Loading
PDBj
MenuPDBj@FacebookPDBj@TwitterPDBj@YouTubewwPDB FoundationwwPDB
RCSB PDBPDBeBMRBAdv. SearchSearch help
Search by PDB author
3HGN
DownloadVisualize
BU of 3hgn by Molmil
Structure of porcine pancreatic elastase complexed with a potent peptidyl inhibitor FR130180 determined by neutron crystallography
Descriptor: 4-[[(2S)-3-methyl-1-oxo-1-[(2S)-2-[[(3S)-1,1,1-trifluoro-4-methyl-2-oxo-pentan-3-yl]carbamoyl]pyrrolidin-1-yl]butan-2-yl]carbamoyl]benzoic acid, CALCIUM ION, Elastase-1, ...
Authors:Tamada, T, Kinoshita, T, Kuroki, R, Tada, T.
Deposit date:2009-05-14
Release date:2009-07-28
Last modified:2023-11-01
Method:NEUTRON DIFFRACTION (1.65 Å), X-RAY DIFFRACTION
Cite:Combined High-Resolution Neutron and X-ray Analysis of Inhibited Elastase Confirms the Active-Site Oxyanion Hole but Rules against a Low-Barrier Hydrogen Bond
J.Am.Chem.Soc., 131, 2009
3HGP
DownloadVisualize
BU of 3hgp by Molmil
Structure of porcine pancreatic elastase complexed with a potent peptidyl inhibitor FR130180 determined by high resolution crystallography
Descriptor: 4-[[(2S)-3-methyl-1-oxo-1-[(2S)-2-[[(3S)-1,1,1-trifluoro-4-methyl-2-oxo-pentan-3-yl]carbamoyl]pyrrolidin-1-yl]butan-2-yl]carbamoyl]benzoic acid, CALCIUM ION, Elastase-1, ...
Authors:Tamada, T, Kinoshita, T, Kuroki, R, Tada, T.
Deposit date:2009-05-14
Release date:2009-07-28
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (0.94 Å)
Cite:Combined High-Resolution Neutron and X-ray Analysis of Inhibited Elastase Confirms the Active-Site Oxyanion Hole but Rules against a Low-Barrier Hydrogen Bond
J.Am.Chem.Soc., 131, 2009
1IUQ
DownloadVisualize
BU of 1iuq by Molmil
The 1.55 A Crystal Structure of Glycerol-3-Phosphate Acyltransferase
Descriptor: GLYCEROL, Glycerol-3-Phosphate Acyltransferase, SULFATE ION
Authors:Tamada, T, Feese, M.D, Kato, Y, Kuroki, R.
Deposit date:2002-03-06
Release date:2003-10-07
Last modified:2023-12-27
Method:X-RAY DIFFRACTION (1.55 Å)
Cite:Substrate recognition and selectivity of plant glycerol-3-phosphate acyltransferases (GPATs) from Cucurbita moscata and Spinacea oleracea.
Acta Crystallogr.,Sect.D, 60, 2004
2D9Q
DownloadVisualize
BU of 2d9q by Molmil
Crystal Structure of the Human GCSF-Receptor Signaling Complex
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose, CSF3, Granulocyte colony-stimulating factor receptor
Authors:Tamada, T, Kuroki, R.
Deposit date:2005-12-12
Release date:2006-02-07
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (2.8 Å)
Cite:Homodimeric cross-over structure of the human granulocyte colony-stimulating factor (GCSF) receptor signaling complex
Proc.Natl.Acad.Sci.Usa, 103, 2006
3X3G
DownloadVisualize
BU of 3x3g by Molmil
Fab fragment from anti TRAIL-R2 Human Agonist Antibody KMTR2
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, CHLORIDE ION, Heavy chain of KMTR2, ...
Authors:Tamada, T.
Deposit date:2015-01-20
Release date:2015-12-23
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.51 Å)
Cite:TRAIL-R2 Superoligomerization Induced by Human Monoclonal Agonistic Antibody KMTR2
Sci Rep, 5, 2015
3X3F
DownloadVisualize
BU of 3x3f by Molmil
TRAIL-R2 Extracellular Region Complexed to a Fab fragment from Human Agonist Antibody KMTR2
Descriptor: 2-acetamido-2-deoxy-beta-D-glucopyranose, CHLORIDE ION, GLYCEROL, ...
