2pyo: Difference between revisions

Revision as of 14:01, 4 May 2008

Drosophila nucleosome core

OverviewOverview

We determined the 2.45 A crystal structure of the nucleosome core particle from Drosophila melanogaster and compared it to that of Xenopus laevis bound to the identical 147 base-pair DNA fragment derived from human alpha-satellite DNA. Differences between the two structures primarily reflect 16 amino acid substitutions between species, 15 of which are in histones H2A and H2B. Four of these involve histone tail residues, resulting in subtly altered protein-DNA interactions that exemplify the structural plasticity of these tails. Of the 12 substitutions occurring within the histone core regions, five involve small, solvent-exposed residues not involved in intraparticle interactions. The remaining seven involve buried hydrophobic residues, and appear to have coevolved so as to preserve the volume of side chains within the H2A hydrophobic core and H2A-H2B dimer interface. Thus, apart from variations in the histone tails, amino acid substitutions that differentiate Drosophila from Xenopus histones occur in mutually compensatory combinations. This highlights the tight evolutionary constraints exerted on histones since the vertebrate and invertebrate lineages diverged. Proteins 2008. (c) 2007 Wiley-Liss, Inc.

About this StructureAbout this Structure

2PYO is a Protein complex structure of sequences from Drosophila melanogaster and Homo sapiens. Full crystallographic information is available from OCA.

ReferenceReference

Structure of the Drosophila nucleosome core particle highlights evolutionary constraints on the H2A-H2B histone dimer., Clapier CR, Chakravarthy S, Petosa C, Fernandez-Tornero C, Luger K, Muller CW, Proteins. 2007 Oct 23;71(1):1-7. PMID:17957772 Page seeded by OCA on Sun May 4 14:01:36 2008

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

OCA

@@ Line 1: / Line 1: @@
 [[Image:2pyo.gif|left|200px]]
- {{Structure
+<!--
-|PDB= 2pyo |SIZE=350|CAPTION= <scene name='initialview01'>2pyo</scene>, resolution 2.430&Aring;
+The line below this paragraph, containing "STRUCTURE_2pyo", creates the "Structure Box" on the page.
-|SITE= <scene name='pdbsite=AC1:Mn+Binding+Site+For+Residue+E+1002'>AC1</scene>, <scene name='pdbsite=AC2:Mn+Binding+Site+For+Residue+J+1003'>AC2</scene>, <scene name='pdbsite=AC3:Mn+Binding+Site+For+Residue+J+1009'>AC3</scene>, <scene name='pdbsite=AC4:Mn+Binding+Site+For+Residue+I+1011'>AC4</scene>, <scene name='pdbsite=AC5:Mn+Binding+Site+For+Residue+I+1012'>AC5</scene>, <scene name='pdbsite=AC6:Mn+Binding+Site+For+Residue+I+1013'>AC6</scene>, <scene name='pdbsite=AC7:Mn+Binding+Site+For+Residue+J+1014'>AC7</scene>, <scene name='pdbsite=AC8:Cl+Binding+Site+For+Residue+H+1015'>AC8</scene>, <scene name='pdbsite=AC9:Cl+Binding+Site+For+Residue+D+1016'>AC9</scene>, <scene name='pdbsite=BC1:Cl+Binding+Site+For+Residue+A+1017'>BC1</scene> and <scene name='pdbsite=BC2:Cl+Binding+Site+For+Residue+E+1018'>BC2</scene>
+You may change the PDB parameter (which sets the PDB file loaded into the applet)
-|LIGAND= <scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=DA:2&#39;-DEOXYADENOSINE-5&#39;-MONOPHOSPHATE'>DA</scene>, <scene name='pdbligand=DC:2&#39;-DEOXYCYTIDINE-5&#39;-MONOPHOSPHATE'>DC</scene>, <scene name='pdbligand=DG:2&#39;-DEOXYGUANOSINE-5&#39;-MONOPHOSPHATE'>DG</scene>, <scene name='pdbligand=DT:THYMIDINE-5&#39;-MONOPHOSPHATE'>DT</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene>
+or the SCENE parameter (which sets the initial scene displayed when the page is loaded),
-|ACTIVITY=
+or leave the SCENE parameter empty for the default display.
-|GENE= His3 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 Drosophila melanogaster]), His4, H4 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 Drosophila melanogaster]), His2A, H2a ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 Drosophila melanogaster]), His2B ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=7227 Drosophila melanogaster])
+-->
-|DOMAIN=
+{{STRUCTURE_2pyo|  PDB=2pyo  |  SCENE=  }}
-|RELATEDENTRY=
-|RESOURCES=<span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=2pyo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pyo OCA], [http://www.ebi.ac.uk/pdbsum/2pyo PDBsum], [http://www.rcsb.org/pdb/explore.do?structureId=2pyo RCSB]</span>
-}}
 '''Drosophila nucleosome core'''
@@ Line 29: / Line 26: @@
 [[Category: Mueller, C W.]]
 [[Category: Petosa, C.]]
-[[Category: histone fold]]
+[[Category: Histone fold]]
-[[Category: nucleosome core]]
+[[Category: Nucleosome core]]
-[[Category: structural protein/dna complex]]
+[[Category: Structural protein/dna complex]]
+''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Sun May  4 14:01:36 2008''
-''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:42:23 2008''