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    Smc2 structural maintenance of chromosomes 2 [ Rattus norvegicus (Norway rat) ]

    Gene ID: 362519, updated on 9-Dec-2024

    Summary

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    Official Symbol
    Smc2provided by RGD
    Official Full Name
    structural maintenance of chromosomes 2provided by RGD
    Primary source
    RGD:1305227
    See related
    EnsemblRapid:ENSRNOG00000022325 AllianceGenome:RGD:1305227
    Gene type
    protein coding
    RefSeq status
    PROVISIONAL
    Organism
    Rattus norvegicus
    Lineage
    Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
    Also known as
    CAPE; CAP-E; Smc2l1
    Summary
    Predicted to enable chromatin binding activity and single-stranded DNA binding activity. Predicted to be involved in mitotic chromosome condensation; positive regulation of chromosome condensation; and regulation of chromosome segregation. Predicted to act upstream of or within kinetochore organization; meiotic chromosome condensation; and meiotic chromosome segregation. Predicted to be located in chromatin; cytoplasm; and nuclear lumen. Predicted to be part of condensin complex. Predicted to be active in condensed chromosome. Human ortholog(s) of this gene implicated in colon adenocarcinoma. Orthologous to human SMC2 (structural maintenance of chromosomes 2). [provided by Alliance of Genome Resources, Dec 2024]
    Expression
    Biased expression in Thymus (RPKM 254.2), Spleen (RPKM 192.8) and 9 other tissues See more
    Orthologs
    human mouse all
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    Genomic context

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    See Smc2 in Genome Data Viewer
    Location:
    5q23
    Exon count:
    26
    Annotation release Status Assembly Chr Location
    RS_2024_02 current GRCr8 (GCF_036323735.1) 5 NC_086023.1 (71592428..71648636)
    RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 5 NC_051340.1 (66806882..66853478)
    106 previous assembly Rnor_6.0 (GCF_000001895.5) 5 NC_005104.4 (68717509..68764080)

    Chromosome 5 - NC_086023.1Genomic Context describing neighboring genes Neighboring gene large ribosomal subunit protein eL29-like Neighboring gene ribosomal protein S6, pseudogene 10 Neighboring gene glyceraldehyde-3-phosphate dehydrogenase-like Neighboring gene small nucleolar RNA SNORA17 Neighboring gene topoisomerase I binding, arginine/serine-rich like

    Genomic regions, transcripts, and products

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    Go to nucleotide: Graphics FASTA GenBank

    Expression

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    • Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
    • Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
    • BioProject: PRJNA238328
    • Publication: PMID 24510058
    • Analysis date: Mon Jun 6 17:44:12 2016

    Bibliography

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    Related articles in PubMed

    1. Diminished Condensin Gene Expression Drives Chromosome Instability That May Contribute to Colorectal Cancer Pathogenesis. Baergen AK, et al. Cancers (Basel), 2019 Jul 28. PMID 31357676, Free PMC Article
    2. Mutational and expressional analysis of SMC2 gene in gastric and colorectal cancers with microsatellite instability. Je EM, et al. APMIS, 2014 Jun. PMID 24483990
    3. Human SMC2 protein, a core subunit of human condensin complex, is a novel transcriptional target of the WNT signaling pathway and a new therapeutic target. Dávalos V, et al. J Biol Chem, 2012 Dec 21. PMID 23095742, Free PMC Article
    4. Structure and DNA binding activity of the mouse condensin hinge domain highlight common and diverse features of SMC proteins. Griese JJ, et al. Nucleic Acids Res, 2010 Jun. PMID 20139420, Free PMC Article
    5. A human condensin complex containing hCAP-C-hCAP-E and CNAP1, a homolog of Xenopus XCAP-D2, colocalizes with phosphorylated histone H3 during the early stage of mitotic chromosome condensation. Schmiesing JA, et al. Mol Cell Biol, 2000 Sep. PMID 10958694, Free PMC Article

    See all (15) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Demonstrates that the human Smc2l1 ortholog, hCAP-E, is a member of the condensin complex that is involved in mitotic chromosome condensation.
      Title: A human condensin complex containing hCAP-C-hCAP-E and CNAP1, a homolog of Xenopus XCAP-D2, colocalizes with phosphorylated histone H3 during the early stage of mitotic chromosome condensation.
    Submit: New GeneRIF Correction

