2z3y: Difference between revisions

Revision as of 20:00, 21 February 2008

Crystal structure of Lysine-specific demethylase1

OverviewOverview

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 StructureAbout this Structure

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

ReferenceReference

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 Thu Feb 21 19:00:01 2008

Proteopedia Page Contributors and Editors (what is this?)Proteopedia Page Contributors and Editors (what is this?)

OCA

@@ Line 4: / Line 4: @@
 ==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 2.75A, 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 2.25A. 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.
+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==
@@ Line 10: / Line 10: @@
 ==Reference==
-Crystal structure of histone demethylase LSD1 and tranylcypromine at 2.25A., 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:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=18039463 18039463]
+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:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=18039463 18039463]
 [[Category: Homo sapiens]]
 [[Category: Single protein]]
 [[Category: Mimasu, S.]]
-[[Category: RSGI, RIKEN.Structural.Genomics/Proteomics.Initiative.]]
+[[Category: RSGI, RIKEN Structural Genomics/Proteomics Initiative.]]
 [[Category: Sengoku, T.]]
 [[Category: Umehara, T.]]
@@ Line 41: / Line 41: @@
 [[Category: transcription regulation]]
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Wed Jan 23 11:20:30 2008''
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 19:00:01 2008''