5yz2: Difference between revisions
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==the cystathionine-beta-synthase (CBS) domain of magnesium and cobalt efflux protein CorC in complex with both C2'- and C3'-endo AMP== | |||
<StructureSection load='5yz2' size='340' side='right'caption='[[5yz2]], [[Resolution|resolution]] 1.75Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[5yz2]] is a 2 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=5YZ2 OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5YZ2 FirstGlance]. <br> | |||
</td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 1.75Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=AMP:ADENOSINE+MONOPHOSPHATE'>AMP</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=5yz2 FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5yz2 OCA], [https://pdbe.org/5yz2 PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5yz2 RCSB], [https://www.ebi.ac.uk/pdbsum/5yz2 PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5yz2 ProSAT]</span></td></tr> | |||
</table> | |||
== Function == | |||
[https://www.uniprot.org/uniprot/CORC_ECOLI CORC_ECOLI] Plays a role in the transport of magnesium and cobalt ions. | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
The equilibrium between C2'- and C3'-endo conformations of nucleotides in solution, as well as their polymers DNA and RNA, has been well studied in previous work. However, this equilibrium of nucleotides in their binding state remains unclear. We observed two AMP molecules, in C3'- and C2'-endo conformations respectively, simultaneously bound to a cystathionine-beta-synthase (CBS) domain dimer of the magnesium and cobalt efflux protein CorC in the crystallographic study. The C2'-endo AMP molecule assumes the higher sugar pucker energy and one more hydrogen bond with the protein than the C3'-endo molecule does. The balance between the high sugar pucker energy and the low binding energy suggests an equilibrium or switch between C2'- and C3'-endo conformations of the bound nucleotides. Our work challenge the previous hypothesis that the ribose of the bound nucleotides would be locked in a fixed conformation. | |||
The C2'- and C3'-endo equilibrium for AMP molecules bound in the cystathionine-beta-synthase domain.,Feng N, Qi C, Hou YJ, Zhang Y, Wang DC, Li DF Biochem Biophys Res Commun. 2018 Mar 4;497(2):646-651. doi:, 10.1016/j.bbrc.2018.02.124. Epub 2018 Feb 15. PMID:29453981<ref>PMID:29453981</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
[[Category: | <div class="pdbe-citations 5yz2" style="background-color:#fffaf0;"></div> | ||
[[Category: Feng | == References == | ||
[[Category: Qi | <references/> | ||
[[Category: Wang | __TOC__ | ||
</StructureSection> | |||
[[Category: Escherichia coli K-12]] | |||
[[Category: Large Structures]] | |||
[[Category: Feng N]] | |||
[[Category: Li DF]] | |||
[[Category: Qi C]] | |||
[[Category: Wang DC]] | |||
Latest revision as of 11:41, 22 November 2023
the cystathionine-beta-synthase (CBS) domain of magnesium and cobalt efflux protein CorC in complex with both C2'- and C3'-endo AMPthe cystathionine-beta-synthase (CBS) domain of magnesium and cobalt efflux protein CorC in complex with both C2'- and C3'-endo AMP
Structural highlights
FunctionCORC_ECOLI Plays a role in the transport of magnesium and cobalt ions. Publication Abstract from PubMedThe equilibrium between C2'- and C3'-endo conformations of nucleotides in solution, as well as their polymers DNA and RNA, has been well studied in previous work. However, this equilibrium of nucleotides in their binding state remains unclear. We observed two AMP molecules, in C3'- and C2'-endo conformations respectively, simultaneously bound to a cystathionine-beta-synthase (CBS) domain dimer of the magnesium and cobalt efflux protein CorC in the crystallographic study. The C2'-endo AMP molecule assumes the higher sugar pucker energy and one more hydrogen bond with the protein than the C3'-endo molecule does. The balance between the high sugar pucker energy and the low binding energy suggests an equilibrium or switch between C2'- and C3'-endo conformations of the bound nucleotides. Our work challenge the previous hypothesis that the ribose of the bound nucleotides would be locked in a fixed conformation. The C2'- and C3'-endo equilibrium for AMP molecules bound in the cystathionine-beta-synthase domain.,Feng N, Qi C, Hou YJ, Zhang Y, Wang DC, Li DF Biochem Biophys Res Commun. 2018 Mar 4;497(2):646-651. doi:, 10.1016/j.bbrc.2018.02.124. Epub 2018 Feb 15. PMID:29453981[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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