3qd7: Difference between revisions

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<StructureSection load='3qd7' size='340' side='right'caption='[[3qd7]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
<StructureSection load='3qd7' size='340' side='right'caption='[[3qd7]], [[Resolution|resolution]] 2.30&Aring;' scene=''>
== Structural highlights ==
== Structural highlights ==
<table><tr><td colspan='2'>[[3qd7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Ecoli Ecoli]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QD7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QD7 FirstGlance]. <br>
<table><tr><td colspan='2'>[[3qd7]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Escherichia_coli_K-12 Escherichia coli K-12]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=3QD7 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=3QD7 FirstGlance]. <br>
</td></tr><tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ydaL, b1340, JW1334 ([https://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=83333 ECOLI])</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]] 2.3&#8491;</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=3qd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qd7 OCA], [https://pdbe.org/3qd7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qd7 RCSB], [https://www.ebi.ac.uk/pdbsum/3qd7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qd7 ProSAT]</span></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=3qd7 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=3qd7 OCA], [https://pdbe.org/3qd7 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=3qd7 RCSB], [https://www.ebi.ac.uk/pdbsum/3qd7 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=3qd7 ProSAT]</span></td></tr>
</table>
</table>
== Function ==
== Function ==
[[https://www.uniprot.org/uniprot/SMRA_ECOLI SMRA_ECOLI]] Has DNA endonuclease activity. Binds DNA.  
[https://www.uniprot.org/uniprot/SMRA_ECOLI SMRA_ECOLI] Has DNA endonuclease activity. Binds DNA.
<div style="background-color:#fffaf0;">
== Publication Abstract from PubMed ==
Sequence homologs of the small MutS-related (Smr) domain, the C-terminal endonuclease domain of MutS2, also exist as stand-alone proteins. In this study, we report the crystal structure of a proteolyzed fragment of YdaL (YdaL-), a stand-alone Smr protein from Escherichia coli. In this structure, residues 86-170 assemble into a classical Smr core domain and are embraced by an N-terminal extension (residues 40-85) with an alpha/beta/alpha fold. Sequence alignment indicates that the N-terminal extension is conserved among a number of stand-alone Smr proteins, suggesting structural diversity among Smr domains. We also discovered that the DNA binding affinity and endonuclease activity of the truncated YdaL- protein were slightly lower than those of full-length YdaL-, suggesting that residues 1-38 may be involved in DNA binding.
 
Crystal structure of YdaL, a stand-alone small MutS-related protein from Escherichia coli.,Gui WJ, Qu QH, Chen YY, Wang M, Zhang XE, Bi LJ, Jiang T J Struct Biol. 2011 May;174(2):282-9. Epub 2011 Jan 27. PMID:21276852<ref>PMID:21276852</ref>
 
From MEDLINE&reg;/PubMed&reg;, a database of the U.S. National Library of Medicine.<br>
</div>
<div class="pdbe-citations 3qd7" style="background-color:#fffaf0;"></div>
== References ==
<references/>
__TOC__
__TOC__
</StructureSection>
</StructureSection>
[[Category: Ecoli]]
[[Category: Escherichia coli K-12]]
[[Category: Large Structures]]
[[Category: Large Structures]]
[[Category: Bi, L J]]
[[Category: Bi LJ]]
[[Category: Chen, Y Y]]
[[Category: Chen YY]]
[[Category: Gui, W J]]
[[Category: Gui WJ]]
[[Category: Jiang, T]]
[[Category: Jiang T]]
[[Category: Qu, Q H]]
[[Category: Qu QH]]
[[Category: Wang, M]]
[[Category: Wang M]]
[[Category: Zhang, X E]]
[[Category: Zhang XE]]
[[Category: Alpha/beta/alpha fold]]
[[Category: Endonuclease]]
[[Category: Hydrolase]]

Latest revision as of 08:34, 20 March 2024

Crystal structure of YdaL, a stand-alone small MutS-related protein from Escherichia coli

3qd7, resolution 2.30Å

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