Author results

6IOW
  • Download 6iow
  • View 6iow
Molmil generated image of 6iow
CRYSTAL STRUCTURE OF PORPHYROMONAS GINGIVALIS PHOSPHOTRANSACETYLASE
Descriptor:Phosphotransacetylase
Authors:Kezuka, Y., Yoshida, Y., Nonaka, T.
Deposit date:2018-10-31
Release date:2019-04-24
Last modified:2019-05-08
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Characterization of the phosphotransacetylase-acetate kinase pathway for ATP production inPorphyromonas gingivalis.
J Oral Microbiol, 11, 2019
6IOX
  • Download 6iox
  • View 6iox
Molmil generated image of 6iox
CRYSTAL STRUCTURE OF PORPHYROMONAS GINGIVALIS PHOSPHOTRANSACETYLASE IN COMPLEX WITH ACETYL-COA
Descriptor:Phosphotransacetylase, ACETYL COENZYME *A
Authors:Kezuka, Y., Yoshida, Y., Nonaka, T.
Deposit date:2018-10-31
Release date:2019-04-24
Last modified:2019-05-08
Method:X-RAY DIFFRACTION (2.04 Å)
Cite:Characterization of the phosphotransacetylase-acetate kinase pathway for ATP production inPorphyromonas gingivalis.
J Oral Microbiol, 11, 2019
6IOY
  • Download 6ioy
  • View 6ioy
Molmil generated image of 6ioy
CRYSTAL STRUCTURE OF PORPHYROMONAS GINGIVALIS ACETATE KINASE
Descriptor:Acetate kinase, (4S)-2-METHYL-2,4-PENTANEDIOL, SULFATE ION
Authors:Kezuka, Y., Yoshida, Y., Nonaka, T.
Deposit date:2018-10-31
Release date:2019-04-24
Last modified:2019-05-08
Method:X-RAY DIFFRACTION (1.94 Å)
Cite:Characterization of the phosphotransacetylase-acetate kinase pathway for ATP production inPorphyromonas gingivalis.
J Oral Microbiol, 11, 2019
3B1C
  • Download 3b1c
  • View 3b1c
Molmil generated image of 3b1c
CRYSTAL STRUCTURE OF BETAC-S LYASE FROM STREPTOCOCCUS ANGINOSUS: INTERNAL ALDIMINE FORM
Descriptor:BetaC-S lyase, PYRIDOXAL-5'-PHOSPHATE, SULFATE ION, ...
Authors:Kezuka, Y., Yoshida, Y., Nonaka, T.
Deposit date:2011-06-29
Release date:2012-06-27
Last modified:2014-01-22
Method:X-RAY DIFFRACTION (1.93 Å)
Cite:Structural insights into catalysis by beta C-S lyase from Streptococcus anginosus
Proteins, 80, 2012
3B1D
  • Download 3b1d
  • View 3b1d
Molmil generated image of 3b1d
CRYSTAL STRUCTURE OF BETAC-S LYASE FROM STREPTOCOCCUS ANGINOSUS IN COMPLEX WITH L-SERINE: EXTERNAL ALDIMINE FORM
Descriptor:BetaC-S lyase, PYRIDOXAL-5'-PHOSPHATE, [3-HYDROXY-2-METHYL-5-PHOSPHONOOXYMETHYL-PYRIDIN-4-YLMETHYL]-SERINE, ...
Authors:Kezuka, Y., Yoshida, Y., Nonaka, T.
Deposit date:2011-06-29
Release date:2012-06-27
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (1.66 Å)
Cite:Structural insights into catalysis by beta C-S lyase from Streptococcus anginosus
Proteins, 80, 2012
3B1E
  • Download 3b1e
  • View 3b1e
Molmil generated image of 3b1e
CRYSTAL STRUCTURE OF BETAC-S LYASE FROM STREPTOCOCCUS ANGINOSUS IN COMPLEX WITH L-SERINE: ALPHA-AMINOACRYLATE FORM
Descriptor:BetaC-S lyase, 2-{[(E)-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene]amino}prop-2-enoic acid, 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID, ...
Authors:Kezuka, Y., Yoshida, Y., Nonaka, T.
