3BY7

CRYSTAL STRUCTURE OF A PROTEIN STRUCTURALLY SIMILAR TO SM/LSM-LIKE RNA-BINDING PROTEINS (JCVI_PEP_1096686650277) FROM UNCULTURED MARINE ORGANISM AT 2.60 A RESOLUTION

Summary for 3BY7

• Entry DOI: 10.2210/pdb3by7/pdb
• Descriptor: uncharacterized protein (2 entities in total)
• Functional Keywords: metagenomics, structural genomics, joint center for structural genomics, jcsg, protein structure initiative, psi-2, unknown function
• Biological source: uncultured marine organism
• Total number of polymer chains: 5
• Total formula weight: 55737.08

Authors

Joint Center for Structural Genomics (JCSG) (deposition date: 2008-01-15, release date: 2008-01-29, Last modification date: 2024-10-30)

Primary citation

Das, D.,Kozbial, P.,Axelrod, H.L.,Miller, M.D.,McMullan, D.,Krishna, S.S.,Abdubek, P.,Acosta, C.,Astakhova, T.,Burra, P.,Carlton, D.,Chen, C.,Chiu, H.J.,Clayton, T.,Deller, M.C.,Duan, L.,Elias, Y.,Elsliger, M.A.,Ernst, D.,Farr, C.,Feuerhelm, J.,Grzechnik, A.,Grzechnik, S.K.,Hale, J.,Han, G.W.,Jaroszewski, L.,Jin, K.K.,Johnson, H.A.,Klock, H.E.,Knuth, M.W.,Kumar, A.,Marciano, D.,Morse, A.T.,Murphy, K.D.,Nigoghossian, E.,Nopakun, A.,Okach, L.,Oommachen, S.,Paulsen, J.,Puckett, C.,Reyes, R.,Rife, C.L.,Sefcovic, N.,Sudek, S.,Tien, H.,Trame, C.,Trout, C.V.,van den Bedem, H.,Weekes, D.,White, A.,Xu, Q.,Hodgson, K.O.,Wooley, J.,Deacon, A.M.,Godzik, A.,Lesley, S.A.,Wilson, I.A.
Crystal structure of a novel Sm-like protein of putative cyanophage origin at 2.60 A resolution.
Proteins, 75:296-307, 2009

PubMed Abstract: ECX21941 represents a very large family (over 600 members) of novel, ocean metagenome-specific proteins identified by clustering of the dataset from the Global Ocean Sampling expedition. The crystal structure of ECX21941 reveals unexpected similarity to Sm/LSm proteins, which are important RNA-binding proteins, despite no detectable sequence similarity. The ECX21941 protein assembles as a homopentamer in solution and in the crystal structure when expressed in Escherichia coli and represents the first pentameric structure for this Sm/LSm family of proteins, although the actual oligomeric form in vivo is currently not known. The genomic neighborhood analysis of ECX21941 and its homologs combined with sequence similarity searches suggest a cyanophage origin for this protein. The specific functions of members of this family are unknown, but our structure analysis of ECX21941 indicates nucleic acid-binding capabilities and suggests a role in RNA and/or DNA processing.

PubMed: 19173316
DOI: 10.1002/prot.22360

Experimental method

X-RAY DIFFRACTION (2.6 Å)