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Kmt5b lysine methyltransferase 5B [ Rattus norvegicus (Norway rat) ]

Gene ID: 361688, updated on 30-Mar-2024

Summary

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Official Symbol
Kmt5bprovided by RGD
Official Full Name
lysine methyltransferase 5Bprovided by RGD
Primary source
RGD:1311637
See related
Ensembl:ENSRNOG00000016790 AllianceGenome:RGD:1311637
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
Suv420h1
Summary
Predicted to enable S-adenosyl-L-methionine binding activity; chromatin binding activity; and histone methyltransferase activity (H4-K20 specific). Predicted to be involved in DNA repair; histone H4-K20 trimethylation; and positive regulation of DNA metabolic process. Predicted to act upstream of or within histone methylation. Predicted to be located in condensed chromosome, centromeric region and nucleoplasm. Predicted to be active in nucleus. Human ortholog(s) of this gene implicated in autosomal dominant mental retardation 51. Orthologous to human KMT5B (lysine methyltransferase 5B). [provided by Alliance of Genome Resources, Apr 2022]
Expression
Biased expression in Thymus (RPKM 174.3), Lung (RPKM 145.2) and 9 other tissues See more
Orthologs
human mouse all
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Genomic context

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See Kmt5b in Genome Data Viewer
Location:
1q43
Exon count:
13
Annotation release Status Assembly Chr Location
RS_2024_02 current GRCr8 (GCF_036323735.1) 1 NC_086019.1 (210429672..210479042)
RS_2023_06 previous assembly mRatBN7.2 (GCF_015227675.2) 1 NC_051336.1 (201000444..201049819)
106 previous assembly Rnor_6.0 (GCF_000001895.5) 1 NC_005100.4 (219000844..219050211)

Chromosome 1 - NC_086019.1Genomic Context describing neighboring genes Neighboring gene similar to human chromosome 11 open reading frame 24 Neighboring gene family with sequence similarity 18, member B, pseudogene 1 Neighboring gene transfer RNA proline (anticodon AGG) 2 Neighboring gene choline kinase alpha

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. Crystal structures of the human histone H4K20 methyltransferases SUV420H1 and SUV420H2. Wu H, et al. FEBS Lett, 2013 Nov 29. PMID 24396869
  2. The SUV4-20 inhibitor A-196 verifies a role for epigenetics in genomic integrity. Bromberg KD, et al. Nat Chem Biol, 2017 Mar. PMID 28114273
  3. A novel route to product specificity in the Suv4-20 family of histone H4K20 methyltransferases. Southall SM, et al. Nucleic Acids Res, 2014 Jan. PMID 24049080, Free PMC Article
  4. Modulation of p53 function by SET8-mediated methylation at lysine 382. Shi X, et al. Mol Cell, 2007 Aug 17. PMID 17707234, Free PMC Article
  5. A silencing pathway to induce H3-K9 and H4-K20 trimethylation at constitutive heterochromatin. Schotta G, et al. Genes Dev, 2004 Jun 1. PMID 15145825, Free PMC Article

See all (8) citations in PubMed

GeneRIFs: Gene References Into Functions

General gene information

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Markers

Homology

Gene Ontology Provided by RGD

Function Evidence Code Pubs
enables S-adenosyl-L-methionine binding ISO
Inferred from Sequence Orthology
more info
  
enables S-adenosyl-L-methionine binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables chromatin binding ISO
Inferred from Sequence Orthology
more info
  
enables chromatin binding ISS
Inferred from Sequence or Structural Similarity
more info
  
enables histone H4K20 methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables histone H4K20 methyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H4K20 methyltransferase activity ISO
Inferred from Sequence Orthology
more info
  
enables histone H4K20 methyltransferase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables histone H4K20 monomethyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone H4K20me methyltransferase activity IEA
Inferred from Electronic Annotation
more info
  
enables histone methyltransferase activity ISO
Inferred from Sequence Orthology
more info
  
enables histone methyltransferase activity ISS
Inferred from Sequence or Structural Similarity
more info
  