Authors:Tamada, T.
Deposit date:2015-01-20
Release date:2015-12-23
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:TRAIL-R2 Superoligomerization Induced by Human Monoclonal Agonistic Antibody KMTR2
Sci Rep, 5, 2015
7CQY
DownloadVisualize
BU of 7cqy by Molmil
Tetrathionate hydrolase from Acidithiobacillus ferrooxidans mutant - D325N
Descriptor: SULFATE ION, Tetrathionate hydrolase
Authors:Tamada, T, Hirano, Y.
Deposit date:2020-08-12
Release date:2021-01-27
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (2.80035782 Å)
Cite:Reaction mechanism of tetrathionate hydrolysis based on the crystal structure of tetrathionate hydrolase from Acidithiobacillus ferrooxidans.
Protein Sci., 30, 2020
7XEA
DownloadVisualize
BU of 7xea by Molmil
T4 lysozyme mutant-S44C/C54T/N68C/A93C/C97A/T115C, DMSO 40%, and then backsoaking
Descriptor: CHLORIDE ION, Endolysin, GLYCEROL, ...
Authors:Tamada, T, Hiromoto, T.
Deposit date:2022-03-30
Release date:2023-03-22
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.1 Å)
Cite:Creation of Cross-Linked Crystals With Intermolecular Disulfide Bonds Connecting Symmetry-Related Molecules Allows Retention of Tertiary Structure in Different Solvent Conditions.
Front Mol Biosci, 9, 2022
7XE7
DownloadVisualize
BU of 7xe7 by Molmil
T4 lysozyme mutant-S44C/C54T/N68C/A93C/C97A/T115C, pH10
Descriptor: Endolysin, GLYCEROL, HEXANE-1,6-DIOL
Authors:Tamada, T, Hiromoto, T.
Deposit date:2022-03-30
Release date:2023-03-22
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.05 Å)
Cite:Creation of Cross-Linked Crystals With Intermolecular Disulfide Bonds Connecting Symmetry-Related Molecules Allows Retention of Tertiary Structure in Different Solvent Conditions.
Front Mol Biosci, 9, 2022
7XE9
DownloadVisualize
BU of 7xe9 by Molmil
T4 lysozyme mutant-S44C/C54T/N68C/A93C/C97A/T115C, DMSO 20%
Descriptor: CHLORIDE ION, DIMETHYL SULFOXIDE, Endolysin, ...
Authors:Tamada, T, Hiromoto, T.
Deposit date:2022-03-30
Release date:2023-03-22
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.5 Å)
Cite:Creation of Cross-Linked Crystals With Intermolecular Disulfide Bonds Connecting Symmetry-Related Molecules Allows Retention of Tertiary Structure in Different Solvent Conditions.
Front Mol Biosci, 9, 2022
7XE5
DownloadVisualize
BU of 7xe5 by Molmil
T4 lysozyme mutant-S44C/C54T/N68C/A93C/C97A/T115C, pH4
Descriptor: Endolysin, GLYCEROL, HEXANE-1,6-DIOL, ...
Authors:Tamada, T, Hiromoto, T.
Deposit date:2022-03-30
Release date:2023-03-22
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.3 Å)
Cite:Creation of Cross-Linked Crystals With Intermolecular Disulfide Bonds Connecting Symmetry-Related Molecules Allows Retention of Tertiary Structure in Different Solvent Conditions.
Front Mol Biosci, 9, 2022
7XE6
DownloadVisualize
BU of 7xe6 by Molmil
T4 lysozyme mutant-S44C/C54T/N68C/A93C/C97A/T115C, pH7
Descriptor: Endolysin, GLYCEROL, HEXANE-1,6-DIOL, ...
Authors:Tamada, T, Hiromoto, T.
