Lysine-specific histone demethylase
From Proteopedia
(Difference between revisions)
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== Function == | == Function == | ||
| - | '''Lysine-specific histone demethylase 1 or 1A''' (LSD1) is a flavin-dependent oxidase that catalyzes the removal of methyl groups from mono- and dimethylated lysine 4 of histone H3. LSD1 is a nuclear homolog of amine oxidase. It functions as histone demethylase and transcriptional corepressor. LSD1 demethylation occurs via a reaction which produces formaldehyde. LSD1 is a component of transcriptional co-repressor complex which also contains CoREST (co-repressor of element-1-silencing transcription factor)<ref>PMID:22339659</ref>.<br /> | + | '''Lysine-specific histone demethylase 1 or 1A''' (LSD1) is a flavin-dependent oxidase that catalyzes the removal of methyl groups from mono- and dimethylated lysine 4 of histone H3. LSD1 is a nuclear homolog of amine oxidase. LSD contains a SWIRM domain which is a small a-helical domain which binds DNA. It functions as histone demethylase and transcriptional corepressor. LSD1 demethylation occurs via a reaction which produces formaldehyde. LSD1 is a component of transcriptional co-repressor complex which also contains CoREST (co-repressor of element-1-silencing transcription factor)<ref>PMID:22339659</ref>.<br /> |
'''Lysine-specific histone demethylase 2 or 1B''' (LSD2) is a flavin-dependent oxidase that catalyzes the removal of methyl groups from mono- and dimethylated lysine 9 of histone H3.<br /> | '''Lysine-specific histone demethylase 2 or 1B''' (LSD2) is a flavin-dependent oxidase that catalyzes the removal of methyl groups from mono- and dimethylated lysine 9 of histone H3.<br /> | ||
'''Lysine-specific histone demethylase 5B or KDM5B''' (LSD5B) is a JmjC domain containing histone demethylase and is an improtant component of DNA repair | '''Lysine-specific histone demethylase 5B or KDM5B''' (LSD5B) is a JmjC domain containing histone demethylase and is an improtant component of DNA repair | ||
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**[[5l3f]], [[5l3g]] - hLSD1 + CoREST + polmyxin peptide<br /> | **[[5l3f]], [[5l3g]] - hLSD1 + CoREST + polmyxin peptide<br /> | ||
**[[4xbf]] - hLSD1 + CoREST + RNA<br /> | **[[4xbf]] - hLSD1 + CoREST + RNA<br /> | ||
| - | **[[4uxn]] - hLSD1 + CoREST + pyrrolydine inhibitor<br /> | + | **[[4uxn]], [[5yjb]] - hLSD1 + CoREST + pyrrolydine inhibitor<br /> |
*lysine-specific histone demethylase 2 | *lysine-specific histone demethylase 2 | ||
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**[[4gu0]] – hLSD2 + histone 3.3 peptide <br /> | **[[4gu0]] – hLSD2 + histone 3.3 peptide <br /> | ||
| - | *lysine-specific histone demethylase 5B or JARID1B or KDM5B | + | *lysine-specific histone demethylase 5B or JARID1B or KDM5B. Domains: zinc finger 1 306-360; PHD-type zinc finger 1487-1544; ARID 94-208; JmjC 26-101 + 374-772 |
**[[2ma5]] – hLSD5B zinc finger domain 3 - NMR<br /> | **[[2ma5]] – hLSD5B zinc finger domain 3 - NMR<br /> | ||
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**[[2mnz]] – hLSD5B zinc finger domain 1 + histone 3 peptide - NMR<br /> | **[[2mnz]] – hLSD5B zinc finger domain 1 + histone 3 peptide - NMR<br /> | ||
**[[2eqy]] – hLSD5B ARID domain - NMR<br /> | **[[2eqy]] – hLSD5B ARID domain - NMR<br /> | ||
| - | **[[5a3p]] – hLSD5B | + | **[[5a3p]] – hLSD5B JmjC domain <br /> |
