Q9CWR2

SS
Gene name
Smyd3 (Zmynd1)
Protein name
Histone-lysine N-methyltransferase SMYD3
Names
EC 2.1.1.354 , SET and MYND domain-containing protein 3 , Zinc finger MYND domain-containing protein 1
Species
Mus musculus (Mouse)
KEGG Pathway
mmu:69726
EC number
2.1.1.354: Methyltransferases
Protein Class

Descriptions

SmyD3 belongs to a new family of chromatin regulators, which is characterized by the presence of SET and MYND domains. The SET domain is an evolutionarily conserved domain largely responsible for histone lysine methylation, while the zinc-finger MYND domain is a protein-protein interaction module that mediates specific protein interaction via a proline-rich sequence. The C-terminal autoinhibitory domain (CTD) prevents substrate binding to SmyD3 by partially blocking the substrate-binding cleft. Upon binding to cofactors such as Hsp90, the CTD’s hinge motion leads to an open conformation, which opens the substrate-binding cleft in the SET domain, allowing the substrate to enter the protein’s active site.

Autoinhibitory domains (AIDs)

280-428 (C-terminal domain) SS

Target domain

182-245 (core SET domain)

Relief mechanism

Partner binding

Assay

Accessory elements

No accessory elements

References

Autoinhibited structure

Activated structure

1 structures for Q9CWR2

Entry ID Method Resolution Chain Position Source
AF-Q9CWR2-F1 Predicted AlphaFoldDB

17 variants for Q9CWR2

Variant ID(s) Position Change Description Diseaes Association Provenance
rs235800995 13 N>D No EVA
rs3388517023 14 R>G No EVA
rs3388514959 26 P>L No EVA
rs3388516099 47 V>I No EVA
rs3388517068 68 A>P No EVA
rs13465358 88 S>R No EVA
rs3388521790 143 G>C No EVA
rs3388521191 195 V>I No EVA
rs3388520925 220 H>N No EVA
rs36310887 264 I>V No EVA
rs1132482605 273 A>V No EVA
rs13459055 318 N>D No EVA
rs3388514985 320 L>P No EVA
rs3388514554 341 L>Q No EVA
rs3388514946 348 L>M No EVA
rs3388519333 405 G>V No EVA
rs3388520861 407 E>G No EVA

No associated diseases with Q9CWR2

6 regional properties for Q9CWR2

Type Name Position InterPro Accession
domain Dbl homology (DH) domain 1158 - 1342 IPR000219
conserved_site Guanine-nucleotide dissociation stimulator, CDC24, conserved site 1290 - 1315 IPR001331
domain SH3 domain 1494 - 1555 IPR001452
domain Pleckstrin homology domain 1375 - 1488 IPR001849
domain Rho guanine nucleotide exchange factor 5/35, N-terminal 1 - 477 IPR029212
domain Ephexin-like, PH domain 1362 - 1488 IPR047270

Functions

Description
EC Number 2.1.1.354 Methyltransferases
Subcellular Localization
  • Cytoplasm
  • Nucleus
  • Mainly cytoplasmic when cells are arrested at G0/G1
  • Accumulates in the nucleus at S phase and G2/M
PANTHER Family
PANTHER Subfamily
PANTHER Protein Class
PANTHER Pathway Category No pathway information available

3 GO annotations of cellular component

Name Definition
cytosol The part of the cytoplasm that does not contain organelles but which does contain other particulate matter, such as protein complexes.
nucleoplasm That part of the nuclear content other than the chromosomes or the nucleolus.
nucleus A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent.

7 GO annotations of molecular function

Name Definition
histone H3K36 dimethyltransferase activity Catalysis of the reaction
histone H3K4 trimethyltransferase activity Catalysis of the reaction
histone H4 methyltransferase activity Catalysis of the reaction
metal ion binding Binding to a metal ion.
RNA polymerase II cis-regulatory region sequence-specific DNA binding Binding to a specific upstream regulatory DNA sequence (transcription factor recognition sequence or binding site) located in cis relative to the transcription start site (i.e., on the same strand of DNA) of a gene transcribed by RNA polymerase II.
RNA polymerase II complex binding Binding to an RNA polymerase II core enzyme, a multisubunit eukaryotic nuclear RNA polymerase typically composed of twelve subunits.
RNA polymerase II intronic transcription regulatory region sequence-specific DNA binding Binding to an RNA polymerase II intronic DNA sequence that regulates the transcription of the transcript it is contained within.

