Histone deacetylase

From Proteopedia

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Revision as of 09:10, 31 July 2019

Human sirtuin-3 complex with peptide containing acetylated lysine, sulfate, carbonate, glycerol and Zn+2 ion (PDB entry 3glr)

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References

↑ Joshi P, Greco TM, Guise AJ, Luo Y, Yu F, Nesvizhskii AI, Cristea IM. The functional interactome landscape of the human histone deacetylase family. Mol Syst Biol. 2013;9:672. doi: 10.1038/msb.2013.26. PMID:23752268 doi:http://dx.doi.org/10.1038/msb.2013.26
↑ Schwer B, Verdin E. Conserved metabolic regulatory functions of sirtuins. Cell Metab. 2008 Feb;7(2):104-12. doi: 10.1016/j.cmet.2007.11.006. PMID:18249170 doi:http://dx.doi.org/10.1016/j.cmet.2007.11.006
↑ Marks P, Rifkind RA, Richon VM, Breslow R, Miller T, Kelly WK. Histone deacetylases and cancer: causes and therapies. Nat Rev Cancer. 2001 Dec;1(3):194-202. PMID:11902574 doi:http://dx.doi.org/10.1038/35106079
↑ Yamamoto H, Schoonjans K, Auwerx J. Sirtuin functions in health and disease. Mol Endocrinol. 2007 Aug;21(8):1745-55. Epub 2007 Apr 24. PMID:17456799 doi:http://dx.doi.org/10.1210/me.2007-0079
↑ Mann BS, Johnson JR, Cohen MH, Justice R, Pazdur R. FDA approval summary: vorinostat for treatment of advanced primary cutaneous T-cell lymphoma. Oncologist. 2007 Oct;12(10):1247-52. PMID:17962618 doi:http://dx.doi.org/10.1634/theoncologist.12-10-1247
↑ Jin L, Wei W, Jiang Y, Peng H, Cai J, Mao C, Dai H, Choy W, Bemis JE, Jirousek MR, Milne JC, Westphal CH, Perni RB. Crystal structures of human SIRT3 displaying substrate-induced conformational changes. J Biol Chem. 2009 Sep 4;284(36):24394-405. Epub 2009 Jun 16. PMID:19535340 doi:10.1074/jbc.M109.014928

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Michal Harel, Alexander Berchansky, Joel L. Sussman

Retrieved from "http://52.214.119.220/wiki/index.php/Histone_deacetylase"

