Analysis of the outer membrane BAM complex

• Project/Area Number: 22370044
• Research Category: Grant-in-Aid for Scientific Research (B)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Structural biochemistry
• Research Institution: Yokohama City University
• Principal Investigator: J・R・H Tame 横浜市立大学, 生命医科学研究科, 教授 (00336588)
• Co-Investigator(Kenkyū-buntansha): PARK Sam-yong 横浜市立大学, 生命医科学研究科, 教授 (20291932) ; UNZAI Satoru 横浜市立大学, 生命医科学研究科, 助教 (60336592)
• Project Period (FY): 2010 – 2012
• Project Status: Completed (Fiscal Year 2012)
• Budget Amount: ¥18,980,000 (Direct Cost: ¥14,600,000、Indirect Cost: ¥4,380,000); Fiscal Year 2012: ¥2,730,000 (Direct Cost: ¥2,100,000、Indirect Cost: ¥630,000); Fiscal Year 2011: ¥7,150,000 (Direct Cost: ¥5,500,000、Indirect Cost: ¥1,650,000); Fiscal Year 2010: ¥9,100,000 (Direct Cost: ¥7,000,000、Indirect Cost: ¥2,100,000)
• Keywords: 膜タンパク質 / 抗生剤 / 結晶 / タンパク質 / X線結晶構造解析 / 細胞膜輸送 / オートトランスポーター

Research Abstract

Gram negative bacteria require the BAM complex for the insertion of membrane proteins into the outer membrane. This essential complex consists of five proteins, the large transmembrane barrel being BamA. BamA carries five POTRA domains at its N terminus which interact with other proteins in the complex. Only BamA and BamD are essential, but the roles of these proteins is unknown. We have solved the crystal structure of an outer membrane protein, Hbp, and studied the interaction between BamC and BamD. The Hbp beta-barrel is a substrate of BAM, but the interactions between the two are unclear. We have shown that BamC and BamD interact to give a flexible complex.

