U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

KMT5C lysine methyltransferase 5C [ Homo sapiens (human) ]

Gene ID: 84787, updated on 7-Jul-2024

Summary

Official Symbol
KMT5Cprovided by HGNC
Official Full Name
lysine methyltransferase 5Cprovided by HGNC
Primary source
HGNC:HGNC:28405
See related
Ensembl:ENSG00000133247 MIM:613198; AllianceGenome:HGNC:28405
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SUV420H2; Suv4-20h2
Summary
SUV420H2 and the related enzyme SUV420H1 (MIM 610881) function as histone methyltransferases that specifically trimethylate nucleosomal histone H4 (see MIM 602822) on lysine-20 (K20) (Schotta et al., 2004 [PubMed 15145825]).[supplied by OMIM, Dec 2009]
Expression
Ubiquitous expression in bone marrow (RPKM 1.9), placenta (RPKM 1.5) and 25 other tissues See more
Orthologs
NEW
Try the new Gene table
Try the new Transcript table

Genomic context

See KMT5C in Genome Data Viewer
Location:
19q13.42
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 19 NC_000019.10 (55339876..55348121)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 19 NC_060943.1 (58435095..58443627)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 19 NC_000019.9 (55851244..55859489)

Chromosome 19 - NC_000019.10Genomic Context describing neighboring genes Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:55781781-55782280 Neighboring gene HSPA (Hsp70) binding protein 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15088 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:55789069-55789569 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15089 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11021 Neighboring gene BR serine/threonine kinase 1 Neighboring gene Sharpr-MPRA regulatory region 11129 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:55824387-55824912 Neighboring gene transmembrane protein 150B Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:55849388-55850162 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:55850163-55850936 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15090 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11022 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11023 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:55855204-55856008 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:55856009-55856814 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr19:55858005-55858699 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11024 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 11025 Neighboring gene cytochrome c oxidase subunit 6B2 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 15091 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:55871113-55871613 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr19:55874435-55875039 Neighboring gene golgi associated RAB2 interactor family member 5B

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Clone Names

  • MGC2705, FLJ51466, FLJ98627

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables S-adenosyl-L-methionine binding IDA
Inferred from Direct Assay
more info
PubMed 
enables chromatin binding IDA
Inferred from Direct Assay
more info
PubMed 
enables histone H4 methyltransferase activity TAS
Traceable Author Statement
more info
 
enables histone H4K20 methyltransferase activity IBA
Inferred from Biological aspect of Ancestor
more info
 
enables histone H4K20 methyltransferase activity IDA
Inferred from Direct Assay
more info
PubMed 
enables histone H4K20 methyltransferase activity IMP
Inferred from Mutant Phenotype
more info
PubMed 
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 binding IEA
Inferred from Electronic Annotation
more info
 
enables metal ion binding IEA
Inferred from Electronic Annotation
more info
 
enables protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
involved_in DNA repair IMP
Inferred from Mutant Phenotype
more info
PubMed 
involved_in chromatin remodeling IEA
Inferred from Electronic Annotation
more info
 
involved_in methylation IEA
Inferred from Electronic Annotation
more info
 
involved_in positive regulation of double-strand break repair via nonhomologous end joining IMP
Inferred from Mutant Phenotype
more info
PubMed 
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 IEA
Inferred from Electronic Annotation
more info
 
part_of heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 
located_in nucleoplasm IDA
Inferred from Direct Assay
more info
 
located_in nucleoplasm TAS
Traceable Author Statement
more info
 
is_active_in nucleus IBA
Inferred from Biological aspect of Ancestor
more info
 
part_of pericentric heterochromatin IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
histone-lysine N-methyltransferase KMT5C
Names
[histone H4]-N-methyl-L-lysine20 N-methyltransferase KMT5B
[histone H4]-lysine20 N-methyltransferase KMT5B
histone-lysine N-methyltransferase SUV420H2
lysine (K)-specific methyltransferase 5C
lysine N-methyltransferase 5C
lysine-specific methyltransferase 5C
su(var)4-20 homolog 2
suppressor of variegation 4-20 homolog 2
NP_116090.2
XP_006723505.1
XP_011525717.1
XP_047295511.1
XP_047295512.1
XP_054178384.1
XP_054178385.1
XP_054178386.1
XP_054178387.1

NCBI Reference Sequences (RefSeq)

NEW Try the new Transcript table

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_032701.4NP_116090.2  histone-lysine N-methyltransferase KMT5C

    See identical proteins and their annotated locations for NP_116090.2

    Status: VALIDATED

    Source sequence(s)
    AK308586, AW248704, BC044889
    Consensus CDS
    CCDS12922.1
    UniProtKB/Swiss-Prot
    Q86Y97, Q8WZ10, Q9BRZ6
    Related
    ENSP00000255613.3, ENST00000255613.8
    Conserved Domains (1) summary
    cd19185
    Location:102243
    SET_KMT5C; SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 5C (KMT5C) and similar proteins

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000019.10 Reference GRCh38.p14 Primary Assembly

    Range
    55339876..55348121
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011527415.4XP_011525717.1  histone-lysine N-methyltransferase KMT5C isoform X1

    See identical proteins and their annotated locations for XP_011525717.1

    UniProtKB/Swiss-Prot
    Q86Y97, Q8WZ10, Q9BRZ6
    Conserved Domains (1) summary
    cd19185
    Location:102243
    SET_KMT5C; SET domain (including post-SET domain) found in histone-lysine N-methyltransferase 5C (KMT5C) and similar proteins
  2. XM_047439555.1XP_047295511.1  histone-lysine N-methyltransferase KMT5C isoform X2

    UniProtKB/TrEMBL
    A0A0D9SF94
    Related
    ENSP00000486397.1, ENST00000630497.1
  3. XM_006723442.4XP_006723505.1  histone-lysine N-methyltransferase KMT5C isoform X2

    See identical proteins and their annotated locations for XP_006723505.1

    UniProtKB/TrEMBL
    A0A0D9SF94
    Conserved Domains (1) summary
    smart00317
    Location:5109
    SET; SET (Su(var)3-9, Enhancer-of-zeste, Trithorax) domain
  4. XM_047439556.1XP_047295512.1  histone-lysine N-methyltransferase KMT5C isoform X3

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060943.1 Alternate T2T-CHM13v2.0

    Range
    58435095..58443627
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054322409.1XP_054178384.1  histone-lysine N-methyltransferase KMT5C isoform X1

    UniProtKB/Swiss-Prot
    Q86Y97, Q8WZ10, Q9BRZ6
  2. XM_054322410.1XP_054178385.1  histone-lysine N-methyltransferase KMT5C isoform X2

    UniProtKB/TrEMBL
    A0A0D9SF94
  3. XM_054322411.1XP_054178386.1  histone-lysine N-methyltransferase KMT5C isoform X2

    UniProtKB/TrEMBL
    A0A0D9SF94
  4. XM_054322412.1XP_054178387.1  histone-lysine N-methyltransferase KMT5C isoform X3