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 </StructureSection>
-== 3D Structures of histone deacetylase ==
-Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
-{{#tree:id=OrganizedByTopic|openlevels=0|
-*'''HDAC class I'''
-*HDAC1
-**[[4bkx]] – hHDAC1 + MTA1 – human<br />
-**[[3hgq]], [[3hgt]] – hHDAC1 subunit 3<br />
-**[[5icn]] – hHDAC1 + MTA1 + peptide<br />
-**[[5j8j]] – yHDAC1 residues 457-698 – yeast<br />
-*HDAC2
-**[[3max]] – hHDAC2 + amide derivative <br />
-**[[4lxz]] – hHDAC2 core domain + SAHA<br />
-**[[4ly1]], [[5iwg]], [[5ix0]] – hHDAC2 core domain + inhibitor<br />
-*HDAC3
-**[[4a69]] – hHDAC3 + nuclear receptor corepressor 2 + inositol tetraphosphate
-*HDAC8
-**[[3ew8]], [[3ezp]], [[3ezt]], [[3f06]] – hHDAC8 (mutant)<br />
-**[[3sff]], [[3sfh]] – hHDAC8 + inhibitor<br />
-**[[1t64]], [[3f0r]], [[5ths]] – hHDAC8 + trichostatin A <br />
-**[[5tht]], [[5thu]], [[5thv]], [[5dc5]], [[5d1b]] - hHDAC8 (mutant) + amide derivative<br />
-**[[1t67]], [[1w22]], [[1vkg]], [[3f07]] - hHDAC8 + amide derivative<br />
-**[[1t69]] - hHDAC8 + SAHA<br />
-**[[4qa0]] - hHDAC8 (mutant) + SAHA<br />
-**[[5fcw]], [[5fue]] - hHDAC8 + hydroxamate<br />
-**[[5vi6]] - hHDAC8 + trapoxin A<br />
-**[[4qa1]], [[4qa2]], [[4qa3]], [[4qa4]] - hHDAC8 (mutant) + inhibitor<br />
-**[[2v5w]] – hHDAC8 + tripeptide substrate<br />
-**[[4qa5]], [[4qa6]], [[4qa7]], [[3ewf]], [[5dc8]], [[5dc7]], [[5dc6]], [[5d1d]], [[5d1c]] - hHDAC8 (mutant) + tetrapeptide substrate<br />
-**[[3rqd]] - hHDAC8 + largazole<br />
-**[[4rn0]], [[4rn1]], [[4rn2]] - hHDAC8 (mutant) + largazole analog<br />
-**[[5bwz]] - hHDAC8 (mutant) + droxinostat<br />
-**[[3mz3]] - hHDAC8 (Co) + amide derivative<br />
-**[[3mz7]] - hHDAC8 (Co) (mutant) + amide derivative<br />
-**[[3mz4]] - hHDAC8 (Mn) (mutant) + amide derivative<br />
-**[[3mz6]] - hHDAC8 (Fe) (mutant) + amide derivative<br />
-**[[2v5x]] - hHDAC8 (mutant) + octanediamide derivative<br />
-**[[4bz5]] – SmHDAC8 – ''Schistosoma mansoni''<br />
-**[[4bz7]], [[4bz8]], [[4bz9]], [[4cqf]], [[6hsz]], [[6ht8]], [[6htg]], [[6hth]], [[6hti]], [[6htt]], [[6htz]], [[6hu0]], [[6hu1]], [[6hu2]], [[6hu3]], [[6hsh]], [[6hrq]], [[6hqy]] – SmHDAC8 + inhibitor<br />
-**[[6hsk]], [[6hsf]], [[6hsg]] – SmHDAC8 (mutant) + inhibitor<br />
-**[[4bz6]], [[6gxw]], [[6gxu]], [[6gxa]], [[6gx3]], [[6fu1]] – SmHDAC8 + SAHA derivative<br />
-*'''HDAC class IIA'''
-*HDAC4
-**[[2h8n]] – hHDAC4 N terminal <br />
-**[[2o94]] - hHDAC4 N terminal (mutant)<br />
-**[[2vqw]] - hHDAC4 catalytic domain (mutant)<br />
-**[[2vqj]], [[2vqm]], [[4cbt]], [[5a2s]] – hHDAC4 catalytic domain + inhibitor<br />
-**[[6fyz]] - hHDAC4 catalytic domain + SAHA derivative<br />
-**[[2vqo]], [[2vqq]], [[2vqv]], [[4cby]] – hHDAC4 catalytic domain (mutant) + inhibitor<br />
-**[[5zop]], [[5zoo]] - hHDAC4 catalytic domain (mutant) + SMRT corepressor<br />
-*HDAC5
-**[[5uwi]] – hHDAC5 + RAN + RANBP1 + exportin<br />
-*HDAC7
