Large-scale identification of protein-protein interaction of Escherichia coli K-12

Mohammad Arifuzzaman; Maki Maeda; Aya Itoh; Kensaku Nishikata; Chiharu Takita; Rintaro Saito; Takeshi Ara; Kenji Nakahigashi; Hsuan Cheng Huang; Aki Hirai; Kohei Tsuzuki; Seira Nakamura; Mohammad Altaf-Ul-Amin; Taku Oshima; Tomoya Baba; Natsuko Yamamoto; Tomoyo Kawamura; Tomoko Ioka-Nakamichi; Masanari Kitagawa; Masaru Tomita; Shigehiko Kanaya; Chieko Wada; Hirotada Mori

doi:10.1101/gr.4527806

Large-scale identification of protein-protein interaction of Escherichia coli K-12

Mohammad Arifuzzaman, Maki Maeda, Aya Itoh, Kensaku Nishikata, Chiharu Takita, Rintaro Saito, Takeshi Ara, Kenji Nakahigashi, Hsuan Cheng Huang, Aki Hirai, Kohei Tsuzuki, Seira Nakamura, Mohammad Altaf-Ul-Amin, Taku Oshima, Tomoya Baba, Natsuko Yamamoto, Tomoyo Kawamura, Tomoko Ioka-Nakamichi, Masanari Kitagawa, Masaru TomitaShigehiko Kanaya, Chieko Wada, Hirotada Mori

University

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Abstract

Protein-protein interactions play key roles in protein function and the structural organization of a cell. A thorough description of these interactions should facilitate elucidation of cellular activities, targeted-drug design, and whole cell engineering. A large-scale comprehensive pull-down assay was performed using a His-tagged Escherichia coli ORF clone library. Of 4339 bait proteins tested, partners were found for 2667, including 779 of unknown function. Proteins copurifying with hexahistidine-tagged baits on a Ni ²⁺-NTA column were identified by MALDI-TOF MS (matrix-assisted laser desorption ionization time of flight mass spectrometry). An extended analysis of these interacting networks by bioinformatics and experimentation should provide new insights and novel strategies for E. coli systems biology.

Original language	English
Pages (from-to)	686-691
Number of pages	6
Journal	Genome Research
Volume	16
Issue number	5
DOIs	https://doi.org/10.1101/gr.4527806
Publication status	Published - 2006 May

ASJC Scopus subject areas

Genetics
Genetics(clinical)

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Arifuzzaman, M., Maeda, M., Itoh, A., Nishikata, K., Takita, C., Saito, R., Ara, T., Nakahigashi, K., Huang, H. C., Hirai, A., Tsuzuki, K., Nakamura, S., Altaf-Ul-Amin, M., Oshima, T., Baba, T., Yamamoto, N., Kawamura, T., Ioka-Nakamichi, T., Kitagawa, M., ... Mori, H. (2006). Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Research, 16(5), 686-691. https://doi.org/10.1101/gr.4527806

Arifuzzaman, M, Maeda, M, Itoh, A, Nishikata, K, Takita, C, Saito, R, Ara, T, Nakahigashi, K, Huang, HC, Hirai, A, Tsuzuki, K, Nakamura, S, Altaf-Ul-Amin, M, Oshima, T, Baba, T, Yamamoto, N, Kawamura, T, Ioka-Nakamichi, T, Kitagawa, M, Tomita, M, Kanaya, S, Wada, C & Mori, H 2006, 'Large-scale identification of protein-protein interaction of Escherichia coli K-12', Genome Research, vol. 16, no. 5, pp. 686-691. https://doi.org/10.1101/gr.4527806

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abstract = "Protein-protein interactions play key roles in protein function and the structural organization of a cell. A thorough description of these interactions should facilitate elucidation of cellular activities, targeted-drug design, and whole cell engineering. A large-scale comprehensive pull-down assay was performed using a His-tagged Escherichia coli ORF clone library. Of 4339 bait proteins tested, partners were found for 2667, including 779 of unknown function. Proteins copurifying with hexahistidine-tagged baits on a Ni 2+-NTA column were identified by MALDI-TOF MS (matrix-assisted laser desorption ionization time of flight mass spectrometry). An extended analysis of these interacting networks by bioinformatics and experimentation should provide new insights and novel strategies for E. coli systems biology.",

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AU - Ara, Takeshi

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AU - Kitagawa, Masanari

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Large-scale identification of protein-protein interaction of Escherichia coli K-12

Abstract

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