    General gene information

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    Markers

    Homology

    Gene Ontology Provided by RGD

    Function Evidence Code Pubs
    enables ATP binding IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables ATP hydrolysis activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables chromatin binding IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    enables chromatin binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    enables single-stranded DNA binding ISO
    Inferred from Sequence Orthology
    more info
    		  
    Process Evidence Code Pubs
    involved_in cell division IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within kinetochore organization ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within meiotic chromosome condensation ISO
    Inferred from Sequence Orthology
    more info
    		  
    acts_upstream_of_or_within meiotic chromosome segregation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in mitotic chromosome condensation IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    involved_in mitotic chromosome condensation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of chromosome condensation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of chromosome segregation ISO
    Inferred from Sequence Orthology
    more info
    		  
    involved_in positive regulation of chromosome separation ISO
    Inferred from Sequence Orthology
    more info
    		  
    Component Evidence Code Pubs
    located_in chromatin IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    is_active_in condensed chromosome IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    located_in condensed chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in condensed nuclear chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    part_of condensin complex IBA
    Inferred from Biological aspect of Ancestor
    more info
    		  
    part_of condensin complex ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in cytoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nuclear chromosome ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleolus IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleolus ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    located_in nucleoplasm ISO
    Inferred from Sequence Orthology
    more info
    		  
    located_in nucleus ISO
    Inferred from Sequence Orthology
    more info
    		  

    General protein information

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    Preferred Names
    structural maintenance of chromosomes protein 2
    Names
    SMC2 structural maintenance of chromosomes 2-like 1
    chromosome-associated protein E

    NCBI Reference Sequences (RefSeq)

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    RefSeqs maintained independently of Annotated Genomes

    These reference sequences exist independently of genome builds. Explain

    These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

    mRNA and Protein(s)

    1. NM_001108666.3 → NP_001102136.2  structural maintenance of chromosomes protein 2

      See identical proteins and their annotated locations for NP_001102136.2

      Status: PROVISIONAL

      Source sequence(s)
      JAXUCZ010000005
      UniProtKB/TrEMBL
      D4A5Q2
      Related
      ENSRNOP00000061673.1, ENSRNOT00000066226.4
      Conserved Domains (7) summary
      pfam06673
      Location:252 → 465
      L_lactis_ph-MCP; Lactococcus lactis bacteriophage major capsid protein
      cd03273
      Location:1 → 172
      ABC_SMC2_euk; ATP-binding cassette domain of eukaryotic SMC2 proteins
      smart00968
      Location:522 → 639
      SMC_hinge; SMC proteins Flexible Hinge Domain
      COG1196
      Location:1 → 1168
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam13863
      Location:740 → 841
      DUF4200; Domain of unknown function (DUF4200)
      cl21455
      Location:1074 → 1168
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
      cl23943
      Location:693 → 761
      PCRF; PCRF domain

    RefSeqs of Annotated Genomes: GCF_036323735.1-RS_2024_02

    The following sections contain reference sequences that belong to a specific genome build. Explain

    Reference GRCr8

    Genomic

    1. NC_086023.1 Reference GRCr8

      Range
      71592428..71648636
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. XM_006238165.5 → XP_006238227.1  structural maintenance of chromosomes protein 2 isoform X1

      See identical proteins and their annotated locations for XP_006238227.1

      UniProtKB/TrEMBL
      D4A5Q2
      Conserved Domains (7) summary
      pfam06673
      Location:252 → 465
      L_lactis_ph-MCP; Lactococcus lactis bacteriophage major capsid protein
      cd03273
      Location:1 → 172
      ABC_SMC2_euk; ATP-binding cassette domain of eukaryotic SMC2 proteins
      smart00968
      Location:522 → 639
      SMC_hinge; SMC proteins Flexible Hinge Domain
      COG1196
      Location:1 → 1168
      Smc; Chromosome segregation ATPase [Cell cycle control, cell division, chromosome partitioning]
      pfam13863
      Location:740 → 841
      DUF4200; Domain of unknown function (DUF4200)
      cl21455
      Location:1074 → 1168
      P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases
      cl23943
      Location:693 → 761
      PCRF; PCRF domain

    2. XM_063287920.1 → XP_063143990.1  structural maintenance of chromosomes protein 2 isoform X1

      UniProtKB/TrEMBL
      D4A5Q2
    Nucleotide Protein Strain
    Heading Accession and Version

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