| - | **[[5lwb]], [[5lw9]], [[5fun]], [[5fz0]], [[5fzk]], [[5fzl]], [[5fz9]], [[5fza]], [[5fzb]], [[5fzc]], [[5fyt]], [[5fyu]], [[5fyy]], [[5fyz]], [[5fz3]], [[5fz4]], [[5fz6]], [[5fz7]], [[5fpl]], [[5fpu]], [[5a3n]], [[5a3t]], [[5a3w]] – hLSD5B | + | **[[5lwb]], [[5lw9]], [[5fun]], [[5fz0]], [[5fzk]], [[5fzl]], [[5fz9]], [[5fza]], [[5fzb]], [[5fzc]], [[5fyt]], [[5fyu]], [[5fyy]], [[5fyz]], [[5fz3]], [[5fz4]], [[5fz6]], [[5fz7]], [[5fpl]], [[5fpu]], [[5a3n]], [[5a3t]], [[5a3w]], [[6ein]], [[6eiu]], [[6eiy]], [[6ej0]], [[6ej1]], [[6ek6]], [[5fzm]], [[5fzi]], [[5fzg]], [[5fzf]], [[5fze]], [[5fzd]], [[5fz8]], [[5fyb]] – hLSD5B JmjC domain + inhibitor<br /> |
| - | **[[5fzh]], [[5fz1]] – hLSD5B | + | **[[5fzh]], [[5fz1]] – hLSD5B JmjC domain + ligand<br /> |
| - | **[[5fup]] – hLSD5B + oxoglutarate<br /> | + | **[[5fup]], [[5fys]] – hLSD5B JmjC domain + oxoglutarate<br /> |
| - | **[[5fv3]], [[5a1f]] – hLSD5B + oxalyl glycine<br /> | + | **[[5fyv]] – hLSD5B JmjC domain + oxaloacetate<br /> |
| + | **[[5fy9]] – hLSD5B JmjC domain + pyruvate<br /> | ||
| + | **[[5fy5]] – hLSD5B JmjC domain + fumarate<br /> | ||
| + | **[[5fy4]] – hLSD5B JmjC domain + succinate<br /> | ||
| + | **[[5fv3]], [[5a1f]] – hLSD5B JmjC domain + oxalyl glycine<br /> | ||
| + | |||
| + | *lysine-specific histone demethylase 2A or KDM2A | ||
| + | |||
| + | **[[4bbq]] – hKDM2A residues 567-681<br /> | ||
| + | **[[6c16]], [[6byh]] – hKDM2A residues 888-932 + SKP1 + polyubiquitin <br /> | ||
| + | **[[4tn7]], [[4qxh]], [[4qxc]], [[4qxb]], [[4qx8]], [[4qx7]], [[4qwn]] – hKDM2A residues 36-364 + histone peptide <br /> | ||
| + | |||
| + | *lysine-specific histone demethylase 2B or KDM2B | ||
| + | |||
| + | **[[4o64]] – hKDM2B residues 607-723<br /> | ||
| + | **[[6bva]] – hKDM2B residues 888-932 + SKP1 + polyubiquitin <br /> | ||
| + | **[[5jh5]] – hKDM2B residues 1059-1336 + SKP1 + NSPC1 + BCor-like protein <br /> | ||
}} | }} | ||
Revision as of 09:37, 1 August 2018
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3D structures of lysine-specific histone demethylase
Updated on 01-August-2018
References
- ↑ Chen Y, Jie W, Yan W, Zhou K, Xiao Y. Lysine-specific histone demethylase 1 (LSD1): A potential molecular target for tumor therapy. Crit Rev Eukaryot Gene Expr. 2012;22(1):53-9. PMID:22339659
- ↑ Pollock JA, Larrea MD, Jasper JS, McDonnell DP, McCafferty DG. Lysine-specific histone demethylase 1 inhibitors control breast cancer proliferation in ERalpha-dependent and -independent manners. ACS Chem Biol. 2012 Jul 20;7(7):1221-31. doi: 10.1021/cb300108c. Epub 2012 May, 10. PMID:22533360 doi:http://dx.doi.org/10.1021/cb300108c
- ↑ van Essen D, Zhu Y, Saccani S. A feed-forward circuit controlling inducible NF-kappaB target gene activation by promoter histone demethylation. Mol Cell. 2010 Sep 10;39(5):750-60. doi: 10.1016/j.molcel.2010.08.010. PMID:20832726 doi:http://dx.doi.org/10.1016/j.molcel.2010.08.010
- ↑ Li X, Liu L, Yang S, Song N, Zhou X, Gao J, Yu N, Shan L, Wang Q, Liang J, Xuan C, Wang Y, Shang Y, Shi L. Histone demethylase KDM5B is a key regulator of genome stability. Proc Natl Acad Sci U S A. 2014 May 13;111(19):7096-101. doi:, 10.1073/pnas.1324036111. Epub 2014 Apr 28. PMID:24778210 doi:http://dx.doi.org/10.1073/pnas.1324036111
- ↑ Chen Y, Yang Y, Wang F, Wan K, Yamane K, Zhang Y, Lei M. Crystal structure of human histone lysine-specific demethylase 1 (LSD1). Proc Natl Acad Sci U S A. 2006 Sep 19;103(38):13956-61. Epub 2006 Sep 6. PMID:16956976
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