Author results

1J3A
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CRYSTAL STRUCTURE OF RIBOSOMAL PROTEIN L13 FROM PYROCOCCUS HORIKOSHII
Descriptor:50S ribosomal protein L13P
Authors:Nakashima, T., Tanaka, M., Kazama, T., Kawamura, S., Kimura, M., Yao, M., Tanaka, I.
Deposit date:2003-01-21
Release date:2003-02-04
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystal structure of ribosomal protein L13 from hyperthermophilic archaeon Pyrococcus horikoshii
To be Published
1IQ4
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5S-RRNA BINDING RIBOSOMAL PROTEIN L5 FROM BACILLUS STEAROTHERMOPHILUS
Descriptor:50S RIBOSOMAL PROTEIN L5
Authors:Nakashima, T., Yao, M., Kawamura, S., Iwasaki, K., Kimura, M., Tanaka, I.
Deposit date:2001-06-13
Release date:2001-06-27
Last modified:2018-11-21
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Ribosomal protein L5 has a highly twisted concave surface and flexible arms responsible for rRNA binding.
RNA, 7, 2001
2Z41
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CRYSTAL STRUCTURE ANALYSIS OF THE SKI2-TYPE RNA HELICASE
Descriptor:putative ski2-type helicase, MAGNESIUM ION
Authors:Nakashima, T., Zhang, X., Kakuta, Y., Yao, M., Tanaka, I., Kimura, M.
Deposit date:2007-06-12
Release date:2008-04-08
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (3.51 Å)
Cite:Crystal structure of an archaeal Ski2p-like protein from Pyrococcus horikoshii OT3
Protein Sci., 17, 2008
1RL2
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RIBOSOMAL PROTEIN L2 RNA-BINDING DOMAIN FROM BACILLUS STEAROTHERMOPHILUS
Descriptor:PROTEIN (RIBOSOMAL PROTEIN L2)
Authors:Nakagawa, A., Hosaka, H., Nakashima, T., Tanaka, I.
Deposit date:1999-03-25
Release date:1999-04-02
Last modified:2018-01-24
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:The three-dimensional structure of the RNA-binding domain of ribosomal protein L2; a protein at the peptidyl transferase center of the ribosome.
EMBO J., 18, 1999
2Z7C
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CRYSTAL STRUCTURE OF CHROMATIN PROTEIN ALBA FROM HYPERTHERMOPHILIC ARCHAEON PYROCOCCUS HORIKOSHII
Descriptor:DNA/RNA-binding protein Alba, ARGININE
Authors:Hada, K., Nakashima, T., Osawa, T., Shimada, H., Kakuta, Y., Kimura, M.
Deposit date:2007-08-17
Release date:2008-08-05
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Crystal structure and functional analysis of an archaeal chromatin protein Alba from the hyperthermophilic archaeon Pyrococcus horikoshii OT3.
Biosci.Biotechnol.Biochem., 72, 2008
3WYZ
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ON ARCHAEAL HOMOLOGS OF THE HUMAN RNASE P PROTEIN RPP30 IN THE HYPERTHERMOPHILIC ARCHAEON THERMOCOCCUS KODAKARENSIS
Descriptor:Ribonuclease P protein component 3, GLYCEROL
Authors:Suematsu, K., Ueda, T., Nakashima, T., Kakuta, Y., Kimura, M.
Deposit date:2014-09-11
Release date:2015-09-16
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (2.21 Å)
Cite:On archaeal homologs of the human RNase P proteins Pop5 and Rpp30 in the hyperthermophilic archaeon Thermococcus kodakarensis.
Biosci.Biotechnol.Biochem., 79, 2015
3WZ0
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ON ARCHAEAL HOMOLOGS OF THE HUMAN RNASE P PROTEINS POP5 AND RPP30 IN THE HYPERTHERMOPHILIC ARCHAEON THERMOCOCCUS KODAKARENSIS
Descriptor:Ribonuclease P protein component 3, Ribonuclease P protein component 2
Authors:Suematsu, K., Ueda, T., Nakashima, T., Kakuta, Y., Kimura, M.