Deposit date:2011-06-29
Release date:2012-06-27
Last modified:2017-10-11
Method:X-RAY DIFFRACTION (1.78 Å)
Cite:Structural insights into catalysis by beta C-S lyase from Streptococcus anginosus
Proteins, 80, 2012
5XEM
  • Download 5xem
  • View 5xem
Molmil generated image of 5xem
CRYSTAL STRUCTURE OF A HYDROGEN SULFIDE-PRODUCING ENZYME (FN1220) FROM FUSOBACTERIUM NUCLEATUM IN COMPLEX WITH L-LANTHIONINE-PLP SCHIFF BASE
Descriptor:Cysteine synthase, (2R)-2-azanyl-3-[(2R)-2-azanyl-3-oxidanyl-3-oxidanylidene-propyl]sulfanyl-propanoic acid, PYRIDOXAL-5'-PHOSPHATE, ...
Authors:Kezuka, Y., Yoshida, Y., Nonaka, T.
Deposit date:2017-04-05
Release date:2018-04-11
Method:X-RAY DIFFRACTION (1.84 Å)
Cite:Crystal structure of a hydrogen sulfide-producing enzyme (Fn1220) from Fusobacterium nucleatum in complex with L-lanthionine-PLP Schiff base
To Be Published
5XEN
  • Download 5xen
  • View 5xen
Molmil generated image of 5xen
CRYSTAL STRUCTURE OF A HYDROGEN SULFIDE-PRODUCING ENZYME (FN1220) FROM FUSOBACTERIUM NUCLEATUM IN COMPLEX WITH L-SERINE-PLP SCHIFF BASE
Descriptor:Cysteine synthase, PYRIDOXAL-5'-PHOSPHATE, SERINE, ...
Authors:Kezuka, Y., Yoshida, Y., Nonaka, T.
Deposit date:2017-04-05
Release date:2018-04-11
Method:X-RAY DIFFRACTION (1.94 Å)
Cite:Crystal structure of a hydrogen sulfide-producing enzyme (Fn1220) from Fusobacterium nucleatum in complex with L-serine-PLP Schiff base
To Be Published
5XEO
  • Download 5xeo
  • View 5xeo
Molmil generated image of 5xeo
CRYSTAL STRUCTURE OF A HYDROGEN SULFIDE-PRODUCING ENZYME (FN1220) FROM FUSOBACTERIUM NUCLEATUM
Descriptor:Cysteine synthase, PYRIDOXAL-5'-PHOSPHATE, ACETATE ION, ...
Authors:Kezuka, Y., Yoshida, Y., Nonaka, T.
Deposit date:2017-04-05
Release date:2018-04-11
Method:X-RAY DIFFRACTION (2.03 Å)
Cite:Crystal structure of a hydrogen sulfide-producing enzyme (Fn1220) from Fusobacterium nucleatum
To Be Published
2RJ2
  • Download 2rj2
  • View 2rj2
Molmil generated image of 2rj2
CRYSTAL STRUCTURE OF THE SUGAR RECOGNIZING SCF UBIQUITIN LIGASE AT 1.7 RESOLUTION
Descriptor:F-box only protein 2, NICKEL (II) ION, CHLORIDE ION
Authors:Vaijayanthimala, S., Velmurugan, D., Mizushima, T., Yamane, T., Yoshida, Y., Tanaka, K.
Deposit date:2007-10-14
Release date:2008-10-14
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal Structure of the Sugar Recognizing SCF Ubiquitin Ligase at 1.7 Resolution
To be Published
2D35
  • Download 2d35
  • View 2d35
Molmil generated image of 2d35
SOLUTION STRUCTURE OF CELL DIVISION REACTIVATION FACTOR, CEDA
Descriptor:Cell division activator cedA
Authors:Abe, Y., Watanabe, N., Matsuda, Y., Yoshida, Y., Katayama, T., Ueda, T.
Deposit date:2005-09-26
Release date:2006-12-12
Last modified:2011-07-13
Method:SOLUTION NMR
Cite:Structural Analysis and Molecular Interaction of Cell Division Reactivation Factor, CedA from Escherichia coli
To be Published
1J1F
  • Download 1j1f
  • View 1j1f
Molmil generated image of 1j1f
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
  • Download 1j1g
  • View 1j1g
Molmil generated image of 1j1g
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
1UMH
  • Download 1umh
  • View 1umh
Molmil generated image of 1umh
STRUCTURAL BASIS OF SUGAR-RECOGNIZING UBIQUITIN LIGASE
Descriptor:F-box only protein 2, NICKEL (II) ION
Authors:Mizushima, T., Hirao, T., Yoshida, Y., Lee, S.J., Chiba, T., Iwai, K., Yamaguchi, Y., Kato, K., Tsukihara, T., Tanaka, K., RIKEN Structural Genomics/Proteomics Initiative (RSGI)
Deposit date:2003-10-01
Release date:2004-04-06
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2 Å)
Cite:Structural basis of sugar-recognizing ubiquitin ligase
NAT.STRUCT.MOL.BIOL., 11, 2004
1UMI
  • Download 1umi
  • View 1umi
Molmil generated image of 1umi
STRUCTURAL BASIS OF SUGAR-RECOGNIZING UBIQUITIN LIGASE
Descriptor:F-box only protein 2, 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE, N-ACETYL-D-GLUCOSAMINE
Authors:Mizushima, T., Hirao, T., Yoshida, Y., Lee, S.J., Chiba, T., Iwai, K., Yamaguchi, Y., Kato, K., Tsukihara, T., Tanaka, K.
