This old version of Proteopedia is provided for student assignments while the new version is undergoing repairs. Content and edits done in this old version of Proteopedia after March 1, 2026 will eventually be lost when it is retired in about June of 2026.

Apply for new accounts at the new Proteopedia. Your logins will work in both the old and new versions.

3kuy

From Proteopedia

(Difference between revisions)

Jump to: navigation, search

Revision as of 07:03, 7 October 2020

DNA Stretching in the Nucleosome Facilitates Alkylation by an Intercalating Antitumor Agent

Structural highlights

3kuy is a 10 chain structure with sequence from African clawed frog. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
Ligands:	,
Related:	2nzd
Resources:	FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT

Function

[Q92130_XENLA] Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling (By similarity).[SAAS:SAAS000558_004_106348] [H32_XENLA] Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling. [H4_XENLA] Core component of nucleosome. Nucleosomes wrap and compact DNA into chromatin, limiting DNA accessibility to the cellular machineries which require DNA as a template. Histones thereby play a central role in transcription regulation, DNA repair, DNA replication and chromosomal stability. DNA accessibility is regulated via a complex set of post-translational modifications of histones, also called histone code, and nucleosome remodeling.

Evolutionary Conservation

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

Publication Abstract from PubMed

DNA stretching in the nucleosome core can cause dramatic structural distortions, which may influence compaction and factor recognition in chromatin. We find that the base pair unstacking arising from stretching-induced extreme minor groove kinking near the nucleosome centre creates a hot spot for intercalation and alkylation by a novel anticancer compound. This may have far reaching implications for how chromatin structure can influence binding of intercalator species and indicates potential for the development of site selective DNA-binding agents that target unique conformational features of the nucleosome.

DNA stretching in the nucleosome facilitates alkylation by an intercalating antitumour agent.,Davey GE, Wu B, Dong Y, Surana U, Davey CA Nucleic Acids Res. 2010 Apr;38(6):2081-8. Epub 2009 Dec 21. PMID:20026584^[1]

From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.

References

↑ Davey GE, Wu B, Dong Y, Surana U, Davey CA. DNA stretching in the nucleosome facilitates alkylation by an intercalating antitumour agent. Nucleic Acids Res. 2010 Apr;38(6):2081-8. Epub 2009 Dec 21. PMID:20026584 doi:10.1093/nar/gkp1174

1 Structural highlights
2 Function
3 Evolutionary Conservation
4 Publication Abstract from PubMed
5 See Also
6 References

Proteopedia Page Contributors and Editors (what is this?)

OCA

Retrieved from "http://52.214.119.220/wiki/index.php/3kuy"

@@ Line 1: / Line 1: @@
 ==DNA Stretching in the Nucleosome Facilitates Alkylation by an Intercalating Antitumor Agent==
-<StructureSection load='3kuy' size='340' side='right' caption='[[3kuy]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
+<StructureSection load='3kuy' size='340' side='right'caption='[[3kuy]], [[Resolution|resolution]] 2.90&Aring;' scene=''>
 == Structural highlights ==
-<table><tr><td colspan='2'>[[3kuy]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/African_clawed_frog African clawed frog]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KUY OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=3KUY FirstGlance]. <br>
+<table><tr><td colspan='2'>[[3kuy]] is a 10 chain structure with sequence from [http://en.wikipedia.org/wiki/African_clawed_frog African clawed frog]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3KUY OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=3KUY FirstGlance]. <br>
-</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=ATV:2-[(2R)-OXIRAN-2-YLMETHYL]-1H-BENZO[DE]ISOQUINOLINE-1,3(2H)-DIONE'>ATV</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
+</td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ATV:2-[(2R)-OXIRAN-2-YLMETHYL]-1H-BENZO[DE]ISOQUINOLINE-1,3(2H)-DIONE'>ATV</scene>, <scene name='pdbligand=MN:MANGANESE+(II)+ION'>MN</scene></td></tr>
 <tr id='related'><td class="sblockLbl"><b>[[Related_structure|Related:]]</b></td><td class="sblockDat">[[2nzd|2nzd]]</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=3kuy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kuy OCA], [http://pdbe.org/3kuy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3kuy RCSB], [http://www.ebi.ac.uk/pdbsum/3kuy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3kuy ProSAT]</span></td></tr>
+<tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=3kuy FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3kuy OCA], [http://pdbe.org/3kuy PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=3kuy RCSB], [http://www.ebi.ac.uk/pdbsum/3kuy PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=3kuy ProSAT]</span></td></tr>
 </table>
 == Function ==
@@ Line 31: / Line 31: @@
 ==See Also==
-*[[Histone|Histone]]
+*[[Histone 3D structures|Histone 3D structures]]
 == References ==
 <references/>
@@ Line 37: / Line 37: @@
 </StructureSection>
 [[Category: African clawed frog]]
+[[Category: Large Structures]]
 [[Category: Davey, C A]]
 [[Category: Wu, B]]

3kuy

From Proteopedia

Revision as of 07:03, 7 October 2020

DNA Stretching in the Nucleosome Facilitates Alkylation by an Intercalating Antitumor Agent

Structural highlights

Function

Evolutionary Conservation

Publication Abstract from PubMed

See Also

References

Contents

Proteopedia Page Contributors and Editors (what is this?)

Views

Personal tools

Navigation

Search

Toolbox