1cyz: Difference between revisions

From Proteopedia
Jump to navigationJump to search
← Older edit
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,332,843 edits
m Protected "1cyz" [edit=sysop:move=sysop]
OCA (talk | contribs)
Bots, Bureaucrats, journal, Administrators
3,332,843 edits
No edit summary
 
(6 intermediate revisions by the same user not shown)
Line 1: Line 1:
[[Image:1cyz.png|left|200px]]


{{STRUCTURE_1cyz| PDB=1cyz  | SCENE= }}  
==NMR STRUCTURE OF THE GAACTGGTTC/TRI-IMIDAZOLE POLYAMIDE COMPLEX==
<StructureSection load='1cyz' size='340' side='right'caption='[[1cyz]]' scene=''>
== Structural highlights ==
<table><tr><td colspan='2'>[[1cyz]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CYZ OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=1CYZ FirstGlance]. <br>
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Solution NMR</td></tr>
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AR1:(2-{[4-({4-[(4-FORMYLAMINO-1-METHYL-1H-IMIDAZOLE-2-CARBONYL)-AMINO]-1-METHYL-1H-IMIDAZOLE-2-CARBONYL}-AMINO)-1-METHYL-1H-IMIDAZOLE-2-CARBONYL]-AMINO}-ETHYL)-DIMETHYL-AMMONIUM'>AR1</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=1cyz FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=1cyz OCA], [https://pdbe.org/1cyz PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=1cyz RCSB], [https://www.ebi.ac.uk/pdbsum/1cyz PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=1cyz ProSAT]</span></td></tr>
</table>
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
The T:G mismatched base pair is associated with many genetic mutations. Understanding its biological consequences may be aided by studying the structural perturbation of DNA caused by a T:G base pair and by specific probing of the mismatch using small molecular ligands. We have shown previously that AR-1-144, a tri-imidazole (Im-Im-Im) minor groove binder, recognizes the sequence CCGG. NMR structural analysis of the symmetric 2:1 complex of AR-1-144 and GAACCGGTTC revealed that each AR-1-144 binds to four base pairs with the guanine N2 amino group forming a bifurcated hydrogen bond to a side-by-side Im/Im pair. We predicted that the free G-N2 amino group in a T:G wobble base pair can form two individual hydrogen bonds to a side-by-side Im/Im pair. Thus an Im/Im pair may be a good recognition motif for a T:G base pair in DNA. Cooperative and tight binding of an AR-1-144 homodimer to GAACTGGTTC permits a detailed structural analysis by 2D NOE NMR refinement and the refined structure confirms our prediction. Surprisingly, AR-1-144 does not bind to GAATCGGTTC. We further show that both the Im-Im-Im/Im-Py-Im heterodimer and the Im-Im-Im/Im-Im-Im homodimer bind strongly to the CACGGGTC + GACTCGTG duplex. These results together suggest that an Im/Im pair can specifically recognize a single T:G mismatch. Our results may be useful in future design of molecules (e.g. linked dimers) that can recognize a single T:G mismatch with specificity.


===NMR STRUCTURE OF THE GAACTGGTTC/TRI-IMIDAZOLE POLYAMIDE COMPLEX===
Imidazole-imidazole pair as a minor groove recognition motif for T:G mismatched base pairs.,Yang XL, Hubbard RB, Lee M, Tao ZF, Sugiyama H, Wang AH Nucleic Acids Res. 1999 Nov 1;27(21):4183-90. PMID:10518609<ref>PMID:10518609</ref>


{{ABSTRACT_PUBMED_10518609}}
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
 
</div>
==About this Structure==
<div class="pdbe-citations 1cyz" style="background-color:#fffaf0;"></div>
[[1cyz]] is a 2 chain structure. Full experimental information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1CYZ OCA].
== References ==
 
<references/>
==Reference==
__TOC__
<ref group="xtra">PMID:010518609</ref><references group="xtra"/>
</StructureSection>
[[Category: IV, R B.Hubbard.]]
[[Category: Large Structures]]
[[Category: Lee, M.]]
[[Category: Hubbard IV RB]]
[[Category: Sugiyama, H.]]
[[Category: Lee M]]
[[Category: Tao, Z F.]]
[[Category: Sugiyama H]]
[[Category: Wang, A H.J.]]
[[Category: Tao Z-F]]
[[Category: Yang, X L.]]
[[Category: Wang AH-J]]
[[Category: Dna]]
[[Category: Yang X-L]]
[[Category: T:g recognized by im/im pair in the dna minor groove]]
Retrieved from "https://proteopedia.org/1cyz"