-**[[3c0y]] – hHDAC7 catalytic domain<br />
-**[[3c0z]] - hHDAC7 catalytic domain + octanedioic acid hydroxyamide phenylamide<br />
-**[[3c10]] - hHDAC7 catalytic domain + trichostatin A<br />
-**[[3znr]], [[3zns]] - hHDAC7 catalytic domain + inhibitor<br />
-*HDAC9
-**[[1tqe]] – mHDAC9 + myocyte-specific enhancer factor + DNA – mouse
-*HDAC
-**[[4a6q]], [[4a90]] - hHDAC subunit SAP18 <br />
-**[[2hde]] – hHDAC subunit SAP18 (mutant) – NMR<br />
-**[[4a8x]] - hHDAC subunit SAP18 + RNA-binding protein + hook-like<br />
-**[[2kdp]] – hHDAC subunit SAP30 – NMR<br />
-**[[2ld7]] – hHDAC subunit SAP30 +SIN3A PAH 3 domain – NMR<br />
-**[[5ikk]] – HDAC CLR3 – fission yeast<br />
-*'''HDAC class IIB'''
-*HDAC6
-**[[3c5k]] – hHDAC6 zinc finger domain<br />
-**[[3gv4]] - hHDAC6 zinc finger domain + ubiquitin peptide<br />
-**[[3phd]] - hHDAC6 + polyubiquitin<br />
-**[[5kh3]], [[5kh7]], [[5kh9]], [[5b8d]], [[6ce6]], [[6ce8]], [[6cea]], [[6cec]], [[6ced]], [[6cee]], [[6cef]], [[5wpb]], [[5wbn]] – hHDAC6 zinc finger + inhibitor<br />
-**[[5eem]] – zHDAC6 catalytic domain - zebrafish<br />
-**[[6cgp]], [[5wgm]], [[5wgl]], [[5wgi]], [[5wgk]], [[5g0j]], [[5g0i]], [[5g0h]], [[5g0g]], [[5g0f]], [[5efh]], [[5efg]], [[5efb]], [[5ef7]], [[5ef8]], [[5een]], [[5eek]], [[5eef]], [[6mr5]], [[6dvo]], [[6dvn]], [[6dvm]], [[6dvl]], [[6cw8]] – zHDAC6 catalytic domain + inhibitor <br />
-**[[5eei]], [[6css]], [[6csr]], [[6csq]], [[6csp]], [[5w5k]] – zHDAC6 catalytic domain + SAHA derivative<br />
-**[[5efn]], [[5efk]], [[53fj]] – zHDAC6 catalytic domain (mutant) + peptide <br />
-*'''HDAC class III'''
-*SIRT1
-**[[4ig9]] – hSIRT1 + Zn<br />
-**[[4i5i]] – hSIRT1 + NAD + indole + Zn<br />
-**[[4if6]], [[4kxq]] – hSIRT1 + ADP-ribose + Zn<br />
-**[[5btr]] – hSIRT1 + acetyl lysine peptide + resveratol + Zn<br />
-**[[4zzh]] – hSIRT1 + activator + Zn<br />
-**[[4zzi]] – hSIRT1 + activator + inhibitor + Zn<br />
-**[[4zzj]] – hSIRT1 + acetyl lysine peptide + activator + Zn<br />
-*SIRT2
-**[[2hjh]] – ySIRT2 + pseudosubstrate + nicotinamide + Zn <br />
-**[[4iao]] – ySIRT2 + SIRT4 + ADP-ribose + Zn<br />
-**[[1j8f]], [[3zgo]] – hSIRT2 + Zn<br />
-**[[5yqo]], [[5yqn]], [[5yqm]], [[5yql]] – hSIRT2 + inhibitor + Zn<br />
-**[[5y0z]] – hSIRT2 (mutant) + inhibitor + Zn<br />
-**[[3zgv]], [[5d7o]] – hSIRT2+ ADP ribose + Zn<br />
-**[[4y6q]] – hSIRT2+ ADP ribose derivative + Zn<br />
-**[[4l3o]], [[4y6l]], [[4y6o]] – hSIRT2 + acetyl lysine peptide + Zn<br />
-**[[4x3o]], [[4x3p]] – hSIRT2 + myristoyl peptide + Zn<br />
-**[[4rmg]], [[5dy4]], [[5dy5]], [[5y5n]], [[5mat]] – hSIRT2 + inhibitor + Zn<br />
-**[[5d7p]], [[5d7q]], [[5mar]] – hSIRT2 + inhibitor + ADP-ribose + Zn<br />
-**[[4rmh]],  [[4rmi]] – hSIRT2 + acetyl lysine peptide + inhibitor + Zn<br />
-**[[4r8m]] – hSIRT2 + peptide + tridecanethial + Zn<br />
-**[[4rmj]] – hSIRT2 + ADP-ribose + nicotinamide + Zn <br />
-**[[5g4c]] – hSIRT2 + carba-NAD + Zn<br/ >