Deposit date:2003-10-01
Release date:2004-04-06
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structural basis of sugar-recognizing ubiquitin ligase
NAT.STRUCT.MOL.BIOL., 11, 2004
2E31
  • Download 2e31
  • View 2e31
Molmil generated image of 2e31
STRUCTURAL BASIS FOR SELECTION OF GLYCOSYLATED SUBSTRATE BY SCFFBS1 UBIQUITIN LIGASE
Descriptor:F-box only protein 2, S-phase kinase-associated protein 1A
Authors:Mizushima, T., Yoshida, Y., Kumanomidou, T., Hasegawa, Y., Yamane, T., Tanaka, K.
Deposit date:2006-11-20
Release date:2007-03-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Structural basis for the selection of glycosylated substrates by SCFFbs1 ubiquitin ligase
Proc.Natl.Acad.Sci.Usa, 104, 2007
2E32
  • Download 2e32
  • View 2e32
Molmil generated image of 2e32
STRUCTURAL BASIS FOR SELECTION OF GLYCOSYLATED SUBSTRATE BY SCFFBS1 UBIQUITIN LIGASE
Descriptor:F-box only protein 2, S-phase kinase-associated protein 1A
Authors:Mizushima, T., Yoshida, Y., Kumanomidou, T., Hasegawa, Y., Yamane, T., Tanaka, K.
Deposit date:2006-11-20
Release date:2007-03-20
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (3.52 Å)
Cite:Structural basis for the selection of glycosylated substrates by SCFFbs1 ubiquitin ligase
Proc.Natl.Acad.Sci.Usa, 104, 2007
2E33
  • Download 2e33
  • View 2e33
Molmil generated image of 2e33
STRUCTURAL BASIS FOR SELECTION OF GLYCOSYLATED SUBSTRATE BY SCFFBS1 UBIQUITIN LIGASE
Descriptor:F-box only protein 2, Ribonuclease pancreatic, N-ACETYL-D-GLUCOSAMINE, ...
Authors:Mizushima, T., Yoshida, Y., Kumanomidou, T., Hasegawa, Y., Yamane, T., Tanaka, K.
Deposit date:2006-11-20
Release date:2007-03-20
Last modified:2014-02-26
Method:X-RAY DIFFRACTION (2.7 Å)
Cite:Structural basis for the selection of glycosylated substrates by SCFFbs1 ubiquitin ligase
Proc.Natl.Acad.Sci.Usa, 104, 2007
2NLI
  • Download 2nli
  • View 2nli
Molmil generated image of 2nli
CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN L-LACTATE OXIDASE AND A SUBSTRATE ANALOGUE AT 1.59 ANGSTROM RESOLUTION
Descriptor:Lactate oxidase, FLAVIN MONONUCLEOTIDE, LACTIC ACID, ...
Authors:Furuichi, M., Suzuki, N., Balasundaresan, D., Yoshida, Y., Minagawa, H., Watanabe, Y., Kaneko, H., Waga, I., Kumar, P.K.R., Mizuno, H.
Deposit date:2006-10-20
Release date:2007-10-23
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.59 Å)
Cite:X-ray structures of Aerococcus viridans lactate oxidase and its complex with D-lactate at pH 4.5 show an alpha-hydroxyacid oxidation mechanism
J.Mol.Biol., 378, 2008
2ZFA
  • Download 2zfa
  • View 2zfa
Molmil generated image of 2zfa
STRUCTURE OF LACTATE OXIDASE AT PH4.5 FROM AEROCOCCUS VIRIDANS
Descriptor:Lactate oxidase, FLAVIN MONONUCLEOTIDE, 1,2-ETHANEDIOL
Authors:Furuichi, M., Balasundaresan, D., Suzuki, N., Yoshida, Y., Minagawa, H., Kaneko, H., Waga, I., Kumar, P.K.R., Mizuno, H.
