maintenance of chromosomes proteins

Protein Domains for SMC1B Gene

Suggested Antigen Peptide Sequences for SMC1B Gene

Graphical View of Domain Structure for InterPro Entry

Q8NDV3

UniProtKB/Swiss-Prot:

SMC1B_HUMAN :
  • Q8NDV3
Domain:
  • The flexible hinge domain, which separates the large intramolecular coiled coil regions, allows the heterotypic interaction with the corresponding domain of SMC3, forming a V-shaped heterodimer. The two heads of the heterodimer are then connected by different ends of the cleavable RAD21 or REC8 protein, forming a ring structure (By similarity).
Family:
  • Belongs to the SMC family. SMC1 subfamily.
genes like me logo Genes that share domains with SMC1B: view

Function for SMC1B Gene

Molecular function for SMC1B Gene

UniProtKB/Swiss-Prot Function: Meiosis-specific component of cohesin complex. Required for the maintenance of meiotic cohesion, but not, or only to a minor extent, for its establishment. Contributes to axial element (AE) formation and the organization of chromatin loops along the AE. Plays a key role in synapsis, recombination and chromosome movements. The cohesin complex is required for the cohesion of sister chromatids after DNA replication. The cohesin complex apparently forms a large proteinaceous ring within which sister chromatids can be trapped. At anaphase, the complex is cleaved and dissociates from chromatin, allowing sister chromatids to segregate. The meiosis-specific cohesin complex probably replaces mitosis specific cohesin complex when it dissociates from chromatin during prophase I (By similarity).

Gene Ontology (GO) - Molecular Function for SMC1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0003677 DNA binding IEA --
GO:0005515 protein binding --
GO:0005524 ATP binding IEA --
genes like me logo Genes that share ontologies with SMC1B: view
genes like me logo Genes that share phenotypes with SMC1B: view

Animal Models for SMC1B Gene

MGI Knock Outs for SMC1B:

Animal Model Products

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SMC1B

In Situ Assay Products

Flow Cytometry Products

No data available for Enzyme Numbers (IUBMB) , miRNA , Transcription Factor Targeting and HOMER Transcription for SMC1B Gene

Localization for SMC1B Gene

Subcellular locations from UniProtKB/Swiss-Prot for SMC1B Gene

Nucleus. Chromosome. Chromosome, centromere. Note=Associates with chromatin. In prophase I stage of meiosis, localizes along the AE of synaptonemal complexes. In late-pachytene-diplotene, the bulk of protein dissociates from the chromosome arms probably because of phosphorylation by PLK, except at centromeres, where cohesin complexes remain. Remains chromatin associated at the centromeres up to metaphase II. At anaphase II, dissociates from centromeres, allowing chromosomes segregation (By similarity). {ECO:0000250}.

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for SMC1B Gene COMPARTMENTS Subcellular localization image for SMC1B gene
Compartment Confidence
nucleus 5
cytosol 3
cytoskeleton 1
peroxisome 1

Gene Ontology (GO) - Cellular Components for SMC1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000775 chromosome, centromeric region IEA --
GO:0000794 condensed nuclear chromosome --
GO:0000795 synaptonemal complex --
GO:0000800 lateral element IEA --
GO:0005654 nucleoplasm IDA --
genes like me logo Genes that share ontologies with SMC1B: view

Pathways for SMC1B Gene

genes like me logo Genes that share pathways with SMC1B: view

Pathways by source for SMC1B Gene

1 Qiagen pathway for SMC1B Gene
4 Reactome pathways for SMC1B Gene
2 KEGG pathways for SMC1B Gene

Gene Ontology (GO) - Biological Process for SMC1B Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0007062 sister chromatid cohesion IEA --
GO:0007126 meiotic nuclear division IEA --
GO:0016192 vesicle-mediated transport --
GO:0051276 chromosome organization --
genes like me logo Genes that share ontologies with SMC1B: view

Transcripts for SMC1B Gene

Unigene Clusters for SMC1B Gene

Structural maintenance of chromosomes 1B:
Representative Sequences:

CRISPR Products

miRNA Products

Inhibitory RNA Products

  • Predesigned siRNA for gene silencing in human,mouse,rat for SMC1B

Primer Products

  • OriGene qSTAR qPCR primer pairs in human,mouse,rat for SMC1B

Flow Cytometry Products

Alternative Splicing Database (ASD) splice patterns (SP) for SMC1B Gene

No ASD Table

Relevant External Links for SMC1B Gene

GeneLoc Exon Structure for
SMC1B
ECgene alternative splicing isoforms for
SMC1B

Expression for SMC1B Gene

mRNA expression in normal human tissues for SMC1B Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for SMC1B Gene

This gene is overexpressed in Testis (47.9).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for SMC1B Gene

SOURCE GeneReport for Unigene cluster for SMC1B Gene Hs.334176

genes like me logo Genes that share expressions with SMC1B: view

In Situ Assay Products

No data available for mRNA Expression by UniProt/SwissProt for SMC1B Gene

Orthologs for SMC1B Gene

This gene was present in the common ancestor of animals and fungi.

