1. 原著論文
1. Senda, S., Inoue, A., Mahmood, A., Suzuki, R., Kamei N., Kubota, N., Watanabe,
T., Aoyama, M., Tsuneyama, K., Koshimizu, Usui, I., Saeki, K., Ohkuma.Y.,
Kadowaki, T., and Tobe, K. (2015) Calorie
restriction-mediated restoration of hypothalamic signal transducer and
activator of transcription 3 (STAT3) phosphorylation is not effective for
lowering the body weight set point in IRS-2 knockout obese mice. Diabetology International, in press.
Accepted on Jan 10.
2. Iida, S., Chen, W., Nakadai, T., Ohkuma.Y., and Roeder, R.G.
(2014) PRDM16 enhances nuclear
receptor-dependent transcription of the brown fat-specific Ucp1 gene through interactions with MED1 subunit of the Mediator. Genes
Dev., Accepted on Dec 21.
3. Tomimoto, D., Okuma, C., Ishii, Y., Ohta, T., Kakutani, M., Ohkuma.Y. , and Ogawa, N.
(2014) Pharmacological
characterization of [trans-5’-(4- Amino-7,
7-dimethyl-2-trifluoromethyl-7H-pyrimido [4, 5-b] [1,4] oxazin-6-yl)-2’,
3’-dihydrospiro (cyclohexane-1,1’-inden)-4-yl] acetic acid mono-
benzenesulfonate (JTT-553), a novel acyl CoA: diacylglycerol transferase 1
inhibitor. Biol. Pharm. Bull., Accepted on
Nov 15.
4. Wani, S., Hirose, Y., Ohkuma.Y. (2014) Human RPAP2 directly interacts
with the RNA Polymerase II subunit Rpb6 and participates in pre-mRNA 3’-end
formation. Drug Discov. Ther.・8・255-261.
5. Tanaka, A., Akimoto, Y., Kobayashi, S., Hisatake, K., Hanaoka, F., Ohkuma.Y.
(*equal contribution) (2014) Association of the Winged Helix Motif of the
TFIIE Subunit of TFIIE with Either the TFIIE Subunit or TFIIB Distinguishes
Its Functions in Transcription. Genes Cells, Epub ahead of print,
Dec 10.
6. *Kikuchi,Y., *Umemura,H., *Nishitani, S., Iida, S.,
Fukasawa, R., Hayashi, H., Hirose, Y., Tanaka, A.,Sugasawa,K., Ohkuma.Y. (*equal contribution) (2014) Human Mediator MED17 Subunit Plays Essential Roles in Gene
Regulation by Associating with both Transcription and DNA Repair Machineries.
Genes Cells, Epub ahead of print, Dec 7.
7. Nakatsubo, T.*, Nishitani, S.*, Kikuchi, Y., Iida, S., Yamada, K., Tanaka,
A., Ohkuma.Y. (*equal contribution) (2014) Human Mediator Subunit MED15 Promotes
Transcriptional Activation. Drug Discov. Ther.・8・212-217.
8. Akimoto, Y., Yamamoto, S., Iida, S., Hirose, Y., Tanaka,
A., Hanaoka, F., Ohkuma.Y. (2014) Transcription Cofactor PC4 Plays
Essential Roles in Collaboration with the Small Subunit of General
Transcription Factor TFIIE. Genes Cells, ・19・879ー890. Epub ahead of print, Oct 13.
9. Wani, S., Yuda, M., Fujiwara, Y., Yamamoto, M., Harada, F., Ohkuma.Y.,
Hirose, Y. (2014) Ssu72 regulates and coordinates 3’ end formation of RNAs
transcribed by RNA polymerase II in vertebrates.・PLoS ONE・9・e106040.
10. Kumafuji, M., Umemura, H., Furumoto, T., Fukasawa, R., Tanaka, A., and Ohkuma.Y. (2014) Mediator MED18 Subunit Plays a Negative Role in Transcription via the CDK/Cyclin Module. Genes Cells・19・582-593.
11. Tsutsui, T., Fukasawa, R., Shinmyouzu, K., Nakagawa, R., Tobe, K.,
Tanaka, A., and Ohkuma.Y. (2013) Mediator
complex recruits epigenetic regulators via its two cyclin-dependent kinase
subunits to repress transcription of immune response genes.・J. Biol. Chem.・288・20955ー20965.
