1. Kuroda, S.*, Schweighofer, N., and
Kawato, M. (2001)
Exploration and
prediction of signal transduction pathways in cerebellar long-term depression
by kinetic simulation. J. Neurosci., in press
* corresponding author
2. Kuroda, S.*,
Schweighofer, N., Amano, M., Kaibuchi, K., and Kawato, M. (2001)
Distinct roles of
Rho-kinase pathway and myosin light chain kinase pathway in phosphorylation of
myosin light chain: kinetic simulation study. In Foundation of Systems Biology, MIT press,
in press
* corresponding author
3. Fukata, M., Nakagawa,
M., Kuroda, S., and Kaibuchi, K. (2001)
Effects of Rho family
GTPases on cell-cell adhesion. In Methods
in Molecular Biology, in press
4.
Sugimoto, N., Imoto, I., Fukuda, Y., Kurihara,
N., Kuroda, S., Tanigami, A., Kaibuchi, K., Kamiyama, R., and Inazawa,
J. (2001)
IQGAP1, a negative regulator of cell-cell adhesion, is
upregulated by gene amplification at 15q26 in gastric cancer cell lines HSC39
and 40A. J. Hum. Genet.,
46, 21-25
5.
Kuroda, S., Yamamoto, K.,
Miyamoto, H., Doya, K., and Kawato, M. (2001)
Statistical characteristics of climbing fiber spikes necessary
for efficient cerebellar learning.
Biol. Cybern., 84, 183-192
6.
Fukata, M., Nakagawa, M., Itoh, N., Kawajiri,
A., Yamaga, M., Kuroda, S., and Kaibuchi, K. (2001)
Dynamic localization of a-catenin
during cell scattering: Involvement of Cdc42, Rac1, and IQGAP1 in its
regulation. Mol. Cell. Biol.,
21, 2165-2183
(2000)
7.
Miyamoto, S., Baba, H., Kuroda, S.,
Kaibuchi, K., Fukuda, T., Maehara, Y., and Saito, T. (2000)
Changes in E-cadherin
associated with cytoplasmic molecules in well and poorly differentiated
endometrial cancer. Br. J.
Cancer 83, 1168-1175
8. Sone, M., Suzuki, E.,
Hoshino, M., Hou, D., Kuromi, H., Fukata, M., Kuroda, S., Kaibuchi, K.,
Nabeshima, Y., and Hama, C. (2000)
Synaptic development is controlled in the periactive
zones of Drosophila synapses.
Development, 127, 4157-4168
9.
Nakamura, N., Oshiro, N., Fukata, Y., Amano,
M., Fukata, M., Kuroda, S., Matsuura,Y., Leung, T., Lim, L., and Kaibuchi,
K. (2000)
Phosphorylation of ERM proteins at filopodia induced by
Cdc42. Genes Cells,
5, 571-582
10. Shimizu, T.,
Ihara, K., Maesaki, R., Kuroda, S., Kaibuchi, K., and Hokoshima, T. (2000)
An
open conformation of switch I revealed by the crystal structure of a Mg2+-free
form RhoA complexed with GDP: Implications of the GDP/GTP exchange mechanism. J. Biol. Chem., 275,
18311-18317
(1999)
11. Fukata, M.,
Nakagawa, M., Kuroda, S., and Kaibuchi, K. (1999)
Cell adhesion and the
Rho small GTPases. J. Cell
Sci., 112, 4491-4500, review
12. Maesaki, R.,
Ihara, K., Shimizu, T., Kuroda, S., Kaibuchi, K., and Hakoshima, T.