Deposit date:2022-03-30
Release date:2023-03-22
Last modified:2023-11-29
Method:X-RAY DIFFRACTION (1.1 Å)
Cite:Creation of Cross-Linked Crystals With Intermolecular Disulfide Bonds Connecting Symmetry-Related Molecules Allows Retention of Tertiary Structure in Different Solvent Conditions.
Front Mol Biosci, 9, 2022
1IV9
DownloadVisualize
BU of 1iv9 by Molmil
Crystal Structure of Single Chain Monellin
Descriptor: Monellin
Authors:Tamada, T, Kato, Y, Kuroki, R.
Deposit date:2002-03-15
Release date:2003-10-07
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:The Effect of Single Chain Derivatization on the Structure and Stability of the Monellin
To be Published
1IV7
DownloadVisualize
BU of 1iv7 by Molmil
Crystal Structure of Single Chain Monellin
Descriptor: Monellin
Authors:Tamada, T, Kato, Y, Kuroki, R.
Deposit date:2002-03-15
Release date:2003-10-07
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.82 Å)
Cite:The Effect of Single Chain Derivatization on the Structure and Stability of the Monellin
To be Published
2ZIL
DownloadVisualize
BU of 2zil by Molmil
Crystal Structure of Human Lysozyme from Urine
Descriptor: Lysozyme C, SODIUM ION
Authors:Tamada, T, Kuroki, R, Koshiba, T.
Deposit date:2008-02-18
Release date:2009-01-06
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.8 Å)
Cite:Preparation and characterization of methyonyl-lysine attached human lysozyme expressed in Escherichia coli and its effective conversion to the authentic-like protein
To be Published
2ZIK
DownloadVisualize
BU of 2zik by Molmil
Crystal Structure of Human Lysozyme from Pichia pastoris
Descriptor: Lysozyme C, SODIUM ION
Authors:Tamada, T, Kuroki, R, Koshiba, T.
Deposit date:2008-02-18
Release date:2009-01-06
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.81 Å)
Cite:Preparation and characterization of methyonyl-lysine attached human lysozyme expressed in Escherichia coli and its effective conversion to the authentic-like protein
To be Published
2ZIJ
DownloadVisualize
BU of 2zij by Molmil
Crystal Structure of Human Lysozyme Expressed in E. coli.
Descriptor: Lysozyme C, SODIUM ION
Authors:Tamada, T, Kuroki, R, Koshiba, T.
Deposit date:2008-02-18
Release date:2009-01-06
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.9 Å)
Cite:Preparation and characterization of methyonyl-lysine attached human lysozyme expressed in Escherichia coli and its effective conversion to the authentic-like protein
To be Published
6L8A
DownloadVisualize
BU of 6l8a by Molmil
Tetrathionate hydrolase from Acidithiobacillus ferrooxidans
Descriptor: BETA-ALANINE, GLYCINE, SULFATE ION, ...
Authors:Tamada, T, Hirano, Y.
Deposit date:2019-11-05
Release date:2020-11-11
Last modified:2024-03-27
Method:X-RAY DIFFRACTION (1.95004809 Å)
Cite:Reaction mechanism of tetrathionate hydrolysis based on the crystal structure of tetrathionate hydrolase from Acidithiobacillus ferrooxidans.
Protein Sci., 30, 2020
5ZCR
DownloadVisualize
BU of 5zcr by Molmil
DSM5389 glycosyltrehalose synthase
Descriptor: GLYCEROL, MAGNESIUM ION, Maltooligosyl trehalose synthase
Authors:Tamada, T, Okazaki, N.
Deposit date:2018-02-20
Release date:2018-11-21
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal structure of glycosyltrehalose synthase from Sulfolobus shibatae DSM5389
Acta Crystallogr F Struct Biol Commun, 74, 2018
8W6X
DownloadVisualize
BU of 8w6x by Molmil
Neutron structure of [NiFe]-hydrogenase from D. vulgaris Miyazaki F in its oxidized state
Descriptor: (4S)-2-METHYL-2,4-PENTANEDIOL, CHLORIDE ION, FE3-S4 CLUSTER, ...
Authors:Hiromoto, T, Tamada, T.