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
  
Process Evidence Code Pubs
involved_in DNA repair ISO
Inferred from Sequence Orthology
more info
  
involved_in DNA repair ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in biological_process ND
No biological Data available
more info
  
involved_in chromatin remodeling IEA
Inferred from Electronic Annotation
more info
  
involved_in methylation IEA
Inferred from Electronic Annotation
more info
  
involved_in muscle organ development IEA
Inferred from Electronic Annotation
more info
  
involved_in positive regulation of double-strand break repair via nonhomologous end joining ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of double-strand break repair via nonhomologous end joining ISS
Inferred from Sequence or Structural Similarity
more info
  
involved_in positive regulation of isotype switching ISO
Inferred from Sequence Orthology
more info
  
involved_in positive regulation of isotype switching ISS
Inferred from Sequence or Structural Similarity
more info
  
Component Evidence Code Pubs
located_in condensed chromosome, centromeric region 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
  
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in nucleus IEA
Inferred from Electronic Annotation
more info
  

General protein information

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Preferred Names
histone-lysine N-methyltransferase KMT5B
Names
[histone H4]-N-methyl-L-lysine20 N-methyltransferase KMT5B
[histone H4]-lysine20 N-methyltransferase KMT5B
histone-lysine N-methyltransferase SUV420H1
lysine (K)-specific methyltransferase 5B
lysine-specific methyltransferase 5B
su(var)4-20 homolog 1
suppressor of variegation 4-20 homolog 1
suv4-20h1
NP_001101982.1
XP_038939567.1
XP_038939570.1
XP_038939576.1
XP_038939584.1
XP_038939588.1
XP_038939595.1
XP_038939599.1

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_001108512.2 → NP_001101982.1  histone-lysine N-methyltransferase KMT5B

    See identical proteins and their annotated locations for NP_001101982.1

    Status: PROVISIONAL

    Source sequence(s)
    JAXUCZ010000001
    UniProtKB/Swiss-Prot
    P0C2N5
    UniProtKB/TrEMBL
    A6HYL9
    Related
    ENSRNOP00000022486.5, ENSRNOT00000022486.7
    Conserved Domains (1) summary
    cd19184
    Location:192 → 335
    SET_KMT5B; SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 5B (KMT5B) and similar proteins

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_086019.1 Reference GRCr8

    Range
    210429672..210479042
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_039083667.2 → XP_038939595.1  histone-lysine N-methyltransferase KMT5B isoform X4

    Conserved Domains (1) summary
    cl40432
    Location:192 → 325
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

  2. XM_039083648.2 → XP_038939576.1  histone-lysine N-methyltransferase KMT5B isoform X2

    UniProtKB/TrEMBL
    A0A8I6G6N5, A6HYM0
    Related
    ENSRNOP00000080478.1
    Conserved Domains (1) summary
    cd19184
    Location:169 → 312
    SET_KMT5B; SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 5B (KMT5B) and similar proteins

  3. XM_039083671.2 → XP_038939599.1  histone-lysine N-methyltransferase KMT5B isoform X5

    Conserved Domains (1) summary
    cl40432
    Location:192 → 274
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain superfamily

  4. XM_039083639.2 → XP_038939567.1  histone-lysine N-methyltransferase KMT5B isoform X1

    UniProtKB/Swiss-Prot
    P0C2N5
    UniProtKB/TrEMBL
    A6HYL9
    Conserved Domains (1) summary
    cd19184
    Location:192 → 335
    SET_KMT5B; SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 5B (KMT5B) and similar proteins

  5. XM_039083642.1 → XP_038939570.1  histone-lysine N-methyltransferase KMT5B isoform X1

    UniProtKB/Swiss-Prot
    P0C2N5
    UniProtKB/TrEMBL
    A6HYL9
    Conserved Domains (1) summary
    cd19184
    Location:192 → 335
    SET_KMT5B; SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 5B (KMT5B) and similar proteins

  6. XM_039083660.2 → XP_038939588.1  histone-lysine N-methyltransferase KMT5B isoform X3

  7. XM_039083656.2 → XP_038939584.1  histone-lysine N-methyltransferase KMT5B isoform X3

Nucleotide Protein Strain
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P0C2N5.1 GenPept UniProtKB/Swiss-Prot:P0C2N5

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