7 GO annotations of biological process

Name Definition
cellular response to dexamethasone stimulus Any process that results in a change in state or activity of a cell (in terms of movement, secretion, enzyme production, gene expression, etc.) as a result of a dexamethasone stimulus.
establishment of protein localization The directed movement of a protein to a specific location.
methylation The process in which a methyl group is covalently attached to a molecule.
myotube cell development The process aimed at the progression of a myotube cell over time, from initial commitment of the cell to a specific fate, to the fully functional differentiated cell. Myotubes are multinucleated cells that are formed when proliferating myoblasts exit the cell cycle, differentiate and fuse.
nucleosome assembly The aggregation, arrangement and bonding together of a nucleosome, the beadlike structural units of eukaryotic chromatin composed of histones and DNA.
positive regulation of peptidyl-serine phosphorylation Any process that activates or increases the frequency, rate or extent of the phosphorylation of peptidyl-serine.
positive regulation of transcription by RNA polymerase II Any process that activates or increases the frequency, rate or extent of transcription from an RNA polymerase II promoter.

13 homologous proteins in AiPD

UniProt AC Gene Name Protein Name Species Evidence Code
Q0P585 SMYD2 N-lysine methyltransferase SMYD2 Bos taurus (Bovine) SS
E1C5V0 SMYD2 N-lysine methyltransferase SMYD2 Gallus gallus (Chicken) SS
Q5ZIZ2 SMYD5 Histone-lysine N-trimethyltransferase SMYD5 Gallus gallus (Chicken) PR
Q6GMV2 SMYD5 Histone-lysine N-trimethyltransferase SMYD5 Homo sapiens (Human) PR
Q9NRG4 SMYD2 N-lysine methyltransferase SMYD2 Homo sapiens (Human) SS
Q9H7B4 SMYD3 Histone-lysine N-methyltransferase SMYD3 Homo sapiens (Human) EV
Q3TYX3 Smyd5 Histone-lysine N-trimethyltransferase SMYD5 Mus musculus (Mouse) PR
Q8R5A0 Smyd2 N-lysine methyltransferase SMYD2 Mus musculus (Mouse) EV
C3RZA1 SMYD2 N-lysine methyltransferase SMYD2 Sus scrofa (Pig) SS
Q7M6Z3 Smyd2 N-lysine methyltransferase SMYD2 Rattus norvegicus (Rat) SS
P34318 set-3 SET domain-containing protein 3 Caenorhabditis elegans PR
Q5RGL7 smyd2b N-lysine methyltransferase SMYD2-B Danio rerio (Zebrafish) (Brachydanio rerio) SS
Q5BJI7 smyd2a N-lysine methyltransferase SMYD2-A Danio rerio (Zebrafish) (Brachydanio rerio) SS
10 20 30 40 50 60
MEALKVEKFT TANRGNGLRA VAPLRPGELL FRSDPLAYTV CKGSRGVVCD RCLLGKEKLM
70 80 90 100 110 120
RCSQCRIAKY CSAKCQKKAW PDHRRECSCL KSCKPRYPPD SVRLLGRVIV KLMDEKPSES
130 140 150 160 170 180
EKLYSFYDLE SNISKLTEDK KEGLRQLAMT FQHFMREEIQ DASQLPPSFD LFEAFAKVIC
190 200 210 220 230 240
NSFTICNAEM QEVGVGLYPS MSLLNHSCDP NCSIVFNGPH LLLRAVREIE AGEELTICYL
250 260 270 280 290 300
DMLMTSEERR KQLRDQYCFE CDCIRCQTQD KDADMLTGDE QIWKEVQESL KKIEELKAHW
310 320 330 340 350 360
KWEQVLALCQ AIINSNSNRL PDINIYQLKV LDCAMDACIN LGMLEEALFY AMRTMEPYRI
370 380 390 400 410 420
FFPGSHPVRG VQVMKVGKLQ LHQGMFPQAM KNLRLAFDIM KVTHGREHSL IEDLILLLEE
CDANIRAS