12. Fukasawa, R., Tsutsui, T., Hirose, Y., Tanaka, A., and Ohkuma.Y. (2012) Mediator CDK Subunits Are Platforms for Interactions with Various
Chromatin Regulatory Complexes. J. Biochem. 152, 241-249.
13. Tsutsui, T., Fukasawa, R., Tanaka, A., Hirose, Y., and Ohkuma.Y. (2011)
Identification of target genes for the CDK
subunits of the Mediator complex. Genes Cells 16, 1208-1218.
14. Mizuki, F., Tanaka, A., Hirose, Y., and Ohkuma.Y. (2011) The HIRA complex
subunit Hip3 plays important roles in the silencing of meiosis-specific genes
in Schizosaccharomyces pombe. PLoS ONE, 6, e19442.
17. *Okuda, M., *Tanaka, A., Satoh, M., Takazawa, M., Mizuta, S., Ohkuma.Y.,
and Nishimura, Y. (*these authors contributed equally to this work.) (2008)
Structural insight into
the TFIIE/TFIIH: TFIIE and p53 share
the binding region on TFIIH. EMBO J.,
27, 1161–1171.
18. Tsutsui, T., Umemura, H., Tanaka, A., Mizuki, F., Hirose, Y., and Ohkuma.Y.
(2008) Human
Mediator Kinase Subunit CDK11 Plays a Negative Role in Viral
Activator VP16-dependent
Transcription. Genes Cells, 13, 817-826.
19. *Hirose, Y., *Iwamoto, Y., Sakuraba, K., Yunokuchi, I., Harada, F.,
and Ohkuma.Y. (*these authors contributed equally to this work.) (2008)
Human
phosphorylated CTD-interacting protein, PCIF1, negatively modulates gene
expression by RNA polymerase II. Biochem. Biophys. Res. Comm., 69, 449-455.
20. Akashi, S., Nagakura, S., Yamamoto, S., Ohkuma.Y., and Nishimura, Y.
(2008) Structural characterization of human transcription factor TFIIF
in solution. Protein Science, 17, 389-400.
21. Furumoto, T., Tanaka, A., Ito, M., Malik, S., Hirose, Y., Hanaoka, F., and Ohkuma.Y. (2007)
A kinase subunit of the human Mediator complex, CDK8,
positively regulates transcriptional activation. Genes Cells, 12, 119-132.
22. Hayashi, K.,
Watanabe, T., Tanaka, A., Furumoto, T., Sato-Tsuchiya, C., Kimura, M., Yokoi,
M., Ishihama, A., Hanaoka, F., and Ohkuma.Y. (2005) Studies
of Schizosaccharomyces pombe TFIIE
indicate conformational and functional changes in RNA polymerase II at
transcription initiation. Genes Cells, 10, 207-224.
23. Okuda, M., Tanaka, A., Hanaoka, F., Ohkuma.Y., and Nishimura, Y. (2005)
Structural insights into the
asymmetric effects of zinc-ligand cysteine mutations in the novel zinc ribbon
domain of human TFIIEα for
transcription.
J. Biochem. 138, 443-449.
24. Shibata, F., Ito, A., Ohkuma.Y., and Mitsui, K. (2005) Mitogenic activity
of S100A9 (MRP-14). Biol. Pharm. Bull., 28, 2312-2314.
25. Okuda, M., Tanaka, A., Arai, Y., Satoh, M., Okamura, H., Nagadoi, A.,
Hanaoka, F., Ohkuma.Y., and Nishimura, Y. (2004) A
novel zinc finger structure in the large subunit of human general transcription
factor TFIIE. J. Biol. Chem., 279,
51395-51403.
26. Watanabe, T., Hayashi, K., Tanaka, A., Furumoto, T., Hanaoka, F., and
Ohkuma.Y. (2003) The carboxy terminus of the small subunit of
TFIIE regulates the transition from transcription initiation to elongation by RNA
polymerase II. Mol. Cell. Biol. 23, 2914-2926.
27. Fujita, N., Watanabe, S., Ichimura, H., Ohkuma.Y., Chiba, T., Saya,
H., and Nakao, M. (2003) MCAF mediates MBD1-dependent transcriptional repression.
Mol. Cell. Biol. 23, 2834-2843.
28. Uchida, A., Sugasawa, K., Masutani, C., Domae, N., Araki, M., Yokoi,
M., Takio, K., Ohkuma.Y., and Hanaoka, F. (2002) The carboxy-terminal domain
of the XPC protein plays a crucial role in nucleotide excision repair through
interactions with transcription factor IIH. DNA
Repair, 1, 449-461.