Research Products

• [Journal Article] The structure of the deacetylase domain of Escherichia coli PgaB, an enzyme required for biofilm formation: a circularly permuted member of the carbohydrate esterase 4 family (2013)
  • Author(s): Nishiyama, T., Noguchi, H., Yoshida, H., Park, S. Y. & Tame, J. R. H
  • Journal Title: Acta Crystallogr D Biol Crystallogr Volume: 69 Pages: 44-51
• [Journal Article] The structure of the deacetylase domain of Escherichia coli PgaB, an enzyme required for biofilm formation: a circularly permuted member of the carbohydrate esterase 4 family. (2013)
  • Author(s): Nishiyama, T., Noguchi, H., Yoshida, H., Park, S. Y. & Tame, J. R. H.
  • Journal Title: Acta Crystallogr D Biol Crystallogr Volume: 69 Issue: 1 Pages: 44-51
  • DOI: 10.1107/s0907444912042059
  • Peer Reviewed
• [Journal Article] Structural basis for broad detection of genogroup II noroviruses by a monoclonal antibody that binds to a site occluded in the viral particle (2012)
  • Author(s): Hansman, G. S., Taylor, D. W., McLellan,J. S., Smith, T. J., Georgiev, I., Tame, J. R. H., Park, S. Y., Yamazaki, M., Gondaira, F., Miki, M., Katayama, K., Murata, K. & Kwong, P. D
  • Journal Title: J Virol Volume: 86 Pages: 3635-46
• [Journal Article] Influence of structural symmetry on protein dynamics (2012)
  • Author(s): Matsunaga, Y., Koike, R., Ota, M., Tame, J. R. H. & Kidera, A
  • Journal Title: PLoS One Volume: 7
• [Journal Article] Structures of haemoglobin from woolly mammoth in liganded and unliganded states (2012)
  • Author(s): Noguchi, H., Campbell, K. L., Ho, C., Unzai, S., Park, S. Y. & Tame, J. R. H
  • Journal Title: Acta Crystallogr D Biol Crystallogr Volume: 68 Pages: 1441-9
• [Journal Article] Crystal structures of penicillin-binding protein 3 (PBP3) from methicillin-resistant Staphylococcus aureus in the apo and cefotaxime-bound forms (2012)
  • Author(s): Yoshida, H., Kawai, F., Obayashi, E., Akashi, S., Roper, D. I., Tame, J. R. H. & Park, S. Y.
  • Journal Title: J Mol Biol Volume: 423 Pages: 351-64
• [Journal Article] Crystal structures of penicillin-binding protein 3 (PBP3) from methicillin-resistant Staphylococcus aureus in the apo and cefotaxime-bound forms (2012)
  • Author(s): Yoshida H, Kawai F, Obayashi E, Akashi S, Roper DI, Tame JR, Park SY
  • Journal Title: J Mol Biol Volume: 423 Issue: 3 Pages: 351-364
  • DOI: 10.1016/j.jmb.2012.07.012
  • Peer Reviewed
• [Journal Article] Structures of haemoglobin from woolly mammoth in liganded and unliganded states. (2012)
  • Author(s): Noguchi, H., Campbell, K. L., Ho, C., Unzai, S., Park, S. Y. & Tame, J. R. H.
  • Journal Title: Acta Crystallogr D Biol Crystallogr Volume: 412 Issue: 11 Pages: 551-2
  • DOI: 10.1107/s0907444912029459
  • Peer Reviewed
• [Journal Article] PLoS One (2012)
  • Author(s): Matsunaga, Y., Koike, R., Ota, M., Tame, J. R. H. & Kidera, A.
  • Journal Title: Influence of structural symmetry on protein dynamics. Volume: 7 Issue: 11 Pages: 11-11
  • DOI: 10.1371/journal.pone.0050011
  • Peer Reviewed
• [Journal Article] Structural Basis for Broad Detection of Genogroup II Noroviruses by a Monoclonal Antibody That Binds to a Site Occluded in the Viral Particle (2012)
  • Author(s): Hansman, G.S., Taylor, D.W., McLellan, J.S., Smith, T.J., Georgiev, I., Tame, J.R., Park, S.Y., Yamazaki, M., Gondaira, F., Miki, M., Katayama, K., Murata, K., Kwong, P.D.
  • Journal Title: Journal of Virology Volume: 86(7) Issue: 7 Pages: 3635-3646
  • DOI: 10.1128/jvi.06868-11
  • Peer Reviewed
• [Journal Article] Crystal structure of unliganded TRAP:implications for dynamic allostery (2011)
  • Author(s): Malay, A. D., Watanabe, M., Heddle, J. G. & Tame, J. R. H
  • Journal Title: Biochem J Volume: 434 Pages: 427-34
• [Journal Article] Autotransporter protein secretion (2011)
  • Author(s): Tame, J. R. H
  • Journal Title: BioMol Concepts Volume: 2 Pages: 525-536
• [Journal Article] 4000 holes (2011)
  • Author(s): Tame, J. R. H
  • Journal Title: J Mol Biol Volume: 412 Pages: 551-2
• [Journal Article] 4000 holes (2011)
  • Author(s): Tame, J.R.
  • Journal Title: J Mol Biol Volume: 412(4) Issue: 4 Pages: 551-2
  • DOI: 10.1016/j.jmb.2011.07.065
  • Peer Reviewed
• [Journal Article] Crystal structure of unliganded TRAP : implications for dynamic allostery (2011)
  • Author(s): Malay, A.D., Watanabe, M., Heddle, J.G., Tame, J.R.
  • Journal Title: Biochem J Volume: 434(3) Issue: 3 Pages: 427-34
  • DOI: 10.1042/bj20101813
  • Peer Reviewed
• [Journal Article] Substitutions in woolly mammoth hemoglobin confer biochemical properties adaptive for cold tolerance (2010)
  • Author(s): Campbell, K. L., Roberts, J. E., Watson, L. N., Stetefeld, J., Sloan, A. M., Signore, A. V., Howatt, J. W., Tame, J. R. H.,Rohland, N., Shen, T. J., Austin, J. J., Hofreiter, M., Ho, C., Weber, R. E. & Cooper, A
  • Journal Title: Nat Genet Volume: 42 Pages: 536-40