Deposit date:2014-09-11
Release date:2015-09-16
Last modified:2017-11-22
Method:X-RAY DIFFRACTION (2.79 Å)
Cite:On archaeal homologs of the human RNase P proteins Pop5 and Rpp30 in the hyperthermophilic archaeon Thermococcus kodakarensis.
Biosci.Biotechnol.Biochem., 79, 2015
1WNU
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STRUCTURE OF ARCHAEAL TRANS-EDITING PROTEIN ALAX IN COMPLEX WITH L-SERINE
Descriptor:alanyl-tRNA synthetase, ZINC ION, SERINE
Authors:Sokabe, M., Okada, A., Nakashima, T., Yao, M., Tanaka, I.
Deposit date:2004-08-09
Release date:2005-07-26
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Molecular basis of alanine discrimination in editing site
Proc.Natl.Acad.Sci.Usa, 102, 2005
1WXO
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STRUCTURE OF ARCHAEAL TRANS-EDITING PROTEIN ALAX IN COMPLEX WITH ZINC
Descriptor:alanyl-tRNA synthetase, ZINC ION
Authors:Sokabe, M., Okada, A., Nakashima, T., Yao, M., Tanaka, I.
Deposit date:2005-01-27
Release date:2005-07-26
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.88 Å)
Cite:Molecular basis of alanine discrimination in editing site
Proc.Natl.Acad.Sci.Usa, 102, 2005
2CZV
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CRYSTAL STRUCTURE OF ARCHEAL RNASE P PROTEIN PH1481P IN COMPLEX WITH PH1877P
Descriptor:Ribonuclease P protein component 3, Ribonuclease P protein component 2, B-OCTYLGLUCOSIDE, ...
Authors:Kawano, S., Kakuta, Y., Nakashima, T., Tanaka, I., Kimura, M.
Deposit date:2005-07-19
Release date:2006-06-27
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Crystal structure of protein Ph1481p in complex with protein Ph1877p of archaeal RNase P from Pyrococcus horikoshii OT3: implication of dimer formation of the holoenzyme
J.Mol.Biol., 357, 2006
3AY8
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GLUTATHIONE S-TRANSFERASE UNCLASSIFIED 2 FROM BOMBYX MORI
Descriptor:Glutathione S-transferase, GLYCEROL
Authors:Kakuta, Y., Usuda, K., Nakashima, T., Kimura, M., Aso, Y., Yamamoto, K.
Deposit date:2011-05-02
Release date:2011-09-07
Last modified:2013-06-19
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystallographic survey of active sites of an unclassified glutathione transferase from Bombyx mori
Biochim.Biophys.Acta, 1810, 2011
3AMK
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STRUCTURE OF THE STARCH BRANCHING ENZYME I (BEI) FROM ORYZA SATIVA L
Descriptor:Os06g0726400 protein, PHOSPHATE ION, GLYCEROL
Authors:Kakuta, Y., Chaen, K., Noguchi, J., Vu, N., Kimura, M.
Deposit date:2010-08-20
Release date:2011-09-28
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Crystal structure of the branching enzyme I (BEI) from Oryza sativa L with implications for catalysis and substrate binding.
Glycobiology, 21, 2011
3AML
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STRUCTURE OF THE STARCH BRANCHING ENZYME I (BEI) FROM ORYZA SATIVA L
Descriptor:Os06g0726400 protein, BETA-MERCAPTOETHANOL, GLYCEROL, ...
Authors:Kakuta, Y., Chaen, K., Noguchi, J., Vu, N., Kimura, M.
Deposit date:2010-08-20
Release date:2011-09-28
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal structure of the branching enzyme I (BEI) from Oryza sativa L with implications for catalysis and substrate binding.
Glycobiology, 21, 2011
3GP7
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STAPHYLOCOCCAL ENTEROTOXIN B MUTANT N23YK97SK98S
Descriptor:Enterotoxin type B
Authors:Yanaka, S., Tanaka, Y., Tsumoto, K.