29. Yamamoto, S., Watanabe, Y., van der Spek, P., Watanabe, T., Fujimoto,
H., Hanaoka, F., and Ohkuma.Y. (2001) Studies of nematode TFIIE reveal
a link between Ser-5 phosphorylation of RNA polymerase II and the transition
from transcription initiation to elongation. Mol.
Cell. Biol., 21, 1-15.
30. Araki, M., Masutani, C., Takemura, M., Uchida, A., Sugasawa, K., Kondoh,
J., Ohkuma.Y., and Hanaoka, F. (2001) Centrosome protein cetrin2/caltractin1
is part of the xeroderma pigmentosum group C complex that initiates global
genome nucleotide excision repair. J. Biol. Chem., 276, 18666-18672.
31. Douziech, M., Coin, F., Chipoulet, J.-M., Arai, Y., Ohkuma.Y., Egly,
J.-M., and Coulombe, B. (2000) Mechanism of promoter melting by the Xeroderma
pigmentosum complementation group B helicase of transcription factor IIH
revealed by protein-DNA photo-cross-linking. Mol. Cell. Biol. 20,
8168-8177.
32. Watanabe, Y., Fujimoto, H., Watanabe, T., Maekawa, T., Masutani, C.,
Hanaoka, F., and Ohkuma.Y. (2000) Modulation of TFIIH-associated kinase
activity by complex formation and its relationship with CTD phosphorylation
of RNA polymerase II. Genes Cells, 5, 407-423.
33. Okuda, M., Watanabe, Y., Okamura, H., Hanaoka, F., Ohkuma.Y., and Nishimura,
Y. (2000) Structure of the central core domain of TFIIEb with a novel double-stranded DNA-binding surface. EMBO
J. 19, 1346-1356.
34. Yokoi, M., Masutani, C., Maekawa, T., Sugasawa, K., Ohkuma.Y., and
Hanaoka, F. (2000) The xeroderma pigmentosum group C protein complex XPC-HR23B
plays an important role in the recruitment of TFIIH to damaged DNA. J. Biol. Chem., 275,
9870-9875.
35. Araki, M., Masutani, C., Maekawa, T., Watanabe, Y., Yamada, A., Kusumoto,
R., Sugasawa, K., Ohkuma.Y., and Hanaoka, F. (2000) Reconstitution of damage
DNA excision reaction on SV40 minichromosomes with purified nucleotide
excision repair proteins. Mutation Res. 459,
147-160.
36. Okamoto, T., Yamamoto, S., Watanabe, Y., Ohta, T., Hanaoka, F., Roeder,
R. G., and Ohkuma.Y. (1998) Analysis of the role of TFIIE in transcriptional
regulation through structure-function studies of the TFIIEb subunit. J.
Biol. Chem.273,
19866-19876.
37. Kojima, S., Kobayashi, A., Gotoh, O., Ohkuma.Y., Fujii-Kuriyama, Y.,
and Sogawa, K. (1997) Transcriptional activation domain of human BTEB2,
a GC box-binding factor. J. Biochem. 121, 389-396.
38. Kawakami, K., Masuda, K., Nagano, K., Ohkuma.Y., and Roeder, R. G.
(1996) Characterization of the core promoter of Na, K-ATPase a1 subunit gene: Elements
required for transcription by RNA polymerase II and III in vitro. Eur. J. Biochem.237, 440-446.
39. Ohkuma.Y., Hashimoto, S., Wang, C.K., Horikoshi, M., and Roeder, R.
G. (1995) Analysis of the role of TFIIE in basal transcription and TFIIH-mediated
CTD-phosphorylation through structure-function studies of TFIIE-a. Mol. Cell. Biol.15,
4856-4866.
40. Sauer, F., Fondell, J. D., Ohkuma.Y., Roeder, R. G., and Jäckle, H.
(1995) Control of transcription by Krüppel through interactions with TFIIB
and TFIIEb. Nature 375, 162-164.
41. Ohkuma.Y., and Roeder, R. G. (1994) Regulation of TFIIH ATPase and
kinase activities by TFIIE during active initiation complex formation.
Nature368, 160-163.
42. ,Ohkuma.Y., Hashimoto, S., Roeder, R. G., and Horikoshi, M. (1992)
Identification of two large subdomains in TFIIE-a on the basis
of homology between Xenopus and human sequences. Nucl. Acids Res. 20, 5838.
