title: A novel OmpY porin from Yersinia pseudotuberculosis: structure, channel-forming activity and trimer thermal stability.
abstract: A novel OmpY porin was predicted based on the Yersinia pseudotuberculosis genome analysis. Whereas it has the different genomic annotation such as "outer membrane protein N" (ABS46310.1) in str. IP 31758 or "outer membrane protein C2, porin" (YP_070481.1) in str. IP32953, it might be warranted to rename the OmpN/OmpC2 to OmpY, "outer membrane protein Y", where letter "Y" pertained to Yersinia. Both phylogenetic analysis and genomic localization clearly support that the OmpY porin belongs to a new group of general bacterial porins. The recombinant OmpY protein with its signal sequence was overexpressed in porin-deficient Escherichia coli strain. The mature rOmpY was shown to insert into outer membrane as a trimer. The OmpY porin, isolated from the outer membrane, was studied employing spectroscopic, electrophoretic and bilayer lipid membranes techniques. The far UV CD spectrum of rOmpY was essentially identical to that of Y. pseudotuberculosis OmpF. The near UV CD spectrum of rOmpY was weaker and smoother than that of OmpF. The rOmpY single-channel conductance was 180 ± 20 pS in 0.1 M NaCl and was lower than that of the OmpF porin. As was shown by electrophoretic and bilayer lipid membrane experiments, the rOmpY trimers were less thermostable than the OmpF trimers. The porins differed in the trimer-monomer transition temperature by about 20°C. The three-dimensional structural models of the Y. pseudotuberculosis OmpY and OmpF trimers were generated and the intra- and intermonomeric interactions stabilizing the porins were investigated. The difference in the thermal stability of OmpY and OmpF trimers was established to correlate with the difference in intermonomeric polar contacts.
authors.affiliation: Pacific Institute of Bioorganic Chemistry FEBRAS, prospect 100-let Vladivostoku 159, Vladivostok 690022, Russia.
authors.forename: T F
authors.initials: TF
authors.lastname: Solov'eva
authors.forename: G N
authors.initials: GN
authors.lastname: Likhatskaya
authors.forename: V A
authors.initials: VA
authors.lastname: Khomenko
authors.forename: A M
authors.initials: AM
authors.lastname: Stenkova
authors.forename: N Y
authors.initials: NY
authors.lastname: Kim
authors.forename: O Y
authors.initials: OY
authors.lastname: Portnyagina
authors.forename: O D
authors.initials: OD
authors.lastname: Novikova
authors.forename: E V
authors.initials: EV
authors.lastname: Trifonov
authors.forename: E A
authors.initials: EA
authors.lastname: Nurminski
authors.forename: M P
authors.initials: MP
authors.lastname: Isaeva
mesh_terms: D000595:Amino Acid Sequence; D001425:Bacterial Outer Membrane Proteins / Q000737:chemistry* / Q000145:classification / Q000235:genetics / Q000378:metabolism*; D002942:Circular Dichroism; D003198:Computer Simulation; D006801:Humans; D008958:Models, Molecular; D008969:Molecular Sequence Data; D010802:Phylogeny; D018272:Porins / Q000737:chemistry* / Q000145:classification / Q000235:genetics / Q000378:metabolism*; D055503:Protein Multimerization; D055550:Protein Stability; D020836:Protein Structure, Quaternary; D017433:Protein Structure, Secondary; D011994:Recombinant Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism; D016415:Sequence Alignment; D015011:Yersinia pseudotuberculosis / Q000737:chemistry*
chemical_list: D001425:Bacterial Outer Membrane Proteins; D018272:Porins; D011994:Recombinant Proteins