8jbt: Difference between revisions
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==B12-binding domain from Chloracidobacterium thermophilum MerR family protein, anaerobic light state== | |||
<StructureSection load='8jbt' size='340' side='right'caption='[[8jbt]], [[Resolution|resolution]] 2.30Å' scene=''> | |||
== Structural highlights == | |||
<table><tr><td colspan='2'>[[8jbt]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Chloracidobacterium_thermophilum Chloracidobacterium thermophilum]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=8JBT OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=8JBT 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]] 2.3Å</td></tr> | |||
<tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>, <scene name='pdbligand=P6G:HEXAETHYLENE+GLYCOL'>P6G</scene>, <scene name='pdbligand=PG4:TETRAETHYLENE+GLYCOL'>PG4</scene>, <scene name='pdbligand=TRS:2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL'>TRS</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=8jbt FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=8jbt OCA], [https://pdbe.org/8jbt PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=8jbt RCSB], [https://www.ebi.ac.uk/pdbsum/8jbt PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=8jbt ProSAT]</span></td></tr> | |||
</table> | |||
<div style="background-color:#fffaf0;"> | |||
== Publication Abstract from PubMed == | |||
Photoreceptors control cellular processes in response to light. Most photoreceptors sense blue or red light, but the recent discovery of the cobalamin-dependent photoreceptor, CarH, has expanded the wavelength range of photoreception to other regions of the electromagnetic spectrum to include the green light region. Further identification of cobalamin-dependent green light-sensitive photoreceptors has been hampered owing to poor annotation of the light responsiveness of cobalamin-binding domains (CBDs) in public databases. Here we report a computational workflow, SignatureFinder, that uses a combination of sequence and structural analyses to identify new light-responsive CBD-containing proteins. The light response of exemplar proteins containing the proposed signature were confirmed experimentally. A structural analysis of these new photoreceptors, including the crystal structure of a new CBD domain, highlights how the signature elements interact with the cobalamin chromophore to sense light. Database mining of 128 000 CBD-containing sequences using the identified signature revealed more diverse CBD-containing photoreceptors, thereby expanding the family of green-light photoreceptors. A SignatureFinder web server is available (https://enzymeevolver.com) for wider applications, including the identification of signature sequences of other biological ligands of interest. | |||
SignatureFinder enables sequence mining to identify cobalamin-dependent photoreceptor proteins.,Yu Y, Jeffreys LN, Poddar H, Hill A, Johannissen L, Dai F, Sakuma M, Leys D, Heyes DJ, Zhang S, Scrutton NS FEBS J. 2024 Dec 24. doi: 10.1111/febs.17377. PMID:39718193<ref>PMID:39718193</ref> | |||
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br> | |||
[[Category: | </div> | ||
<div class="pdbe-citations 8jbt" style="background-color:#fffaf0;"></div> | |||
== References == | |||
<references/> | |||
__TOC__ | |||
</StructureSection> | |||
[[Category: Chloracidobacterium thermophilum]] | |||
[[Category: Large Structures]] | |||
[[Category: Yu Y]] | |||
[[Category: Zhang S]] | |||