Deposit date:2023-08-30
Release date:2023-09-13
Last modified:2023-11-15
Method:NEUTRON DIFFRACTION (1.04 Å), X-RAY DIFFRACTION
Cite:New insights into the oxidation process from neutron and X-ray crystal structures of an O 2 -sensitive [NiFe]-hydrogenase.
Chem Sci, 14, 2023
4WHM
DownloadVisualize
BU of 4whm by Molmil
Crystal structure of UDP-glucose: anthocyanidin 3-O-glucosyltransferase in complex with UDP
Descriptor: ACETATE ION, GLYCEROL, UDP-glucose:anthocyanidin 3-O-glucosyltransferase, ...
Authors:Hiromoto, T, Honjo, E, Tamada, T, Kuroki, R.
Deposit date:2014-09-23
Release date:2015-01-21
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.851 Å)
Cite:Structural basis for acceptor-substrate recognition of UDP-glucose: anthocyanidin 3-O-glucosyltransferase from Clitoria ternatea
Protein Sci., 24, 2015
3OTJ
DownloadVisualize
BU of 3otj by Molmil
A Crystal Structure of Trypsin Complexed with BPTI (Bovine Pancreatic Trypsin Inhibitor) by X-ray/Neutron Joint Refinement
Descriptor: CALCIUM ION, Cationic trypsin, Pancreatic trypsin inhibitor, ...
Authors:Kawamura, K, Yamada, T, Kurihara, K, Tamada, T, Kuroki, R, Tanaka, I, Takahashi, H, Niimura, N.
Deposit date:2010-09-12
Release date:2011-01-26
Last modified:2017-11-08
Method:NEUTRON DIFFRACTION (2.15 Å), X-RAY DIFFRACTION
Cite:X-ray and neutron protein crystallographic analysis of the trypsin-BPTI complex.
Acta Crystallogr.,Sect.D, 67, 2011
4REN
DownloadVisualize
BU of 4ren by Molmil
Crystal structure of UDP-glucose: anthocyanidin 3-O-glucosyltransferase in complex with petunidin
Descriptor: 2-(3,4-dihydroxy-5-methoxyphenyl)-3,5,7-trihydroxychromenium, GLYCEROL, UDP-glucose:anthocyanidin 3-O-glucosyltransferase
Authors:Hiromoto, T, Honjo, E, Tamada, T, Kuroki, R.
Deposit date:2014-09-23
Release date:2015-01-21
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.704 Å)
Cite:Structural basis for acceptor-substrate recognition of UDP-glucose: anthocyanidin 3-O-glucosyltransferase from Clitoria ternatea
Protein Sci., 24, 2015
4REM
DownloadVisualize
BU of 4rem by Molmil
Crystal structure of UDP-glucose: anthocyanidin 3-O-glucosyltransferase in complex with delphinidin
Descriptor: 3,5,7-trihydroxy-2-(3,4,5-trihydroxyphenyl)chromenium, GLYCEROL, UDP-glucose:anthocyanidin 3-O-glucosyltransferase
Authors:Hiromoto, T, Honjo, E, Tamada, T, Kuroki, R.
Deposit date:2014-09-23
Release date:2015-01-21
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.55 Å)
Cite:Structural basis for acceptor-substrate recognition of UDP-glucose: anthocyanidin 3-O-glucosyltransferase from Clitoria ternatea
Protein Sci., 24, 2015
4REL
DownloadVisualize
BU of 4rel by Molmil
Crystal structure of UDP-glucose: anthocyanidin 3-O-glucosyltransferase in complex with kaempferol
Descriptor: 3,5,7-TRIHYDROXY-2-(4-HYDROXYPHENYL)-4H-CHROMEN-4-ONE, ACETATE ION, GLYCEROL, ...
Authors:Hiromoto, T, Honjo, E, Tamada, T, Kuroki, R.
Deposit date:2014-09-23
Release date:2015-01-21
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.754 Å)
Cite:Structural basis for acceptor-substrate recognition of UDP-glucose: anthocyanidin 3-O-glucosyltransferase from Clitoria ternatea
Protein Sci., 24, 2015

217705

PDB entries from 2024-03-27

PDB statisticsPDBj update infoContact PDBjnumon