(1999)
The structural basis
of Rho effector recognition revealed by the crystal structure of human RhoA
complexed with the effector domain of PKN/PRK1. Mol. Cell, 4, 793-803
13. Kaibuchi, K., Kuroda,
S., Fukata, M., and Nakagawa, M. (1999)
Regulation of
cadherin-mediated cell-cell adhesion by the Rho family GTPases. Curr. Opin. Cell Biol.,
11, 591-596, review
14. Fukata, M., Kuroda,
S., Nakagawa, M., Kawajiri, A., Itou, N., Shoji, I., Matsuura, Y.,
Yonehara, S., and Kaibuchi, K. (1999)
Cdc42 and Rac1
regulate the interaction of the interaction of IQGAP1 and b-catenin. J. Biol. Chem., 274,
26044-26050
15. Kuroda, S., Fukata, M.,
Nakagawa, M., and Kaibuchi, K. (1999)
Cdc42, Rac1, and their
effector IQGAP1 as molecular switches for Cadherin-mediated cell-cell adhesion. Biochem. Biophys. Res. Commun.,
262, 1-6. review
16. Maesaki, R.,
Shimizu, T., Ihara, K., Kuroda, S., Kaibuchi, K., and Hakoshima, T.
(1999)
Biochemical and
crystallographic characterization of a Rho effector domain of the protein
serine/threonine kinase N in a complex with RhoA. J. Struct. Biol., 126, 166-170
17. Hoshino, M.,
Sone, M., Fukata, M., Kuroda, S., Kaibuchi, K., Nabeshima, Y., and Hama,
C. (1999)
Identification of the
stef gene that encodes a novel guanine nucleotide exchange factor specific for
Rac1. J. Biol. Chem.,
274, 17837-17844
18. Kaibuchi, K., Kuroda,
S., and Amano, M. (1999)
Regulation of
cytoskeletons and cell adhesions by the Rho-family GTPases. Annu. Rev. Biochem., 68,
459-486
(1998)
19. Kuroda, S., Fukata, M.,
Nakagawa, M., Fujii, K., Nakamura, T., Ookubo, T., Izawa, I., Nagase, T.,
Nomura, N., Tani, H. Shoji, I., Matsuura, Y., Yonehara, S., and Kaibuchi, K.
(1998)
Role of IQGAP1, a
target of the small GTPases Cdc42 and Rac1, in the regulation of
E-cadherin-mediated cell-cell adhesion.
Science, 281, 832-835
20. Ihara, K., Muraguchi,
S., Kato, M., Shimizu, T., Shirakawa, M., Kuroda, S., Kaibuchi, K., and
Hakoshima, T. (1998)
Crystal structure of
human RhoA in a dominantly active form complexed with a GTP analogue. J. Biol. Chem., 273,
9656-9666
21. Kita, Y., Kimura, K.
D., Kobayashi, M., Ihara, S., Kaibuchi, K., Kuroda, S., Ui, M., Iba, H.,
Konishi, H., Kikkawa, U., Nagata, S. and Fukui, Y. (1998)
Microinjection of
activated phosphatidylinositol-3 kinase process outgrowth in rat PC12 cells
through the Rac-JNK signal transduction pathway. J. Cell Sci., 111, 907-915
22. Kobayashi, K., Kuroda,
S., Fukata, M., Nakamura, T., Nagase, T., Nomura, N., Matsuura,
Yoshida-Kubomura, N., Iwamatsu, A., and Kaibuchi, K. (1998)
p140Sra-1
(Specifically Rac1-associated protein) is a novel specific target for Rac1
small GTPase. J. Biol. Chem.,
273, 291-295
(1997)
23. Kuroda, S., Fukata, M.,
Fujii, K., Nakamura, T., Izawa, I., and Kaibuchi, K. (1997)
Regulation of
cell-cell adhesion of MDCK cells by Cdc42 and Rac1 small GTPases. Biochem. Biophys. Res. Commun.,
240, 430-435
24. Fukata, M., Kuroda,
S., Fujii, K., Nakamura, T., Shoji, I., Matsuura, Y., Okawa, K., Iwamatsu,
A., Kikuchi, A., and Kaibuchi, K. (1997)
Regulation of
cross-linking of actin filament by IQGAP1, a target for Cdc42. J. Biol. Chem., 272,
29579-29583
25. Kobayashi,
M., Nagata, S., Kita, Y., Nakatsu, N., Ihara, S., Kaibuchi, K., Kuroda, S.,
Ui, M., Iba, H., Konishi, H., Kikkawa, U., Saitoh, I., and, Fukui, Y. (1997)
Expression of a
constitutively active phosphatidylinositol 3-kinase induces process formation
in rat PC12 cells. Use of Cre/loxP recombination system. J. Biol. Chem., 272,
16089-16092
26. Sone, M., Hoshino, M.,
Suzuki, E., Kuroda, S., Kaibuchi, K., Nakagoshi, H., Saigo, K.,
Nabeshima, Y., and Hama, C. (1997)
Still life, a protein
homologous to GDP-GTP exchangers, in synaptic terminals. Science, 275, 543-547.
