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==PanDDA analysis group deposition -- Crystal Structure of BRD1 after initial refinement with no ligand modelled (structure 122)==
==PanDDA analysis group deposition -- Crystal Structure of BRD1 after initial refinement with no ligand modelled (structure 122)==
<StructureSection load='5pse' size='340' side='right' caption='[[5pse]], [[Resolution|resolution]] 2.19&Aring;' scene=''>
<StructureSection load='5pse' size='340' side='right'caption='[[5pse]], [[Resolution|resolution]] 2.19&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[5pse]] is a 2 chain structure. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5PSE OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5PSE FirstGlance]. <br>
<table><tr><td colspan='2'>[[5pse]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Homo_sapiens Homo sapiens]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5PSE OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5PSE FirstGlance]. <br>
</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 2.19&#8491;</td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5pse FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5pse OCA], [http://pdbe.org/5pse PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5pse RCSB], [http://www.ebi.ac.uk/pdbsum/5pse PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5pse ProSAT]</span></td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=EDO:1,2-ETHANEDIOL'>EDO</scene>, <scene name='pdbligand=NA:SODIUM+ION'>NA</scene></td></tr>
<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=5pse FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5pse OCA], [https://pdbe.org/5pse PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5pse RCSB], [https://www.ebi.ac.uk/pdbsum/5pse PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5pse ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[http://www.uniprot.org/uniprot/BRD1_HUMAN BRD1_HUMAN]] Component of the MOZ/MORF complex which has a histone H3 acetyltransferase activity.<ref>PMID:16387653</ref> <ref>PMID:21880731</ref>
[https://www.uniprot.org/uniprot/BRD1_HUMAN BRD1_HUMAN] Component of the MOZ/MORF complex which has a histone H3 acetyltransferase activity.<ref>PMID:16387653</ref> <ref>PMID:21880731</ref>  
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
In macromolecular crystallography, the rigorous detection of changed states (for example, ligand binding) is difficult unless signal is strong. Ambiguous ('weak' or 'noisy') density is experimentally common, since molecular states are generally only fractionally present in the crystal. Existing methodologies focus on generating maximally accurate maps whereby minor states become discernible; in practice, such map interpretation is disappointingly subjective, time-consuming and methodologically unsound. Here we report the PanDDA method, which automatically reveals clear electron density for the changed state-even from inaccurate maps-by subtracting a proportion of the confounding 'ground state'; changed states are objectively identified from statistical analysis of density distributions. The method is completely general, implying new best practice for all changed-state studies, including the routine collection of multiple ground-state crystals. More generally, these results demonstrate: the incompleteness of atomic models; that single data sets contain insufficient information to model them fully; and that accuracy requires further map-deconvolution approaches.


A multi-crystal method for extracting obscured crystallographic states from conventionally uninterpretable electron density.,Pearce NM, Krojer T, Bradley AR, Collins P, Nowak RP, Talon R, Marsden BD, Kelm S, Shi J, Deane CM, von Delft F Nat Commun. 2017 Apr 24;8:15123. doi: 10.1038/ncomms15123. PMID:28436492<ref>PMID:28436492</ref>
==See Also==
 
*[[Bromodomain-containing protein 3D structures|Bromodomain-containing protein 3D structures]]
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 5pse" style="background-color:#fffaf0;"></div>
== References ==
== References ==
<references/>
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Arrowsmith, C H]]
[[Category: Homo sapiens]]
[[Category: Bountra, C]]
[[Category: Large Structures]]
[[Category: Bradley, A R]]
[[Category: Arrowsmith CH]]
[[Category: Brandao-Neto, J]]
[[Category: Bountra C]]
[[Category: Brennan, P E]]
[[Category: Bradley AR]]
[[Category: Collins, P]]
[[Category: Brandao-Neto J]]
[[Category: Cox, O]]
[[Category: Brennan PE]]
[[Category: Delft, F von]]
[[Category: Collins P]]
[[Category: Dias, A]]
[[Category: Cox O]]
[[Category: Douangamath, A]]
[[Category: Dias A]]
[[Category: Edwards, A]]
[[Category: Douangamath A]]
[[Category: Fairhead, M]]
[[Category: Edwards A]]
[[Category: Krojer, T]]
[[Category: Fairhead M]]
[[Category: MacLean, E]]
[[Category: Krojer T]]
[[Category: Ng, J]]
[[Category: MacLean E]]
[[Category: Pearce, N M]]
[[Category: Ng J]]
[[Category: Renjie, Z]]
[[Category: Pearce NM]]
[[Category: Sethi, R]]
[[Category: Renjie Z]]
[[Category: Talon, R]]
[[Category: Sethi R]]
[[Category: Wright, N]]
[[Category: Talon R]]
[[Category: Bromodomain]]
[[Category: Wright N]]
[[Category: Epigenetic]]
[[Category: Von Delft F]]
[[Category: Gene regulation]]
[[Category: Pandda]]
[[Category: Sgc - diamond i04-1 fragment screening]]
[[Category: Xchemexplorer]]

Latest revision as of 16:15, 6 March 2024

PanDDA analysis group deposition -- Crystal Structure of BRD1 after initial refinement with no ligand modelled (structure 122)PanDDA analysis group deposition -- Crystal Structure of BRD1 after initial refinement with no ligand modelled (structure 122)

Structural highlights

5pse is a 2 chain structure with sequence from Homo sapiens. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Method:X-ray diffraction, Resolution 2.19Å
Ligands:,
Resources:FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

BRD1_HUMAN Component of the MOZ/MORF complex which has a histone H3 acetyltransferase activity.[1] [2]

See Also

References

  1. ↑ Doyon Y, Cayrou C, Ullah M, Landry AJ, Cote V, Selleck W, Lane WS, Tan S, Yang XJ, Cote J. ING tumor suppressor proteins are critical regulators of chromatin acetylation required for genome expression and perpetuation. Mol Cell. 2006 Jan 6;21(1):51-64. PMID:16387653 doi:10.1016/j.molcel.2005.12.007
  2. ↑ Qin S, Jin L, Zhang J, Liu L, Ji P, Wu M, Wu J, Shi Y. Recognition of unmodified histone H3 by the first PHD finger of bromodomain-PHD finger protein 2 provides insights into the regulation of histone acetyltransferases monocytic leukemic zinc-finger protein (MOZ) and MOZ-related factor (MORF). J Biol Chem. 2011 Oct 21;286(42):36944-55. doi: 10.1074/jbc.M111.244400. Epub, 2011 Aug 31. PMID:21880731 doi:http://dx.doi.org/10.1074/jbc.M111.244400

5pse, resolution 2.19Å

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