Orthologs for SMC1B Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia SMC1B 35
  • 99.54 (n)
  • 99.19 (a)
SMC1B 36
  • 99 (a)
OneToOne
cow
(Bos Taurus)
Mammalia SMC1B 35
  • 90.16 (n)
  • 89.11 (a)
SMC1B 36
  • 89 (a)
OneToOne
dog
(Canis familiaris)
Mammalia SMC1B 35
  • 90.04 (n)
  • 90.04 (a)
SMC1B 36
  • 86 (a)
OneToOne
mouse
(Mus musculus)
Mammalia Smc1b 35
  • 85.76 (n)
  • 83.31 (a)
Smc1b 16
Smc1b 36
  • 82 (a)
OneToOne
oppossum
(Monodelphis domestica)
Mammalia SMC1B 36
  • 74 (a)
OneToOne
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 72 (a)
OneToMany
-- 36
  • 63 (a)
OneToMany
rat
(Rattus norvegicus)
Mammalia Smc1b 35
  • 85.76 (n)
  • 83.87 (a)
chicken
(Gallus gallus)
Aves SMC1B 35
  • 70.74 (n)
  • 65.34 (a)
SMC1B 36
  • 64 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia SMC1B 36
  • 65 (a)
OneToOne
tropical clawed frog
(Silurana tropicalis)
Amphibia smc1b 35
  • 64.18 (n)
  • 61.1 (a)
zebrafish
(Danio rerio)
Actinopterygii smc1b 35
  • 58.58 (n)
  • 54.46 (a)
smc1b 36
  • 52 (a)
OneToOne
fruit fly
(Drosophila melanogaster)
Insecta SMC1 36
  • 40 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea C44C10.4 36
  • 26 (a)
ManyToMany
C44C10.5 36
  • 24 (a)
ManyToMany
him-1 36
  • 37 (a)
ManyToMany
baker's yeast
(Saccharomyces cerevisiae)
Saccharomycetes SMC1 36
  • 26 (a)
OneToMany
sea squirt
(Ciona savignyi)
Ascidiacea CSA.5929 36
  • 43 (a)
OneToMany
Species with no ortholog for SMC1B:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • 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 (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for SMC1B Gene

ENSEMBL:
Gene Tree for SMC1B (if available)
TreeFam:
Gene Tree for SMC1B (if available)

Paralogs for SMC1B Gene

Paralogs for SMC1B Gene

Selected SIMAP similar genes for SMC1B Gene using alignment to 1 proteins:

genes like me logo Genes that share paralogs with SMC1B: view

Variants for SMC1B Gene

Sequence variations from dbSNP and Humsavar for SMC1B Gene

SNP ID Clin Chr 22 pos Sequence Context AA Info Type MAF
rs79154 -- 45,399,045(+) CAAAG(A/C)AGCTG intron-variant
rs136564 -- 45,368,994(+) TTAGA(C/T)TTTTC intron-variant
rs136565 -- 45,369,197(+) gttca(C/T)gccat intron-variant
rs136566 -- 45,369,543(+) GTTTC(-/T)TTTTT intron-variant
rs136567 -- 45,370,605(+) TTTCA(A/G)ATTTT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for SMC1B Gene

Variant ID Type Subtype PubMed ID
dgv1411e1 CNV Complex 17122850
nsv9921 CNV Gain+Loss 18304495
esv34218 CNV Gain 17911159
nsv471210 CNV Gain 18288195
nsv515690 CNV Gain+Loss 19592680
nsv834221 CNV Loss 17160897
nsv3651 CNV Insertion 18451855

Relevant External Links for SMC1B Gene

HapMap Linkage Disequilibrium report
SMC1B
Human Gene Mutation Database (HGMD)
SMC1B

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for SMC1B Gene

Disorders for SMC1B Gene

Relevant External Links for SMC1B

Genetic Association Database (GAD)
SMC1B
Human Genome Epidemiology (HuGE) Navigator
SMC1B
genes like me logo Genes that share disorders with SMC1B: view

No data available for UniProtKB/Swiss-Prot for SMC1B Gene

Publications for SMC1B Gene

  1. The DNA sequence of human chromosome 22. (PMID: 10591208) Dunham I. … Wright H. (Nature 1999) 2 3 4
  2. Novel meiosis-specific isoform of mammalian SMC1. (PMID: 11564881) Revenkova E. … Jessberger R. (Mol. Cell. Biol. 2001) 2 3
  3. The evolution of SMC proteins: phylogenetic analysis and structural implications. (PMID: 14660695) Cobbe N. … Heck M.M.S. (Mol. Biol. Evol. 2004) 3 4
  4. MicroRNA-related genetic variations as predictors for risk of second primary tumor and/or recurrence in patients with early-stage head and neck cancer. (PMID: 20819778) Zhang X. … Wu X. (Carcinogenesis 2010) 3 48
  5. Identification of SUMOylated proteins in neuroblastoma cells after treatment with hydrogen peroxide or ascorbate. (PMID: 21110914) Grant M.M. (BMB Rep 2010) 3

Products for SMC1B Gene

Sources for SMC1B Gene

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