Author results

1V9H
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CRYSTAL STRUCTURE OF THE RNASE MC1 MUTANT Y101A IN COMPLEX WITH 5'-UMP
Descriptor:Ribonuclease MC, SULFATE ION, URIDINE-5'-MONOPHOSPHATE
Authors:Kimura, K., Numata, T., Kakuta, Y., Kimura, M.
Deposit date:2004-01-26
Release date:2004-10-05
Last modified:2017-10-04
Method:X-RAY DIFFRACTION (2 Å)
Cite:Amino acids conserved at the C-terminal half of the ribonuclease t2 family contribute to protein stability of the enzymes
Biosci.Biotechnol.Biochem., 68, 2004
1VE8
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X-RAY ANALYSES OF OLIGONUCLEOTIDES CONTAINING 5-FORMYLCYTOSINE, SUGGESTING A STRUCTURAL REASON FOR CODON-ANTICODON RECOGNITION OF MITOCHONDRIAL TRNA-MET; PART 1, D(CGCGAATT(F5C)GCG)
Descriptor:5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*(5FC)P*GP*CP*G)-3', SODIUM ION
Authors:Kimura, K., Ono, A., Watanabe, K., Takenaka, A.
Deposit date:2004-03-29
Release date:2005-06-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:X-Ray analyses of oligonucleotides containing 5-formylcytosine, suggest a structural reason for the codon-anticodon recognition of mitochondrial tRNA-Met
To be Published
3WNP
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D308A, F268V, D469Y, A513V, AND Y515S QUINTUPLE MUTANT OF BACILLUS CIRCULANS T-3040 CYCLOISOMALTOOLIGOSACCHARIDE GLUCANOTRANSFERASE COMPLEXED WITH ISOMALTOUNDECAOSE
Descriptor:Cycloisomaltooligosaccharide glucanotransferase, CALCIUM ION, SODIUM ION, ...
Authors:Suzuki, R., Suzuki, N., Fujimoto, Z., Momma, M., Kimura, K., Kitamura, S., Kimura, A., Funane, K.
Deposit date:2013-12-10
Release date:2014-02-05
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Molecular engineering of cycloisomaltooligosaccharide glucanotransferase from Bacillus circulans T-3040: structural determinants for the reaction product size and reactivity.
Biochem.J., 2015
1J1F
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CRYSTAL STRUCTURE OF THE RNASE MC1 MUTANT N71T IN COMPLEX WITH 5'-GMP
Descriptor:RIBONUCLEASE MC1, GUANOSINE-5'-MONOPHOSPHATE
Authors:Numata, T., Suzuki, A., Kakuta, Y., Kimura, K., Yao, M., Tanaka, I., Yoshida, Y., Ueda, T., Kimura, M.
Deposit date:2002-12-03
Release date:2003-05-20
Last modified:2017-10-04
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystal Structures of the Ribonuclease MC1 Mutants N71T and N71S in Complex with 5'-GMP: Structural Basis for Alterations in Substrate Specificity
Biochemistry, 42, 2003
1J1G
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CRYSTAL STRUCTURE OF THE RNASE MC1 MUTANT N71S IN COMPLEX WITH 5'-GMP
Descriptor:Ribonuclease MC1, GUANOSINE-5'-MONOPHOSPHATE
Authors:Numata, T., Suzuki, A., Kakuta, Y., Kimura, K., Yao, M., Tanaka, I., Yoshida, Y., Ueda, T., Kimura, M.
Deposit date:2002-12-04
Release date:2003-05-20
Last modified:2017-10-04
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystal Structures of the Ribonuclease MC1 Mutants N71T and N71S in Complex with 5'-GMP: Structural Basis for Alterations in Substrate Specificity
Biochemistry, 42, 2003
1X0T
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CRYSTAL STRUCTURE OF RIBONUCLEASE P PROTEIN PH1601P FROM PYROCOCCUS HORIKOSHII OT3
Descriptor:Ribonuclease P protein component 4, ZINC ION
Authors:Kakuta, Y., Ishimatsu, I., Numata, T., Kimura, K., Yao, M., Tanaka, I., Kimura, M.
Deposit date:2005-03-29
Release date:2005-11-15
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystal Structure of a Ribonuclease P Protein Ph1601p from Pyrococcus horikoshii OT3: An Archaeal Homologue of Human Nuclear Ribonuclease P Protein Rpp21(,)
Biochemistry, 44, 2005
3A9L
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STRUCTURE OF BACTERIOPHAGE POLY-GAMMA-GLUTAMATE HYDROLASE
Descriptor:Poly-gamma-glutamate hydrolase, ZINC ION, PHOSPHATE ION
Authors:Fujimoto, Z., Kimura, K.
