8jbs
From Proteopedia
B12-binding domain from Chloracidobacterium thermophilum MerR family protein, dark state
Structural highlights
Publication Abstract from PubMedPhotoreceptors 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[1] From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine. References
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