Deposit date:2009-03-23
Release date:2010-03-09
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Contribution of the flexible loop region to the function of staphylococcal enterotoxin B
Protein Eng.Des.Sel., 23, 2010
5DCV
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CRYSTAL STRUCTURE OF PHORPP38-SL12M COMPLEX
Descriptor:50S ribosomal protein L7Ae, RNA (47-MER)
Authors:Oshima, K., Tanaka, Y., Yao, M.
Deposit date:2015-08-24
Release date:2016-07-06
Method:X-RAY DIFFRACTION (3.401 Å)
Cite:Structural basis for recognition of a kink-turn motif by an archaeal homologue of human RNase P protein Rpp38
Biochem.Biophys.Res.Commun., 474, 2016
5XTM
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CRYSTAL STRUCTURE OF PHORPP38 BOUND TO A K-TURN IN P12.2 HELIX
Descriptor:50S ribosomal protein L7Ae, RNA (47-MER), MAGNESIUM ION
Authors:Oshima, K., Kimura, M.
Deposit date:2017-06-20
Release date:2018-02-07
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structures of the archaeal RNase P protein Rpp38 in complex with RNA fragments containing a K-turn motif.
Acta Crystallogr F Struct Biol Commun, 74, 2018
5Y7M
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CRYSTAL STRUCTURE OF PHORPP38 BOUND TO A K-TURN IN P12.1 HELIX
Descriptor:50S ribosomal protein L7Ae, RNA (52-MER), GUANOSINE-5'-TRIPHOSPHATE, ...
Authors:Oshima, K., Kimura, M.
Deposit date:2017-08-01
Release date:2018-02-07
Method:X-RAY DIFFRACTION (3.1 Å)
Cite:Crystal structures of the archaeal RNase P protein Rpp38 in complex with RNA fragments containing a K-turn motif.
Acta Crystallogr F Struct Biol Commun, 74, 2018
1BK7
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RIBONUCLEASE MC1 FROM THE SEEDS OF BITTER GOURD
Descriptor:PROTEIN (RIBONUCLEASE MC1)
Authors:Nakagawa, A., Tanaka, I.
Deposit date:1998-07-15
Release date:1999-07-23
Last modified:2018-04-04
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Crystal structure of a ribonuclease from the seeds of bitter gourd (Momordica charantia) at 1.75 A resolution.
Biochim.Biophys.Acta, 1433, 1999
1V7O
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ALANYL-TRNA SYNTHETASE EDITING DOMAIN HOMOLOGUE PROTEIN FROM PYROCOCCUS HORIKOSHII
Descriptor:alanyl-tRNA synthetase
Authors:Okada, A., Yao, M., Sokabe, M., Tanaka, I.
Deposit date:2003-12-18
Release date:2004-01-13
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.62 Å)
Cite:Molecular basis of alanine discrimination in editing site
Proc.Natl.Acad.Sci.Usa, 102, 2005
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
487D
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SEVEN RIBOSOMAL PROTEINS FITTED TO A CRYO-ELECTRON MICROSCOPIC MAP OF THE LARGE 50S SUBUNIT AT 7.5 ANGSTROMS RESOLUTION
Descriptor:PROTEIN (50S L1 RIBOSOMAL PROTEIN), PROTEIN (50S L2 RIBOSOMAL PROTEIN), PROTEIN (50S L6 RIBOSOMAL PROTEIN), ...
Authors:Brimacombe, R., Mueller, F.
Deposit date:2000-02-23
Release date:2000-04-10
Last modified:2011-07-13
Method:ELECTRON MICROSCOPY (7.5 Å)
Cite:The 3D arrangement of the 23 S and 5 S rRNA in the Escherichia coli 50 S ribosomal subunit based on a cryo-electron microscopic reconstruction at 7.5 A resolution.
J.Mol.Biol., 298, 2000
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