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[[Image:2pyo.gif|left|200px]]


{{Structure
==Drosophila nucleosome core==
|PDB= 2pyo |SIZE=350|CAPTION= <scene name='initialview01'>2pyo</scene>, resolution 2.430&Aring;
<StructureSection load='2pyo' size='340' side='right'caption='[[2pyo]], [[Resolution|resolution]] 2.43&Aring;' scene=''>
|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>
== Structural highlights ==
|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>
<table><tr><td colspan='2'>[[2pyo]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster] and [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PYO OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=2PYO FirstGlance]. <br>
|ACTIVITY=
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.43&#8491;</td></tr>
|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])
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
|DOMAIN=
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=2pyo FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=2pyo OCA], [https://pdbe.org/2pyo PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=2pyo RCSB], [https://www.ebi.ac.uk/pdbsum/2pyo PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=2pyo ProSAT]</span></td></tr>
|RELATEDENTRY=
</table>
|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>
== Function ==
}}
[https://www.uniprot.org/uniprot/H3_DROME H3_DROME]
== Evolutionary Conservation ==
[[Image:Consurf_key_small.gif|200px|right]]
Check<jmol>
  <jmolCheckbox>
    <scriptWhenChecked>; select protein; define ~consurf_to_do selected; consurf_initial_scene = true; script "/wiki/ConSurf/py/2pyo_consurf.spt"</scriptWhenChecked>
    <scriptWhenUnchecked>script /wiki/extensions/Proteopedia/spt/initialview01.spt</scriptWhenUnchecked>
    <text>to colour the structure by Evolutionary Conservation</text>
  </jmolCheckbox>
</jmol>, as determined by [http://consurfdb.tau.ac.il/ ConSurfDB]. You may read the [[Conservation%2C_Evolutionary|explanation]] of the method and the full data available from [http://bental.tau.ac.il/new_ConSurfDB/main_output.php?pdb_ID=2pyo ConSurf].
<div style="clear:both"></div>


'''Drosophila nucleosome core'''
==See Also==
 
*[[Histone 3D structures|Histone 3D structures]]
 
__TOC__
==Overview==
</StructureSection>
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 Structure==
2PYO is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Drosophila_melanogaster Drosophila melanogaster] and [http://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=2PYO OCA].
 
==Reference==
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:[http://www.ncbi.nlm.nih.gov/pubmed/17957772 17957772]
[[Category: Drosophila melanogaster]]
[[Category: Drosophila melanogaster]]
[[Category: Homo sapiens]]
[[Category: Homo sapiens]]
[[Category: Protein complex]]
[[Category: Large Structures]]
[[Category: Clapier, C R.]]
[[Category: Clapier CR]]
[[Category: Mueller, C W.]]
[[Category: Mueller CW]]
[[Category: Petosa, C.]]
[[Category: Petosa C]]
[[Category: histone fold]]
[[Category: nucleosome core]]
[[Category: structural protein/dna complex]]
 
''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Mon Mar 31 04:42:23 2008''

Latest revision as of 12:12, 21 February 2024

Drosophila nucleosome coreDrosophila nucleosome core

Structural highlights

2pyo is a 10 chain structure with sequence from Drosophila melanogaster and Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.43Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

H3_DROME

Evolutionary Conservation

Check, as determined by ConSurfDB. You may read the explanation of the method and the full data available from ConSurf.

See Also

2pyo, resolution 2.43Å

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OCA
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