(1996)
27. Kuroda, S., Fukata, M.,
Kobayashi, K., Nakafuku, M., Nomura, N., Iwamatsu, A., and Kaibuchi, K. (1996)
Identification of
IQGAP as a putative target for the small GTPases, Cdc42 and Rac1. J. Biol. Chem., 271,
23363-23367
28. Kuroda, S., Ohtsuka,
T., Yamamori, B., Fukui, K., Shimizu, K., and Takai, Y. (1996)
Different Effects of
Various Phospholipids on Ki-Ras-, Ha-Ras-, and Rap1B-induced B-Raf Activation. J. Biol. Chem., 271,
14680-14683
29. Ohtsuka, T.,
Shimizu, K., Yamamori, B., Kuroda, S., and Takai, Y. (1996)
Activation of brain
B-Raf protein kinase by Rap1B small GTP-binding protein. J. Biol. Chem., 271,
1258-1261
30. Kuriyama, M.,
Harada, N., Kuroda, S., Yamamoto, T., Nakafuku, M., Iwamatsu, A.,
Yamamoto, D., Prasad, R., Croce, C., Canaani, E., and Kaibuchi,K. (1996)
Identification of AF-6
and Canoe as putative targets for Ras.
J. Biol. Chem., 271, 607-610
(1995)
31. McGeady, P., Kuroda,
S., Shimizu, K., Takai, Y., and Gelb, M.H. (1995)
The farnesyl group of
H-Ras facilitates the activation of a soluble upstream activator of
mitogen-activated protein kinase. J.
Biol. Chem., 270, 26347-26351
32. Kuroda, S., Shimizu, K.,
Yamamori, B., and Takai, Y. (1995)
Cell-free Assay System for Ras-dependent
MEK Activation.
In Methods in
Enzymology, Academic Press, Inc., San Diego, 255, 257-265
33. Yamamori, B.,
Kuroda, S., Shimizu, K., Fukui, K., Ohtsuka, T., and Takai, Y. (1995)
Purification of a
Ras-dependent Mitogen-activated Kinase Kinase Kinase from Bovine Brain Cytosol
and Its Identification as a complex B-Raf and 14-3-3 Proteins. J. Biol. Chem., 270,
11723-11726
34. Kuroda, S., Shimizu,
K., Yamamori, B., Matsuda, S., Imazumi, K., Kaibuchi, K., and Takai, Y. (1995)
Purification and
characterization of REKS from Xenopus eggs_____Identification of REKS as
a Ras-dependent mitogen-activated protein kinase kinase kinase. J. Biol. Chem., 270,
2460-2465
(1994)
35. Kim, Y.S.,
Hong, K.S., Seong, Y-S., Park, J-B., Kuroda, S., Kishi, K., Kaibuchi,
K., and Takai, Y. (1994)
Phosphorylation and
activation of mitogen-activated protein kinase by kainic acid-induced seizure
in rat hippocampus. Biochem.