Deposit date:2007-12-26
Release date:2008-04-22
Last modified:2011-07-13
Method:X-RAY DIFFRACTION (1.81 Å)
Cite:X-ray structures of Aerococcus viridans lactate oxidase and its complex with D-lactate at pH 4.5 show an alpha-hydroxyacid oxidation mechanism
J.Mol.Biol., 378, 2008
5B53
  • Download 5b53
  • View 5b53
Molmil generated image of 5b53
CRYSTAL STRUCTURE OF HYDROGEN SULFIDE-PRODUCING ENZYME (FN1055) FROM FUSOBACTERIUM NUCLEATUM
Descriptor:Cysteine synthase, PYRIDOXAL-5'-PHOSPHATE, CHLORIDE ION
Authors:Kezuka, Y., Yoshida, Y., Nonaka, T.
Deposit date:2016-04-22
Release date:2017-04-26
Method:X-RAY DIFFRACTION (2.91 Å)
Cite:Crystal structure of hydrogen sulfide-producing enzyme (Fn1055) from Fusobacterium nucleatum
To Be Published
5B55
  • Download 5b55
  • View 5b55
Molmil generated image of 5b55
CRYSTAL STRUCTURE OF HYDROGEN SULFIDE-PRODUCING ENZYME (FN1055) D232N MUTANT IN COMPLEXED WITH ALPHA-AMINOACRYLATE INTERMEDIATE: LYSINE-DIMETHYLATED FORM
Descriptor:Cysteine synthase, PYRIDOXAL-5'-PHOSPHATE, 2-{[(E)-{3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methylidene]amino}prop-2-enoic acid, ...
Authors:Kezuka, Y., Yoshida, Y., Nonaka, T.
Deposit date:2016-04-22
Release date:2017-04-26
Last modified:2019-04-03
Method:X-RAY DIFFRACTION (2.14 Å)
Cite:Structural insights into the catalytic mechanism of cysteine (hydroxyl) lyase from the hydrogen sulfide-producing oral pathogen,Fusobacterium nucleatum.
Biochem. J., 475, 2018
5Z5C
  • Download 5z5c
  • View 5z5c
Molmil generated image of 5z5c
CRYSTAL STRUCTURE OF HYDROGEN SULFIDE-PRODUCING ENZYME (FN1055) FROM FUSOBACTERIUM NUCLEATUM: LYSINE-DIMETHYLATED FORM
Descriptor:Cysteine synthase, PYRIDOXAL-5'-PHOSPHATE, CHLORIDE ION
Authors:Kezuka, Y., Yoshida, Y., Nonaka, T.
Deposit date:2018-01-17
Release date:2018-02-14
Last modified:2018-03-07
Method:X-RAY DIFFRACTION (2.07 Å)
Cite:Structural insights into the catalytic mechanism of cysteine (hydroxyl) lyase from the hydrogen sulfide-producing oral pathogen,
Biochem. J., 475, 2018
3WSO
  • Download 3wso
  • View 3wso
Molmil generated image of 3wso
CRYSTAL STRUCTURE OF THE SKP1-FBG3 COMPLEX
Descriptor:F-box only protein 44, S-phase kinase-associated protein 1
Authors:Kumanomidou, T., Nishio, K., Takagi, K., Nakagawa, T., Suzuki, A., Yamane, T., Tokunaga, F., Iwai, K., Murakami, A., Yoshida, Y., Tanaka, K., Mizushima, T.
Deposit date:2014-03-18
Release date:2015-03-25
Last modified:2015-11-11
Method:X-RAY DIFFRACTION (2.6 Å)
Cite:The Structural Differences between a Glycoprotein Specific F-Box Protein Fbs1 and Its Homologous Protein FBG3
Plos One, 10, 2015
5B4N
  • Download 5b4n
  • View 5b4n
Molmil generated image of 5b4n
STRUCTURE ANALYSIS OF FUNCTION ASSOCIATED LOOP MUTANT OF SUBSTRATE RECOGNITION DOMAIN OF FBS1 UBIQUITIN LIGASE
Descriptor:F-box only protein 2
Authors:Nishio, K., Yoshida, Y., Tanaka, K., Mizushima, T.
Deposit date:2016-04-06
Release date:2016-09-14
Last modified:2017-08-30
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Structural analysis of a function-associated loop mutant of the substrate-recognition domain of Fbs1 ubiquitin ligase
Acta Crystallogr.,Sect.F, 72, 2016
<12>