43. Ohkuma.Y., Hashimoto, S., Roeder, R. G., and Horikoshi, M. (1992) Structural
conservation of putative functional motifs between Xenopus and human TFIIE-b. Nucl. Acids Res.20, 4363.
44. Sumimoto, H., Ohkuma.Y., Sinn, E., Kato, H., Shimasaki, S., Horikoshi,
M., and Roeder, R. G. (1991) Conserved sequence motifs in the small subunit
of human general transcription factor TFIIE. Nature354, 401-404.
45. Ohkuma.Y., Sumimoto, H., Hoffmann, A., Shimasaki, S., Horikoshi, M.,
and Roeder, R. G. (1991) Structural motifs and potential s homologies in the large subunit of human general transcription
factor TFIIE. Nature 354, 398-401.
46. Ohkuma.Y., Sumimoto, H., Horikoshi, M., and Roeder, R. G. (1990) Factors
involved in specific transcription by mammalian RNA polymerase II: purification
and characterization of general transcription factor TFIIE. Proc.
Natl. Acad. Sci. USA 87, 9163-9167.
47. Sumimoto, H., Ohkuma.Y., Yamamoto, T., Horikoshi, M., and Roeder, R.
G. (1990) Factors involved in specific transcription by mammalian RNA polymerase
II: identification of a novel general transcription factor TFIIG. Proc. Natl. Acad. Sci. USA87, 9158-9162.
48. Horikoshi, M., Yamamoto, T., Ohkuma.Y., Weil, P. A., and Roeder, R.
G. (1990) Analysis of structure-function relationships of yeast TATA box
binding factor TFIID. Cell61, 1171-1178.
49. Ohkuma.Y., Horikoshi, M., Roeder, R. G., and Desplan, C. (1990) Binding
site-dependent direct activation and repression of in vitro transcription
by Drosophila homeodomain proteins. Cell61, 475-484.
50. Ohkuma.Y., Horikoshi, M., Roeder, R. G., and Desplan, C. (1990) Engrailed,
a homeodomain protein, can repress in vitro transcription by competition with the TATA box-binding protein transcription
factor IID. Proc. Natl. Acad. Sci. USA87, 2289-2293.
51. Ohkuma.Y., Komano, H., and Natori, S. (1988) Identification and characterization
of Sarcophaga lectin receptor on the surface of murine macrophages by use of monoclonal
antibodies. J. Biochem.103,
402-407.
52. Itoh, A., Ohsawa, F., Ohkuma.Y., and Natori, S. (1986) Participation
of tumor killing factor in the antitumor effect of Sarcophaga lectin. FEBS Lett. 201, 37-40.
53. Ohkuma.Y., Komano, H., and Natori, S. (1986) Participation of common
surface receptor(s) in the activation of murine macrophages by Sarcophaga lectin and wheat germ agglutinin. Cancer Res.46,
3648-3652.
54. Ohkuma.Y., Komano, H., and Natori, S. (1985) Comparison of binding
proteins on the surface of murine tumor cells for two lectins active in
the lectin-dependent macrophage-mediated cytotoxic reaction. Cancer
Res. 45, 4397-4400.
55. Ohkuma.Y., Komano, H., and Natori, S. (1985) Identification of target
proteins participating in a lectin-dependent macrophage-mediated cytotoxic
reaction. Cancer Res. 45, 288-292.
２． 総説
１） 英文総説
1. Hirose, Y. and Ohkuma.Y. (2007) Phosphorylation of the C-terminal domain of RNA polymerase II plays
central roles in the integrated events of eukaryotic gene expression. J.
Biochem.122, 481-489.
2. Ohkuma.Y. (1997) Multiple functions of general transcription factors
TFIIE and TFIIH in transcription: Possible points of regulation by trans-acting factors. (JB
Review) J. Biochem.122,
481-489.
