2z3y

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[[Image:2z3y.jpg|left|200px]]
[[Image:2z3y.jpg|left|200px]]
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{{Structure
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<!--
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|PDB= 2z3y |SIZE=350|CAPTION= <scene name='initialview01'>2z3y</scene>, resolution 2.25&Aring;
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The line below this paragraph, containing "STRUCTURE_2z3y", creates the "Structure Box" on the page.
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|SITE=
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You may change the PDB parameter (which sets the PDB file loaded into the applet)
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|LIGAND= <scene name='pdbligand=F2N:[(2R,3S,4R,5R)-5-(6-AMINO-9H-PURIN-9-YL)-3,4-DIHYDROXYTETRAHYDROFURAN-2-YL]METHYL+(2R,3S,4S)-5-[7,8-DIMETHYL-2,4-DIOXO-5-(3-PHENYLPROPANOYL)-1,3,4,5-TETRAHYDROBENZO[G]PTERIDIN-10(2H)-YL]-2,3,4-TRIHYDROXYPENTYL+DIHYDROGEN+DIPHOSPHATE'>F2N</scene>
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or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
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|ACTIVITY=
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or leave the SCENE parameter empty for the default display.
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|GENE= KIAA0601, LSD1 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=9606 Homo sapiens])
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-->
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|DOMAIN=
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{{STRUCTURE_2z3y| PDB=2z3y | SCENE= }}
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|RELATEDENTRY=[[2ejr|2EJR]], [[2z5u|2Z5U]]
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|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2z3y FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2z3y OCA], [http://www.ebi.ac.uk/pdbsum/2z3y PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2z3y RCSB]</span>
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}}
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'''Crystal structure of Lysine-specific demethylase1'''
'''Crystal structure of Lysine-specific demethylase1'''
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[[Category: Umehara, T.]]
[[Category: Umehara, T.]]
[[Category: Yokoyama, S.]]
[[Category: Yokoyama, S.]]
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[[Category: alternative splicing]]
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[[Category: Alternative splicing]]
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[[Category: chromatin]]
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[[Category: Chromatin]]
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[[Category: chromatin regulator]]
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[[Category: Chromatin regulator]]
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[[Category: coiled coil]]
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[[Category: Coiled coil]]
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[[Category: crystal structure]]
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[[Category: Crystal structure]]
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[[Category: fad]]
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[[Category: Fad]]
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[[Category: histone demethylase]]
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[[Category: Histone demethylase]]
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[[Category: lsd1]]
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[[Category: Lsd1]]
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[[Category: lysine-specific]]
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[[Category: Lysine-specific]]
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[[Category: national project on protein structural and functional analyse]]
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[[Category: National project on protein structural and functional analyse]]
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[[Category: nppsfa]]
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[[Category: Nppsfa]]
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[[Category: nucleosome]]
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[[Category: Nucleosome]]
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[[Category: nucleus]]
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[[Category: Nucleus]]
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[[Category: oxidoreductase]]
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[[Category: Oxidoreductase]]
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[[Category: phosphorylation]]
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[[Category: Phosphorylation]]
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[[Category: repressor]]
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[[Category: Repressor]]
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[[Category: riken structural genomics/proteomics initiative]]
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[[Category: Riken structural genomics/proteomics initiative]]
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[[Category: rsgi]]
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[[Category: Rsgi]]
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[[Category: structural genomic]]
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[[Category: Structural genomic]]
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[[Category: transcription]]
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[[Category: Transcription]]
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[[Category: transcription regulation]]
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[[Category: Transcription regulation]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May 4 19:55:58 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 05:18:26 2008''
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Revision as of 16:55, 4 May 2008

Image:2z3y.jpg

Template:STRUCTURE 2z3y

Crystal structure of Lysine-specific demethylase1


Overview

Transcriptional activity and chromatin structure accessibility are correlated with the methylation of specific histone residues. Lysine-specific demethylase 1 (LSD1) is the first discovered histone demethylase, which demethylates Lys4 or Lys9 of histone H3, using FAD. Among the known monoamine oxidase inhibitors, tranylcypromine (Parnate) showed the most potent inhibitory effect on LSD1. Recently, the crystal structure of LSD1 and tranylcypromine was solved at 2.75 A, revealing a five-membered ring fused to the flavin of LSD1. In this study, we refined the crystal structure of the LSD1-tranylcypromine complex to 2.25 A. The five-membered ring model did not fit completely with the electron density, giving R(work)/R(free) values of 0.226/0.254. On the other hand, the N(5) adduct gave the lowest R(work)/R(free) values of 0.218/0.248, among the tested models. These results imply that the LSD1-tranylcypromine complex is not completely composed of the five-membered adduct, but partially contains an intermediate, such as the N(5) adduct.

About this Structure

2Z3Y is a Single protein structure of sequence from Homo sapiens. Full crystallographic information is available from OCA.

Reference

Crystal structure of histone demethylase LSD1 and tranylcypromine at 2.25 A., Mimasu S, Sengoku T, Fukuzawa S, Umehara T, Yokoyama S, Biochem Biophys Res Commun. 2008 Feb 1;366(1):15-22. Epub 2007 Nov 26. PMID:18039463 Page seeded by OCA on Sun May 4 19:55:58 2008

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OCA

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