Histone methyltransferase

Histone methyltransferase (HMT) are histone-lysine N-methyltransferase (KHMT) and histone-arginine N-methyltransferase (RHMT) which catalyzes the transfer of methyl groups to lysine and arginine residues of histones. HMT use S-adenosyl methionine (SAM) or S-adenosyl homocysteine (SAH) as the methyl donor. KHMT can be SET domain-containing or non-SET domain-containing. The SET domain contains the catalytic core of KHMT and targets the lysine tail region of KHMT. CxxC domain is a zinc finger domain.

3D Structures of histone methyltransferase3D Structures of histone methyltransferase

Updated on 28-August-2014

1nw3 – hHMT DOT1L – human

2igq – hHMT-1 C terminal

Histone-lysine N-methyltransferaseHistone-lysine N-methyltransferase

2j8a – KHMT SET1 RRM domain – yeast

3s8s – hKHMT SETD1A RRM domain
2r3a – hKHMT Suv39H2
3rq4 - hKHMT Suv420H2
3s8p - hKHMT Suv420H1
3mts - hKHMT Suv39H1 chromo domain
1h3i - hKHMT SET7/9 residues 52-344
2o8j - hKHMT H3K9 residues 913-1193
2lv9 - hKHMT Mll5 residues 109-188 - NMR
2kyu - hKHMT Mll Phd3 finger – NMR
4gnd - hKHMT Nsd3 Phd5-C5HCH
3lqh - hKHMT Mll Phd bromodomain
3b7b - hKHMT ankyrin repeat domains 2-7
3bo5 – hKHMT Setmar methyltransferase domain
3k9j, 3k9k – hKHMT Setmar transposable domain (mutant)
3dlm - hKHMT Setmdb1 Tudor domain
3n71 - hKHMT Smyd1
3rsn, 3s32 – hKHMT Ash2 N terminal
3toj – hKHMT Ash2 Spry domain
4ijd – hKHMT Prdm9
4mi0 – hKHMT Ezh2
4mi5 – hKHMT Ezh2 SET domain
1ml9 – NcKHMT Dim-5 – Neurospora crassa
1n3j – PvKHMT – Paramecium bursaria chlorella virus
1u2z – yKHMT C terminal
2l7p – AtKHMT Ashh2 CW domain – Arabidopsis thaliana - NMR
2lxe – AtKHMT Suvr4 SET31 - NMR

Histone-lysine N-methyltransferase binary complexesHistone-lysine N-methyltransferase binary complexes

2kkf – hKHMT Hrx CxxC domain +_DNA – NMR
4nw3 – hKHMT Mll CxxC domain + DNA
4pzi – hKHMT CxxC domain + DNA
3q0b, 3q0c, 3q0d, 3q0f – hKHMT SRA domain +_DNA
3qow – hKHMT + SAM
4fmu – hKHMT SETD2 + inhibitor
4h12 – hKHMT SETD2 + SAH
3smt – hKHMT SETD3 + SAM
4bup, 3ooi – hKHMT SET domain + SAM
3qox, 3sx0 – hKHMT + SAH
3sr4, 3uwp, 4ek9, 4ekg, 4eki, 4eqz, 4er0, 4er3, 4er5, 4er6, 4er7, 4hra - hKHMT catalytic domain + inhibitor
2w5y – hKHMT Hrx methyltransferase domain +_SAH
3lqi, 3lqj - hKHMT Mll Phd bromodomain + H3 peptide
3f2k – hKHMT Setmar SET domain + LYFA peptide
3sw9, 3swc – hKHMT SET domain + peptide
4gne, 4gnf, 4gng - hKHMT Nsd3 Phd5-C5HCH + H3 peptide
3b95 - hKHMT ankyrin repeat domain + H3 peptide
3lqi, 3lqj - hKHMT Mll1 3rd Phd finger and bromodomain + H3 peptide
3rib – hKHMT Smyd2 + SAH
3s7j, 3tg4 - hKHMT Smyd2 + SAM
1mt6 - hKHMT SET7/9 residues 58-337 + SAH
1n6a – hKHMT SET7/9 SET domain + SAM
1n6c – hKHMT SET7/9 residues 70-366 + SAM
3cbp - hKHMT SET7/9 SET domain + sinefungin
3vuz, 3vv0 - hKHMT SET7/9 SET domain + deoxyadenosine derivative
4l58 - hKHMT PHD-type zinc finger domain + H3 peptide

Histone-lysine N-methyltransferase ternary complexHistone-lysine N-methyltransferase ternary complex

2w5z – hKHMT Hrx methyltransferase domain +_SAH + histone peptide
1o9s - hKHMT SET7/9 SET domain + SAH + H3 peptide
2bqz - hKHMT SET7 SET domain + SAH + H4 peptide
3f9w, 3f9x, 3f9y, 3f9z - hKHMT SETD8 SET domain + SAH + H4 peptide
4ij8 - hKHMT SETD8 + SAM + H3 peptide
4j7i, 4j83, 4j8o, 4j7f - hKHMT SETD7 + SAH + TFIID peptide
3fpd, 3k5k, 3mo0, 3mo2, 3mo5, 3rjw, 4nvq - hKHMT SET domain + SAH + inhibitor
2rfi, 3hna - hKHMT H3K9 catalytic domain + SAH + H3 peptide
1xqh - hKHMT SET7/9 SET domain + SAH + p53 peptide
2f69, 3m53 - hKHMT SET7/9 SZET domain + SAH + TAF10 peptide
3m54, 3m55, 3m56, 3m57, 3m58, 3m59, 3m5a - hKHMT SET7/9 SET domain (mutant) + SAH + TAF10 peptide
3cbm - hKHMT SET7/9 SET domain + SAM + estrogen receptor peptide
4e47, 4jds, 4jlg - hKHMT SET7/9 SET domain + SAM + inhibitor
3cbo - hKHMT SET7/9 SET domain + SAH + estrogen receptor peptide
3os5 - hKHMT SET7/9 SET domain + SAH + DNMT1 peptide
3qxy, 3rc0 - hKHMT SETD6 SET domain + p65 peptide + SAM
3s7b - hKHMT Smyd2 + SAM + inhibitor
3s7d, 3s7f, 3tg5 - hKHMT Smyd2 + SAH + p53 peptide
4o6f – hKHMT Smyd2 (mutant) + SAH + estrogen receptor peptide
1zkk - hKHMT + SAH + H4 peptide
4c1q - hKHMT SET domain + SAH + H3 peptide
4i51 - hKHMT (mutant) + SAH + H3 peptide
1peg - NcKHMT Dim-5 + SAH + H3 peptide
2g46 – PvKHMT + SAH + H3 peptide
4au7 - mKHMT + SAH + H4 peptide - mouse

Histone-arginine N-methyltransferase (Carm1)Histone-arginine N-methyltransferase (Carm1)

2v74, 2v7e – mRHMT catalytic domain
2obq – rRHMT N terminal - rat
3b3g, 3b3j – rRHMT catalytic domain
3b3f – rRHMT catalytic domain + SAH
2y1w, 2y1x – hRHMT catalytic domain + sinefungin + indole inhibitor
4ikp – hRHMT catalytic domain + purine derivative