• [Journal Article] Autotransporter passenger proteins: virulence factors with common structural themes (2010)
  • Author(s): Nishimura, K., Tajima, N., Yoon, Y. H., Park, S. Y. & Tame, J. R. H
  • Journal Title: J Mol Med Volume: 88 Pages: 451-8
• [Journal Article] Role of domains within the autotransporter Hbp/Tsh (2010)
  • Author(s): Nishimura, K., Yoon, Y. H., Kurihara, A., Unzai, S., Luirink, J., Park, S. Y. & Tame, J. R. H
  • Journal Title: Acta Crystallogr D Biol Crystallogr Volume: 66 Pages: 1295-300
• [Journal Article] Order and disorder in the domain organization of the plasmid partition protein KorB (2010)
  • Author(s): Rajasekar, K., Muntaha, S. T., Tame, J. R. H., Kommareddy, S., Morris, G., Wharton, C. W., Thomas, C. M., White, S. A., Hyde, E. I. & Scott, D. J
  • Journal Title: J Biol Chem Volume: 285 Pages: 15440-9
• [Journal Article] A conserved aromatic residue in the autochaperone domain of the autotransporter Hbp is critical for initiation of outer membrane translocation (2010)
  • Author(s): Soprova, Z., Sauri, A., van Ulsen, P., Tame, J. R. H., den Blaauwen, T., Jong, W. S. & Luirink, J.
  • Journal Title: J Biol Chem Volume: 285 Pages: 38224-33
• [Journal Article] A novel intein-like autoproteolytic mechanism in autotransporter proteins (2010)
  • Author(s): Tajima, N., Kawai, F., Park, S. Y. & Tame, J. R. H
  • Journal Title: J Mol Biol Volume: 402 Pages: 645-56
• [Journal Article] A Novel Intein-Like Autoproteolytic Mechanism in Autotransporter Proteins. (2010)
  • Author(s): Tajima N, Kawai F, Park SY, Tame JR.
  • Journal Title: J Mol Biol Volume: 402 Pages: 645-56
  • Peer Reviewed
• [Journal Article] Crystal Structures of Penicillin-Binding Proteins 4 and 5 from Haemophilus influenzae. (2010)
  • Author(s): Kawai F, Clarke TB, Roper DI, Han GJ, Hwang KY, Unzai S, Obayashi E, Park SY, Tame JR.
  • Journal Title: J Mol Biol Volume: 396 Pages: 634-45
  • Peer Reviewed
• [Journal Article] Role of domains within the autotransporter Hbp/Tsh. (2010)
  • Author(s): Nishimura K, Yoon YH, Kurihara A, Unzai S, Luirink J, Park SY, Tame JR.
  • Journal Title: Acta Crystallogr D Biol Crystallogr Volume: 66 Pages: 1295-300
  • Peer Reviewed
• [Journal Article] Autotransporter passenger proteins : virulence factors with commonstructural themes. (2010)
  • Author(s): Nishimura K, Tajima N, Yoon YH, Park SY, Tame JR.
  • Journal Title: J Mol Med Volume: 88 Pages: 451-8
• [Presentation] Scoring functions (2012)
  • Author(s): Jeremy Tame
  • Organizer: CUP meeting
  • Place of Presentation: Santa Fe
  • Year and Date: 2012-03-07
• [Presentation] Beyond structure (2012)
  • Author(s): Jeremy Tame
  • Organizer: XVII International Conference on "Oxygen Binding and Sensing Proteins"
  • Place of Presentation: Parma, イタリア
  • Invited
• [Presentation] Some Thoughts on Scoring Functions (2012)
  • Author(s): Jeremy Tame
  • Organizer: CUP XIII
  • Place of Presentation: Santa Fe, New Mexico
• [Presentation] Drug design (2011)
  • Author(s): Jeremy Tame
  • Organizer: J-CUP II
  • Place of Presentation: Tokyo
  • Year and Date: 2011-05-20
• [Presentation] Structural studies of influenza RNA polymerase (2010)
  • Author(s): Jeremy Tame
  • Organizer: 構造エピゲノム研究会 第2回ワークショップ
  • Place of Presentation: 横浜(招待講演)
  • Year and Date: 2010-11-18
• [Presentation] Animal hemoglobins (2010)
  • Author(s): Jeremy Tame
  • Organizer: Allosteric cooperativity. Bari University
  • Place of Presentation: Bari, Italy
  • Year and Date: 2010-06-01
• [Presentation] Influenza RNA polymerase (2010)
  • Author(s): Jeremy Tame
  • Organizer: RNA Society Meeting
  • Place of Presentation: Nottingham University, England
  • Year and Date: 2010-04-15
• [Presentation] Structural insight into the essential subunit contacts of the in fluenza virus RNA polymerase (2010)
  • Author(s): Jeremy Tame
  • Organizer: The 2010 RNA polymerase workshop
  • Place of Presentation: England, Leicestershire(招待講演)
• [Presentation] New structures and old evolutionary tricks of hemoglobink (2010)
  • Author(s): Jeremy Tame
  • Organizer: Workshop on Allosteric cooperativity in soluble, membrane bound hemoproteins and related membrane systems
  • Place of Presentation: Bari, Italia(招待講演)
• [Presentation] インフルエンザウイルスのRNAポリメラーゼサブユニットPB1-2間相互作用の解明 (2010)
  • Author(s): 杉山佳奈子、尾林栄治、川口敦史、鈴木由佳理、テイムジェレミー、永田恭介、朴三用
  • Organizer: 第10回 日本蛋白質科学会年会
  • Place of Presentation: 札幌
• [Presentation] Fifty years of globins (2009)
  • Author(s): Jeremy Tame
  • Organizer: European Crystallography Meeting
  • Place of Presentation: Istanbul, Turkey
  • Year and Date: 2009-08-21
• [Presentation] Thermodynamics and ligand binding (2009)
  • Author(s): Jeremy Tame
  • Organizer: Computer-aided drug design
  • Place of Presentation: Tilton, NH, USA.
  • Year and Date: 2009-06-24
• [Remarks]
  • URL: http://www-mls.tsurumi.yokohama-cu.ac.jp/pdl/index.html