２） 和文総説
１．大熊芳明 (2010)『序論：遺伝子発現を協調的に制御する「核内コード」』、生化学 ３月特集号「タンパク質修飾がもたらす遺伝子発現調節」、編集：大熊芳明，177-179, 日本生化学会，東京。
２．筒井大気、大熊芳明 (2010)『メディエーター複合体によるタンパク質リン酸化がもたらす転写制御機構』、生化学 ３月特集号「タンパク質修飾がもたらす遺伝子発現調節」、編集：大熊芳明、191-199、日本生化学会，東京。
３．大熊芳明 (2007)「転写装置シグナリング」実験医学(羊土社) ６月号増刊 転写因子による生命現象解明の最前線–クロマチン制御機構・エピジェネティクスと転写因子複合体ネットワークの包括的解明- ２５巻、1446-1452、編集：五十嵐和彦、深水昭吉、大熊芳明、山本雅之。
４．大熊芳明 (2002)「基本転写因子の形成する転写開始複合体による遺伝子発現の調節」実験医学（羊土社） ７月号増刊 ゲノム機能を担う核・染色体のダイナミクス -複製、修復、組換え、転写機構からエピジェネティクス、高次生命機能・医学とのかかわりまで- ２０巻、1517-1524。
５．大熊芳明 (2000)「基本転写因子による転写開始と伸長段階への移行という連続した反応の制御機構」蛋白質・核酸・酵素（共立出版） ６月号増刊 転写因子の機能-転写制御複合体形成のダイナミクス- ４５巻、1494-1504。
６．横井雅幸、花岡文雄、大熊芳明 (2000)「皮膚癌と基本転写因子」現代医療 （現代医療社） 特集 転写因子と疾患 -基礎と臨床- ３２巻、473-480。
７．大熊芳明 (1999)「真核生物における基本転写因子とRNAポリメラーゼIIの機能と構造生物学」蛋白質・核酸・酵素（共立出版） ３月号増刊 構造生物学のフロンティア---シグナル伝達とDNAトランスアクション ４４巻、438-456。
８．大熊芳明、花岡文雄 (1996)「TFIIH-転写とヌクレオチド除去修復の協調的制御因子」実験医学(羊土社) 特集/DNA修復研究の最前線 １４巻、1565-1570。
９．堀越正美、大熊芳明、山口政光、今川正良、佐竹正延 (1993)「真核細胞の転写調節研究の近況」蛋白質・核酸・酵素（共立出版） ３８巻、864-873。
３. 著書
１．大熊芳明 (2009)「第７章 真核生物の転写の分子機構」 ノーベル賞の生命科学入門−RNAの新世界 講談社サイエンティフィク（講談社） 編集：菊池洋。
２．大熊芳明 (2009)「２. 転写機構」 第３版 分子生物学イラストレイテッド （羊土社） 編集：田村隆明、山本雅。
３．大熊芳明 (2008)「IV. 転写制御にかかわる分子群 第１２章 基本転写因子による転写開始の分子機構」 転写制御の分子生物学―ゲノムデコードに向けて― （南山堂） 12月発売。
４ 大熊芳明 (2008)「TFIIE」、「TFIIH」、「PC4」、「プロモータークリアランス」 第２版分子細胞生物学辞典 （東京化学同人） 編集：村松正実・岩渕雅樹・清水孝雄・谷口維紹・広川信隆・御子柴克彦・柳田充弘・矢原一郎。
５．大熊芳明、田中亜紀 (2004)「基本転写因子-Part１ 転写開始前と開始反応」 キーワードで理解する転写イラストマップ （羊土社） 編集：田村隆明、27-36。
６．田村隆明、大熊芳明 (2004)「転写と他の核機能との関連」 キーワードで理解する転写イラストマップ (羊土社) 編集：田村隆明、71-76。
７．大熊芳明 (2002)「基本転写(パート１)転写開始前と開始反応」 転写がわかる−基本転写から発生，再生，先端医療まで わかる実験医学シリーズ （羊土社） 編集：半田宏、49-60。
８．大熊芳明 (2001)「基本転写因子TFIIAとTFIIEの構造と転写機能」 転写因子と疾患 （医歯薬出版） 別冊・医学のあゆみ 編集：村松正美、613-621。
９．大熊芳明 (1999)「TFIIE」 Bio Science新用語ライブラリー 転写因子 （羊土社） 実験医学別冊 第２版 編集：田村隆明、山本雅之、安田国雄、32-34。
１０．大熊芳明 (1997)「TFIIK」、「PC4」、「プロモータークリアランス」 分子細胞生物学辞典 （東京化学同人） 編集：村松正実・岩渕雅樹・清水孝雄・谷口維紹・広川信隆・御子柴克彦・柳田充弘・矢原一郎、533、645、711。
１１．大熊芳明 (1997)「基本転写因子TFIIEとTFIIHによる転写の多段階制御」 転写因子 -生物機能調節の要- （共立出版） 編集：藤井義明、谷口維紹、鈴木義昭、岩渕雅樹、第３部 基本転写因子と転写因子間相互作用、185-197。