Biophys. Res. Commun., 202, 1163-116
36. Shimizu, K., Kuroda,
S., Yamamori, B., Matsuda, S., Kaibuchi, K., Yamauchi, T., Isobe, T., Irie,
K., Matsumoto, K., and Takai, Y. (1994)
Synergistic activation
by Ras and 14-3-3 protein of a mitogen-activated protein kinase kinase kinase
named Ras-dependent extracellular signal-reguraled kinase kinase stimulator. J. Biol. Chem., 269,
22917-22920
37. Takaishi, K., Sasaki,
T., Kato, M., Yamochi, W., Kuroda, S., Nakamura, T., Takeichi, M., and
Takai, Y. (1994)
Involvement of Rho p21
small GTP-binding protein and its regulator in the HGF-induced cell motility. Oncogene, 9, 273-279
(1993)
38. Kishi, K., Sasaki, T.,
Kuroda, S., Itoh, T., and Takai, Y. (1993)
Regulation of
cytoplasmic division of Xenopus embryo by rho p21 and its inhibitory
GDP/GTP exchange protein (rho GDI).
J. Cell Biol., 120, 1187-1195
39. Takaishi, K.,
Kikuchi, A., Kuroda, S., Kotani, K., Sasaki, T., and Takai, Y. (1993)
Involvement of rho p21
and its inhibitory GDP/GTP exchange protein (rho GDI) in cell motility. Mol. Cell. Biol., 13,
72-79
40. Orita, S., Kaibuchi,
K., Kuroda, S., Shimizu, K., Nakanishi, H., and Takai, Y. (1993)
Comparison of kinetic
properties between two mammalian ras p21 GDP/GTP exchange proteins, ras guanine
nucleotide-releasing factor and smg GDP dissociation stimulator. J. Biol. Chem., 268,
25542-25546
41. Miura, Y., Kikuchi,
A., Musha, T., Kuroda, S., Yaku, H., Sasaki, T., and Takai, Y. (1993)
Regulation of
morphology by rho p21 and its inhibitory GDP/GTP exchange protein (rho GDI) in
Swiss 3T3 cells. J. Biol.
Chem., 268, 510-515
(1992)
42. Kuroda, S., Kikuchi,
A., Hirata, K., Masuda, T., Kishi, K., Sasaki, T., and Takai, Y. (1992)
Cooperative function
of rho GDS and rho GDI to regulate rho p21 activation in smooth muscle. Biochem. Biophys. Res. Commun.,
185, 473-480
43. Kikuchi, A., Kuroda,
S., Sasaki, T., Kotani, K., Hirata, K., Katayama, M., and Takai, Y. (1992)
Functional
interactions of stimulatory and inhibitory GDP/GTP exchange proteins and their
common substrate small GTP-binding protein. J. Biol. Chem., 267, 14611-14615
44. Hirata, K., Kikuchi,
A., Sasaki, T., Kuroda, S., Kaibuchi, K., Matsuura, Y., Seki, H., Saida,
K., and Takai, Y. (1992)
Involvement of rho p21
in the GTP-enhanced calcium ion sensitivity of smooth muscle contraction. J. Biol. Chem., 267,
8719-8722
(1990)
45. Fujioka, H., Kikuchi,
A., Yoshida, Y., Kuroda, S., and Takai, Y. (1990)
A small GTP-binding
protein (G protein) recognized by smg p25A GDP dissociation inhibitor (GDI) in
human platelet membranes and GDI for this small G protein in human platelet
cytosol. Biochem. Biophys.
Res. Commun., 168, 1244-1252
46. Sasaki, T.,
Kikuchi, A., Araki, S., Hata, Y., Isomura, M., Kuroda, S., and Takai, Y.
(1990)
Purification and
characterization from bovine brain cytosol of a protein that inhibits the
dissociation of GDP from and the subsequent binding of GTP to smg p25A, a ras
p21-like GTP-binding protein. J.
Biol. Chem., 265, 2333-2337
(1989)
47. Kuroda, S., Kikuchi, A., and
Takai, Y. (1989)
Kinetic analysis of the
binding of guanine nucleotides to bovine brain rhoB p20, a ras p21-like
GTP-binding protein. Biochem.
Biophys. Res. Commun., 163, 674-681
48. Shoji, I., Kikuchi,
A., Kuroda, S., and Takai, Y. (1989)
Kinetic analysis of
the binding of guanine nucleotide to bovine brain smg p25A., Biochem. Biophys.
Res. Commun., 162, 273-281