title: Crystal structures of three representatives of a new Pfam family PF14869 (DUF4488) suggest they function in sugar binding/uptake.
abstract: Crystal structures of three members (BACOVA_00364 from Bacteroides ovatus, BACUNI_03039 from Bacteroides uniformis and BACEGG_00036 from Bacteroides eggerthii) of the Pfam domain of unknown function (DUF4488) were determined to 1.95, 1.66, and 1.81 Å resolutions, respectively. The protein structures adopt an eight-stranded, calycin-like, β-barrel fold and bind an endogenous unknown ligand at one end of the β-barrel. The amino acids interacting with the ligand are not conserved in any other protein of known structure with this particular fold. The size and chemical environment of the bound ligand suggest binding or transport of a small polar molecule(s) as a potential function for these proteins. These are the first structural representatives of a newly defined PF14869 (DUF4488) Pfam family.
authors.affiliation: Joint Center for Structural Genomics, http://www.jcsg.org; Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory, Menlo Park, California, 94025.
authors.forename: Abhinav
authors.initials: A
authors.lastname: Kumar
authors.forename: Marco
authors.initials: M
authors.lastname: Punta
authors.forename: Herbert L
authors.initials: HL
authors.lastname: Axelrod
authors.forename: Debanu
authors.initials: D
authors.lastname: Das
authors.forename: Carol L
authors.initials: CL
authors.lastname: Farr
authors.forename: Joanna C
authors.initials: JC
authors.lastname: Grant
authors.forename: Hsiu-Ju
authors.initials: HJ
authors.lastname: Chiu
authors.forename: Mitchell D
authors.initials: MD
authors.lastname: Miller
authors.forename: Penelope C
authors.initials: PC
authors.lastname: Coggill
authors.forename: Heath E
authors.initials: HE
authors.lastname: Klock
authors.forename: Marc-André
authors.initials: MA
authors.lastname: Elsliger
authors.forename: Ashley M
authors.initials: AM
authors.lastname: Deacon
authors.forename: Adam
authors.initials: A
authors.lastname: Godzik
authors.forename: Scott A
authors.initials: SA
authors.lastname: Lesley
authors.forename: Ian A
authors.initials: IA
authors.lastname: Wilson
mesh_terms: D001426:Bacterial Proteins / Q000737:chemistry*; D001439:Bacteroides / Q000737:chemistry / Q000378:metabolism*; D001665:Binding Sites; D050260:Carbohydrate Metabolism; D018360:Crystallography, X-Ray; D008958:Models, Molecular; D008969:Molecular Sequence Data; D017433:Protein Structure, Secondary; D016415:Sequence Alignment
chemical_list: D001426:Bacterial Proteins
keywords: Bacteroides; DUF4488; calycins; crystal structure; sugar binding; unknown ligand