title: LUD, a new protein domain associated with lactate utilization.
abstract: BACKGROUND
  A novel highly conserved protein domain, DUF162 [Pfam: PF02589], can be mapped to two proteins: LutB and LutC. Both proteins are encoded by a highly conserved LutABC operon, which has been implicated in lactate utilization in bacteria. Based on our analysis of its sequence, structure, and recent experimental evidence reported by other groups, we hereby redefine DUF162 as the LUD domain family.
  
  
  RESULTS
  JCSG solved the first crystal structure [PDB:2G40] from the LUD domain family: LutC protein, encoded by ORF DR_1909, of Deinococcus radiodurans. LutC shares features with domains in the functionally diverse ISOCOT superfamily. We have observed that the LUD domain has an increased abundance in the human gut microbiome.
  
  
  CONCLUSIONS
  We propose a model for the substrate and cofactor binding and regulation in LUD domain. The significance of LUD-containing proteins in the human gut microbiome, and the implication of lactate metabolism in the radiation-resistance of Deinococcus radiodurans are discussed.
authors.affiliation: Joint Center for Structural Genomics, La Jolla, CA 92037, USA. wchwang@sanfordburnham.org.
authors.forename: William C
authors.initials: WC
authors.lastname: Hwang
authors.forename: Constantina
authors.initials: C
authors.lastname: Bakolitsa
authors.forename: Marco
authors.initials: M
authors.lastname: Punta
authors.forename: Penelope C
authors.initials: PC
authors.lastname: Coggill
authors.forename: Alex
authors.initials: A
authors.lastname: Bateman
authors.forename: Herbert L
authors.initials: HL
authors.lastname: Axelrod
authors.forename: Neil D
authors.initials: ND
authors.lastname: Rawlings
authors.forename: Mayya
authors.initials: M
authors.lastname: Sedova
authors.forename: Scott N
authors.initials: SN
authors.lastname: Peterson
authors.forename: Ruth Y
authors.initials: RY
authors.lastname: Eberhardt
authors.forename: L
authors.initials: L
authors.lastname: Aravind
authors.forename: Jaime
authors.initials: J
authors.lastname: Pascual
authors.forename: Adam
authors.initials: A
authors.lastname: Godzik
mesh_terms: D000595:Amino Acid Sequence; D001426:Bacterial Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D018360:Crystallography, X-Ray; D034301:Deinococcus / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism*; D006801:Humans; D019344:Lactic Acid / Q000378:metabolism*; D064307:Microbiota / Q000528:radiation effects; D008969:Molecular Sequence Data; D017434:Protein Structure, Tertiary
chemical_list: D001426:Bacterial Proteins; D019344:Lactic Acid