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Hmgn5 high mobility group nucleosome binding domain 5 [ Rattus norvegicus (Norway rat) ]

Gene ID: 100910616, updated on 27-Nov-2024

Summary

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Official Symbol
Hmgn5provided by RGD
Official Full Name
high mobility group nucleosome binding domain 5provided by RGD
Primary source
RGD:6497694
See related
EnsemblRapid:ENSRNOG00000029078 AllianceGenome:RGD:6497694
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Rattus norvegicus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as
Nsbp1
Summary
Predicted to enable chromatin binding activity. Predicted to be involved in negative regulation of apoptotic process; positive regulation of cell population proliferation; and positive regulation of gene expression. Predicted to act upstream of or within chromatin organization; glutathione metabolic process; and regulation of transcription by RNA polymerase II. Predicted to be located in mitochondrion and nucleoplasm. Orthologous to human HMGN5 (high mobility group nucleosome binding domain 5). [provided by Alliance of Genome Resources, Nov 2024]
Expression
Biased expression in Thymus (RPKM 17.3), Testes (RPKM 16.7) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Hmgn5 in Genome Data Viewer
Location:
Xq22
Exon count:
6
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) X NC_086039.1 (78161439..78170613, complement)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) X NC_051356.1 (74085871..74094488, complement)
106 previous assembly Rnor_6.0 (GCF_000001895.5) X NC_005120.4 (80134557..80142902, complement)

Chromosome X - NC_086039.1Genomic Context describing neighboring genes Neighboring gene bromodomain and WD repeat domain containing 3 Neighboring gene uncharacterized LOC134484057 Neighboring gene U6 spliceosomal RNA Neighboring gene SH3 domain binding glutamate rich protein like 1

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. NBP-45, a novel nucleosomal binding protein with a tissue-specific and developmentally regulated expression. Shirakawa H, et al. J Biol Chem, 2000 Mar 3. PMID 10692437
  2. Downregulation of the nucleosome-binding protein 1 (NSBP1) gene can inhibit the in vitro and in vivo proliferation of prostate cancer cells. Jiang N, et al. Asian J Androl, 2010 Sep. PMID 20531280, Free PMC Article
  3. The nucleosomal binding protein NSBP1 is highly expressed in the placenta and modulates the expression of differentiation markers in placental Rcho-1 cells. Shirakawa H, et al. J Cell Biochem, 2009 Mar 1. PMID 19160411, Free PMC Article
  4. Metabolomics reveals a role for the chromatin-binding protein HMGN5 in glutathione metabolism. Ciappio ED, et al. PLoS One, 2014. PMID 24392144, Free PMC Article
  5. Effects of HMGN variants on the cellular transcription profile. Rochman M, et al. Nucleic Acids Res, 2011 May. PMID 21278158, Free PMC Article

See all (10) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables chromatin binding ISO
Inferred from Sequence Orthology
more info
  
enables nucleosomal DNA binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in chromatin organization IEA
Inferred from Electronic Annotation
more info
  
acts_upstream_of_or_within chromatin organization ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within glutathione metabolic process ISO
Inferred from Sequence Orthology
more info
  
involved_in negative regulation of apoptotic process ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of cell population proliferation ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of gene expression ISO
Inferred from Sequence Orthology
more info
  
acts_upstream_of_or_within regulation of transcription by RNA polymerase II ISO
Inferred from Sequence Orthology
more info
  
Component Evidence Code Pubs
located_in chromatin IEA
Inferred from Electronic Annotation
more info
  
located_in mitochondrion ISO
Inferred from Sequence Orthology
more info
  
located_in nucleoplasm ISO
Inferred from Sequence Orthology
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  
located_in nucleus ISO
Inferred from Sequence Orthology
more info
  

General protein information

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Preferred Names
high mobility group nucleosome-binding domain-containing protein 5
Names
nucleosome-binding protein 1

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_001276434.1 → NP_001263363.1  high mobility group nucleosome-binding domain-containing protein 5

    Status: VALIDATED

    Source sequence(s)
    JAXUCZ010000021
    UniProtKB/TrEMBL
    A0A8I5ZU29
    Related
    ENSRNOP00000064623.3, ENSRNOT00000071650.4
    Conserved Domains (1) summary
    pfam01101
    Location:2 → 93
    HMG14_17; HMG14 and HMG17

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_086039.1 Reference GRCr8

    Range
    78161439..78170613 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039099388.2 → XP_038955316.1  high mobility group nucleosome-binding domain-containing protein 5 isoform X1

    UniProtKB/Swiss-Prot
    B4F777
    UniProtKB/TrEMBL
    A6IV78
    Related
    ENSRNOP00000047671.6, ENSRNOT00000048744.7
    Conserved Domains (2) summary
    TIGR00927
    Location:218 → 423
    2A1904; K+-dependent Na+/Ca+ exchanger
    pfam01101
    Location:1 → 95
    HMG14_17; HMG14 and HMG17
Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
B4F777.1 GenPept UniProtKB/Swiss-Prot:B4F777

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

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