Deposit date:2009-10-30
Release date:2010-11-10
Last modified:2012-02-29
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Crystal structure of bacteriophage PhiNIT1 zinc peptidase PghP that hydrolyzes gamma-glutamyl linkage of bacterial poly-gamma-glutamate
Proteins, 80, 2012
2D57
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DOUBLE LAYERED 2D CRYSTAL STRUCTURE OF AQUAPORIN-4 (AQP4M23) AT 3.2 A RESOLUTION BY ELECTRON CRYSTALLOGRAPHY
Descriptor:Aquaporin-4
Authors:Hiroaki, Y., Tani, K., Kamegawa, A., Gyobu, N., Nishikawa, K., Suzuki, H., Walz, T., Sasaki, S., Mitsuoka, K., Kimura, K., Mizoguchi, A., Fujiyoshi, Y.
Deposit date:2005-10-29
Release date:2006-01-31
Last modified:2018-07-18
Method:ELECTRON CRYSTALLOGRAPHY (3.2 Å)
Cite:Implications of the Aquaporin-4 Structure on Array Formation and Cell Adhesion
J.Mol.Biol., 355, 2005
1ID6
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SOLUTION STRUCTURES OF SYR6
Descriptor:SYR6
Authors:Sato, A., Kawaguchi, K., Kimura, K., Tanimura, R., Sone, S.
Deposit date:2001-04-04
Release date:2002-04-10
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:A peptide mimetic of IFN, the first proof of a small peptidic agonist for heterodimeric cytokine receptor
To be Published
1ID7
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SOLUTION STRUCTURE OF SYR6
Descriptor:SYR6
Authors:Sato, A., Kawaguchi, K., Kimura, K., Tanimura, R., Sone, S.
Deposit date:2001-04-04
Release date:2002-04-10
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:A peptide mimetic of IFN, the first proof of a small peptidic agonist for heterodimeric cytokine receptor
To be Published
5Y6U
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CRYSTAL STRUCTURE OF WILD-TYPE YABJ PROTEIN FROM BACILLUS SUBTILIS (NATTO).
Descriptor:YabJ protein, ACETIC ACID
Authors:Fujimoto, Z., Kishine, N., Kimura, K.
Deposit date:2017-08-15
Release date:2018-08-15
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:A gain-of-function mutation in yabJ gene enables poly-gamma-glutamic acid production of Bacillus subtilis (natto) in the absence of DegQ by inducing homotetramer formation of YabJ.
To Be Published
1GTW
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CRYSTAL STRUCTURE OF C/EBPBETA BZIP HOMODIMER BOUND TO A DNA FRAGMENT FROM THE TOM-1A PROMOTER
Descriptor:CAAT/ENHANCER BINDING PROTEIN BETA, 5'-D(*AP*AP*TP*GP*TP*GP*GP*CP*GP*CP* AP*AP*TP*CP*CP*T)-3', 5'-D(*TP*AP*GP*GP*AP*TP*TP*GP*CP*GP* CP*CP*AP*CP*AP*T)-3'
Authors:Tahirov, T.H., Ogata, K.
Deposit date:2002-01-22
Release date:2004-02-06
Last modified:2014-01-22
Method:X-RAY DIFFRACTION (1.85 Å)
Cite:Structural Basis for Flexible Base Recognition by C/Ebpbeta
To be Published
1GU4
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CRYSTAL STRUCTURE OF C/EBPBETA BZIP HOMODIMER BOUND TO A HIGH AFFINITY DNA FRAGMENT
Descriptor:CAAT/ENHANCER BINDING PROTEIN BETA, 5'-D(*TP*AP*GP*GP*AP*TP*TP*GP*CP*GP* CP*AP*AP*TP*AP*T)-3', 5'-D(*AP*AP*TP*AP*TP*TP*GP*CP*GP*CP* AP*AP*TP*CP*CP*T)-3'
Authors:Tahirov, T.H., Ogata, K.
Deposit date:2002-01-23
Release date:2003-06-26
Last modified:2017-03-29
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Structural Basis for Flexible Base Recognition by C/Ebpbeta
To be Published
1GU5
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CRYSTAL STRUCTURE OF C/EBPBETA BZIP HOMODIMER BOUND TO A DNA FRAGMENT FROM THE MIM-1 PROMOTER
Descriptor:CAAT/ENHANCER BINDING PROTEIN BETA, 5'-D(*TP*TP*GP*TP*GP*TP*TP*GP*GP*CP* CP*AP*AP*TP*CP*A)-3', 5'-D(*AP*TP*GP*AP*TP*TP*GP*GP*CP*CP* AP*AP*CP*AP*CP*A)-3'
Authors:Tahirov, T.H., Ogata, K.