-**[[5fyq]] – hSIRT2 + RAN AA peptide + Zn<br/ >
-**[[5dy5]] – hSIRT2 + thiazole derivative + piperazine derivative + Zn<br/ >
-**[[5dy4]] – hSIRT2 + thiazole derivative + NAD + Zn<br/ >
-**[[5d7q]], [[5d7p]], [[5d7o]] – hSIRT2 + oxolan derivative + Zn<br/ >
-*SIRT3
-**[[5d7n]] – hSIRT3 + Zn<br />
-**[[3gls]] – hSIRT3 (mutant) + Zn<br />
-**[[3glu]], [[5ytk]], [[5y4h]] – hSIRT3 + peptide + Zn<br />
-**[[5bwo]], [[5bwn]] – hSIRT3 + palmitoyl H3K9 peptide + Zn<br />
-**[[5bwl]] – hSIRT3 + succinyl peptide + Zn<br />
-**[[3glr]], [[3glt]], [[4fvt]], [[4bve]], [[6iso]] – hSIRT3 + acetyl lysine peptide + Zn<br />
-**[[4hd8]] – hSIRT3 + acetyl lysine peptide + piceatannol + Zn<br />
-**[[4fz3]] – hSIRT3 + acetyl lysine peptide + coumarine derivative + Zn<br />
-**[[4c78]], [[4c7b]] – hSIRT3 + acetyl lysine peptide + resveratol derivative + Zn<br />
-**[[5zgc]], [[5z94]], [[5z93]] – hSIRT3 + histone peptide + Zn<br />
-**[[4jsr]], [[4jt8]], [[4jt9]], [[4o8z]] – hSIRT3 + inhibitor + Zn<br />
-**[[4gbn5]] – hSIRT3 + inhibitor + carba-NAD + Zn<br/ >
-**[[4bv3]] – hSIRT3 + inhibitor + NAD + ADP-ribose  + Zn<br />
-**[[4bvb]], [[4bvh]] – hSIRT3 + inhibitor + ADP-ribose  + Zn<br />
-**[[4bvf]], [[4bvg]] – hSIRT3 + acetyl lysine peptide + inhibitor + Zn<br />
-**[[5h4d]] – hSIRT3 + agonist + NAD + Zn<br/ >
-*SIRT4
-**[[5ojn]] – hSIRT4 + ADP-ribose  + Zn – ''Xenopus tropicalis''<br />
-*SIRT5
-**[[2b4y]], [[4bn4]] – hSIRT5 + ADP-ribose + Zn<br />
-**[[2nyr]], [[5xhs]] – hSIRT5 + inhibitor + Zn<br />
-**[[3rig]], [[3riy]], [[4f4u]] – hSIRT5 + acetyl lysine peptide + Zn<br />
-**[[4gic]] – hSIRT5 + acetyl lysine peptide + carba-NAD + Zn<br/ >
-**[[4f56]] – hSIRT5 + peptide + intermediate + Zn<br />
-**[[4hda]] – hSIRT5 + acetyl lysine peptide + resveratrol + Zn<br />
-**[[6acp]], [[6aco]], [[6acl]], [[6ace]] – hSIRT5 + succinyl peptide + Zn<br />
-**[[4utn]], [[4utr]], [[4utv]], [[4utx]], [[4utz]], [[4uu7]], [[4uu8]], [[4uua]], [[4uub]], [[6flg]], [[6fkz]], [[6fky]] – zSIRT5 + acetyl lysine peptide + inhibitor + Zn <br />
-**[[6enx]], [[6eo0]], [[6eqs]] – zSIRT5 + inhibitor + Zn <br />
-**[[5ojo]] – zSIRT5 + CPS1 peptide + Zn <br />
-*SIRT6
-**[[3k35]] – hSIRT6 + ADP-ribose + Zn<br />
-**[[5x16]] – hSIRT6 + oxolan derivative + Zn<br />
-**[[6hoy]] – hSIRT6 + ADP-ribose + trichostatin + Zn<br />
-**[[3pki]], [[3pkj]] – hSIRT6 (mutant) + ADP-ribose derivative + Zn<br />
-**[[3zg6]] – hSIRT6 + acetyl lysine peptide + ADP-ribose + Zn<br />
-**[[5mgn]], [[5mfz]], [[5mfp]], [[5mf6]] – hSIRT6 + activator + Zn<br />
-**[[5y2f]] – hSIRT6 + peptide activator + Zn<br />
-*SIRT7
-**[[5iqz]] – hSIRT7 N-terminal<br />
-}}
 == References ==
 <references/>
 [[Category:Topic Page]]

Histone deacetylase

From Proteopedia

Revision as of 09:10, 31 July 2019

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Structural highlights

3D Structures of histone deacetylase

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