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Protein Sci. 2013 Jul;22(7):1000-7. doi: 10.1002/pro.2284. Epub 2013 Jun 6.

Structural representative of the protein family PF14466 has a new fold and establishes links with the C2 and PLAT domains from the widely distant Pfams PF00168 and PF01477.

Author information

1
Joint Center for Structural Genomics, La Jolla, California, USA.

Abstract

The domain of unknown function (DUF) YP_001302112.1, a protein secreted by the human intestinal microbita, has been determined by NMR and represents the first structure for the Pfam PF14466. Its NMR structure is classified as a new fold, which, nonetheless, shows limited similarities with representatives of the PLAT/LH2 domains from PF01477 and the C2 domains from PF00168, both of which bind Ca(2+) for their physiological functions. Further experiments revealed affinity of YP_001302112.1 for Ca(2+), and the NMR structure in the presence of CaCl2 was better defined than that of the apo-protein. Overall, these NMR structures establish a new connection between structural representatives from two widely different Pfams that include the calcium-binding domain of a sialidase from Vibrio cholerae and the α-toxin from Clostridium perfrigens, whereby these two proteins have only 7% sequence identity. Furthermore, it provides information toward the functional annotation of YP_001302112.1, based on its capacity to bind Ca(2+), and thus adds to the structural and functional coverage of the protein sequence universe.

PMID:
23681886
PMCID:
PMC3719093
DOI:
10.1002/pro.2284
[Indexed for MEDLINE]
Free PMC Article

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