Deposit date:2002-01-24
Release date:2003-06-26
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Structural Basis for Flexible Base Recognition by C/Ebpbeta
To be Published
5X7O
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CRYSTAL STRUCTURE OF PAENIBACILLUS SP. 598K ALPHA-1,6-GLUCOSYLTRANSFERASE
Descriptor:Glycoside hydrolase family 31 alpha-glucosidase, CALCIUM ION, NICKEL (II) ION, ...
Authors:Fujimoto, Z., Suzuki, N., Kishine, N., Momma, M., Ichinose, H., Kimura, A., Funane, K.
Deposit date:2017-02-27
Release date:2017-07-26
Last modified:2017-08-30
Method:X-RAY DIFFRACTION (2 Å)
Cite:Carbohydrate-binding architecture of the multi-modular alpha-1,6-glucosyltransferase from Paenibacillus sp. 598K, which produces alpha-1,6-glucosyl-alpha-glucosaccharides from starch
Biochem. J., 474, 2017
5X7P
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CRYSTAL STRUCTURE OF PAENIBACILLUS SP. 598K ALPHA-1,6-GLUCOSYLTRANSFERASE COMPLEXED WITH ACARBOSE
Descriptor:Glycoside hydrolase family 31 alpha-glucosidase, CALCIUM ION, ALPHA-ACARBOSE, ...
Authors:Fujimoto, Z., Kishine, N., Suzuki, N., Momma, M., Ichinose, H., Kimura, A., Funane, K.
Deposit date:2017-02-27
Release date:2017-07-26
Last modified:2017-08-30
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Carbohydrate-binding architecture of the multi-modular alpha-1,6-glucosyltransferase from Paenibacillus sp. 598K, which produces alpha-1,6-glucosyl-alpha-glucosaccharides from starch
Biochem. J., 474, 2017
5X7Q
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CRYSTAL STRUCTURE OF PAENIBACILLUS SP. 598K ALPHA-1,6-GLUCOSYLTRANSFERASE COMPLEXED WITH MALTOHEXAOSE
Descriptor:Glycoside hydrolase family 31 alpha-glucosidase, CALCIUM ION, BETA-D-GLUCOSE, ...
Authors:Fujimoto, Z., Kishine, N., Suzuki, N., Momma, M., Ichinose, H., Kimura, A., Funane, K.
Deposit date:2017-02-27
Release date:2017-07-26
Last modified:2017-08-30
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Carbohydrate-binding architecture of the multi-modular alpha-1,6-glucosyltransferase from Paenibacillus sp. 598K, which produces alpha-1,6-glucosyl-alpha-glucosaccharides from starch
Biochem. J., 474, 2017
5X7R
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CRYSTAL STRUCTURE OF PAENIBACILLUS SP. 598K ALPHA-1,6-GLUCOSYLTRANSFERASE COMPLEXED WITH ISOMALTOHEXAOSE
Descriptor:Glycoside hydrolase family 31 alpha-glucosidase, CALCIUM ION, BETA-D-GLUCOSE, ...
Authors:Fujimoto, Z., Kishine, N., Suzuki, N., Momma, M., Ichinose, H., Kimura, A., Funane, K.
Deposit date:2017-02-27
Release date:2017-07-26
Last modified:2017-08-30
Method:X-RAY DIFFRACTION (1.95 Å)
Cite:Carbohydrate-binding architecture of the multi-modular alpha-1,6-glucosyltransferase from Paenibacillus sp. 598K, which produces alpha-1,6-glucosyl-alpha-glucosaccharides from starch
Biochem. J., 474, 2017
5X7S
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CRYSTAL STRUCTURE OF PAENIBACILLUS SP. 598K ALPHA-1,6-GLUCOSYLTRANSFERASE, TERBIUM DERIVATIVE
Descriptor:Glycoside hydrolase family 31 alpha-glucosidase, CALCIUM ION, NICKEL (II) ION, ...
Authors:Fujimoto, Z., Kishine, N., Suzuki, N., Momma, M., Ichinose, H., Kimura, A., Funane, K.
Deposit date:2017-02-27
Release date:2017-07-26
Last modified:2017-08-30
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Carbohydrate-binding architecture of the multi-modular alpha-1,6-glucosyltransferase from Paenibacillus sp. 598K, which produces alpha-1,6-glucosyl-alpha-glucosaccharides from starch
Biochem. J., 474, 2017
1UCG
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CRYSTAL STRUCTURE OF RIBONUCLEASE MC1 N71T MUTANT
Descriptor:Ribonuclease MC, MANGANESE (II) ION
Authors:Suzuki, A., Numata, T., Yao, M., Tanaka, I., Kimura, M.
