title: Crystal structure of a novel polyisoprenoid-binding protein from Thermus thermophilus HB8.
abstract: The isoprenoid quinones exist widely among prokaryotes and eukaryotes. They play essential roles in respiratory electron transport and in controlling oxidative stress and gene regulation. In the isoprenoid quinone biosynthetic pathway, polyprenyl pyrophosphates are used as isoprenoid side-chain precursors. Here we report the crystal structure of a novel polyprenyl pyrophosphate binding protein, TT1927b, from Thermus thermophilus HB8, complexed with its ligand. This protein belongs to the YceI-like family in the Pfam database, and its sequence homologs are present in a broad range of bacteria and archaea. The structure consists of an extended, eight-stranded, antiparallel beta-barrel. In the hydrophobic pore of the barrel, the protein binds the polyisoprenoid chain by hydrophobic interactions. Its overall structure resembles the lipocalin fold, but there is no sequence homology between TT1927b and the lipocalin family of proteins.
authors.affiliation: Protein Research Group, RIKEN Genomic Sciences Center, 1-7-22 Suehiro-cho, Tsurumi, Yokohama 230-0045, Japan.
authors.forename: Noriko
authors.initials: N
authors.lastname: Handa
authors.forename: Takaho
authors.initials: T
authors.lastname: Terada
authors.forename: Yukiko
authors.initials: Y
authors.lastname: Doi-Katayama
authors.forename: Hiroshi
authors.initials: H
authors.lastname: Hirota
authors.forename: Jeremy R H
authors.initials: JR
authors.lastname: Tame
authors.forename: Sam-Yong
authors.initials: SY
authors.lastname: Park
authors.forename: Seiki
authors.initials: S
authors.lastname: Kuramitsu
authors.forename: Mikako
authors.initials: M
authors.lastname: Shirouzu
authors.forename: Shigeyuki
authors.initials: S
authors.lastname: Yokoyama
mesh_terms: D000595:Amino Acid Sequence; D001426:Bacterial Proteins / Q000737:chemistry* / Q000378:metabolism / Q000502:physiology; D002352:Carrier Proteins / Q000737:chemistry / Q000378:metabolism; D018360:Crystallography, X-Ray; D008958:Models, Molecular; D008969:Molecular Sequence Data; D011809:Quinones / Q000737:chemistry / Q000378:metabolism; D016415:Sequence Alignment; D013729:Terpenes / Q000737:chemistry / Q000378:metabolism*; D016963:Thermus thermophilus / Q000737:chemistry*
chemical_list: D001426:Bacterial Proteins; D002352:Carrier Proteins; D011809:Quinones; D013729:Terpenes
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