Deposit date:2003-04-14
Release date:2003-04-29
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.65 Å)
Cite:Crystal structures of the ribonuclease MC1 mutants N71T and N71S in complex with 5'-GMP: structural basis for alterations in substrate specificity
Biochemistry, 42, 2003
1H89
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CRYSTAL STRUCTURE OF TERNARY PROTEIN-DNA COMPLEX2
Descriptor:CAAT/ENHANCER BINDING PROTEIN BETA, MYB PROTO-ONCOGENE PROTEIN, DNA(5'-(*GP*AP*TP*GP*TP*GP*GP*CP*GP*CP*AP* AP*TP*CP*CP*TP*TP*AP*AP*CP*GP*GP*AP*CP*TP*G)-3'), ...
Authors:Tahirov, T.H., Ogata, K.
Deposit date:2001-01-30
Release date:2002-01-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.45 Å)
Cite:Mechanism of C-Myb-C/Ebpbeta Cooperation from Separated Sites on a Promoter
Cell(Cambridge,Mass.), 108, 2002
1H8A
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CRYSTAL STRUCTURE OF TERNARY PROTEIN-DNA COMPLEX3
Descriptor:CAAT/ENHANCER BINDING PROTEIN BETA, MYB TRANSFORMING PROTEIN, DNA(5'-(*GP*AP*TP*GP*TP*GP*GP*CP*GP*CP*AP* AP*TP*CP*CP*TP*TP*AP*AP*CP*GP*GP*AP*CP*TP*G)-3'), ...
Authors:Tahirov, T.H., Ogata, K.
Deposit date:2001-01-31
Release date:2002-01-28
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.23 Å)
Cite:Mechanism of C-Myb-C/Ebpbeta Cooperation from Separated Sites on a Promoter
Cell(Cambridge,Mass.), 108, 2002
5WS3
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CRYSTAL STRUCTURES OF HUMAN OREXIN 2 RECEPTOR BOUND TO THE SELECTIVE ANTAGONIST EMPA DETERMINED BY SERIAL FEMTOSECOND CRYSTALLOGRAPHY AT SACLA
Descriptor:Orexin receptor type 2,GlgA glycogen synthase,Orexin receptor type 2, N-ethyl-2-[(6-methoxypyridin-3-yl)-(2-methylphenyl)sulfonyl-amino]-N-(pyridin-3-ylmethyl)ethanamide, OLEIC ACID, ...
Authors:Suno, R., Kimura, K., Nakane, T., Yamashita, K., Wang, J., Fujiwara, T., Yamanaka, Y., Im, D., Tsujimoto, H., Sasanuma, M., Horita, S., Hirokawa, T., Nango, E., Tono, K., Kameshima, T., Hatsui, T., Joti, Y., Yabashi, M., Shimamoto, K., Yamamoto, M., Rosenbaum, D.M., Iwata, S., Shimamura, T., Kobayashi, T.
Deposit date:2016-12-05
Release date:2017-12-13
Last modified:2018-06-20
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Crystal Structures of Human Orexin 2 Receptor Bound to the Subtype-Selective Antagonist EMPA.
Structure, 26, 2018
2ZAE
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CRYSTAL STRUCTURE OF PROTEIN PH1601P IN COMPLEX WITH PROTEIN PH1771P OF ARCHAEAL RIBONUCLEASE P FROM PYROCOCCUS HORIKOSHII OT3
Descriptor:Ribonuclease P protein component 1, Ribonuclease P protein component 4, NITRATE ION, ...
Authors:Honda, T., Kakuta, Y., Kimura, M.
Deposit date:2007-10-04
Release date:2008-10-14
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.21 Å)
Cite:Structure of an archaeal homolog of the human protein complex Rpp21-Rpp29 that is a key core component for the assembly of active ribonuclease P.
J.Mol.Biol., 384, 2008
2ZYE
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STRUCTURE OF HIV-1 PROTEASE IN COMPLEX WITH POTENT INHIBITOR KNI-272 DETERMINED BY NEUTRON CRYSTALLOGRAPHY
Descriptor:protease, (4R)-N-tert-butyl-3-[(2S,3S)-2-hydroxy-3-({N-[(isoquinolin-5-yloxy)acetyl]-S-methyl-L-cysteinyl}amino)-4-phenylbutanoyl]-1,3-thiazolidine-4-carboxamide
Authors:Adachi, M., Ohhara, T., Tamada, T., Okazaki, N., Kuroki, R.
Deposit date:2009-01-20
Release date:2009-03-24
Last modified:2018-06-20
Method:NEUTRON DIFFRACTION (1.9 Å)
Cite:Structure of HIV-1 protease in complex with potent inhibitor KNI-272 determined by high-resolution X-ray and neutron crystallography.
Proc.Natl.Acad.Sci.USA, 2009
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