Loading
PDBj
MenuPDBj@FacebookPDBj@TwitterPDBj@YouTubewwPDB FoundationwwPDB
RCSB PDBPDBeBMRBAdv. SearchSearch help
Search by PDB author
1FQY
DownloadVisualize
BU of 1fqy by Molmil
STRUCTURE OF AQUAPORIN-1 AT 3.8 A RESOLUTION BY ELECTRON CRYSTALLOGRAPHY
Descriptor: AQUAPORIN-1
Authors:Murata, K, Mitsuoka, K, Hirai, T, Walz, T, Agre, P, Heymann, J.B, Engel, A, Fujiyoshi, Y.
Deposit date:2000-09-07
Release date:2000-10-18
Last modified:2024-02-07
Method:ELECTRON CRYSTALLOGRAPHY (3.8 Å)
Cite:Structural determinants of water permeation through aquaporin-1.
Nature, 407, 2000
1AT9
DownloadVisualize
BU of 1at9 by Molmil
STRUCTURE OF BACTERIORHODOPSIN AT 3.0 ANGSTROM DETERMINED BY ELECTRON CRYSTALLOGRAPHY
Descriptor: BACTERIORHODOPSIN, RETINAL
Authors:Kimura, Y, Vassylyev, D.G, Miyazawa, A, Kidera, A, Matsushima, M, Mitsuoka, K, Murata, K, Hirai, T, Fujiyoshi, Y.
Deposit date:1997-08-20
Release date:1998-09-16
Last modified:2011-07-13
Method:ELECTRON CRYSTALLOGRAPHY (3 Å)
Cite:Surface of bacteriorhodopsin revealed by high-resolution electron crystallography.
Nature, 389, 1997
4E1Y
DownloadVisualize
BU of 4e1y by Molmil
Alginate lyase A1-III H192A apo form
Descriptor: Alginate lyase
Authors:Mikami, B, Ban, M, Suzuki, S, Yoon, H.-J, Miyake, O, Yamasaki, M, Ogura, K, Maruyama, Y, Hashimoto, W, Murata, K.
Deposit date:2012-03-07
Release date:2012-04-11
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Induced-fit motion of a lid loop involved in catalysis in alginate lyase A1-III
Acta Crystallogr.,Sect.D, 68, 2012
4W7H
DownloadVisualize
BU of 4w7h by Molmil
Crystal Structure of DEH Reductase A1-R Mutant
Descriptor: Carbonyl reductase
Authors:Takase, R, Mikami, B, Kawai, S, Murata, K, Hashimoto, W.
Deposit date:2014-08-22
Release date:2014-09-24
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (3.11 Å)
Cite:Structure-based Conversion of the Coenzyme Requirement of a Short-chain Dehydrogenase/Reductase Involved in Bacterial Alginate Metabolism.
J.Biol.Chem., 289, 2014
4W7I
DownloadVisualize
BU of 4w7i by Molmil
Crystal structure of DEH reductase A1-R' mutant
Descriptor: 4-deoxy-L-erythro-5-hexoseulose uronate reductase A1-R'
Authors:Takase, R, Mikami, B, Kawai, S, Murata, K, Hashimoto, W.
Deposit date:2014-08-22
Release date:2014-09-24
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.98 Å)
Cite:Structure-based Conversion of the Coenzyme Requirement of a Short-chain Dehydrogenase/Reductase Involved in Bacterial Alginate Metabolism.
J.Biol.Chem., 289, 2014
5SW2
DownloadVisualize
BU of 5sw2 by Molmil
Thaumatin Structure at pH 6.0, orthorhombic type1
Descriptor: GLYCEROL, Thaumatin I
Authors:Masuda, T, Sano, A, Murata, K, Okubo, K, Suzuki, M, Mikami, B.
Deposit date:2016-08-08
Release date:2017-08-09
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.2 Å)
Cite:Thaumatin Structure at pH 6.0, orthorhombic type1
To Be Published
5SW1
DownloadVisualize
BU of 5sw1 by Molmil
Thaumatin Structure at pH 6.0
Descriptor: (CARBAMOYLMETHYL-CARBOXYMETHYL-AMINO)-ACETIC ACID, Thaumatin I
Authors:Masuda, T, Sano, A, Murata, K, Okubo, K, Suzuki, M, Mikami, B.
Deposit date:2016-08-08
Release date:2017-08-09
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (1.1 Å)
Cite:Thaumatin Structure at pH 6.0
To Be Published
4F13
DownloadVisualize
BU of 4f13 by Molmil
Alginate lyase A1-III Y246F complexed with tetrasaccharide
Descriptor: 4-deoxy-alpha-L-erythro-hex-4-enopyranuronic acid-(1-4)-beta-D-mannopyranuronic acid-(1-4)-beta-D-mannopyranuronic acid-(1-4)-beta-D-mannopyranuronic acid, Alginate lyase, beta-D-mannopyranuronic acid-(1-4)-beta-D-mannopyranuronic acid
Authors:Mikami, B, Ban, M, Suzuki, S, Yoon, H.-J, Miyake, O, Yamasaki, M, Ogura, K, Maruyama, Y, Hashimoto, W, Murata, K.
Deposit date:2012-05-06
Release date:2012-06-27
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.208 Å)
Cite:Induced-fit motion of a lid loop involved in catalysis in alginate lyase A1-III
Acta Crystallogr.,Sect.D, 68, 2012
4F10
DownloadVisualize
BU of 4f10 by Molmil
Alginate lyase A1-III H192A complexed with tetrasaccharide
Descriptor: 4-deoxy-alpha-L-erythro-hex-4-enopyranuronic acid-(1-4)-alpha-L-gulopyranuronic acid-(1-4)-beta-D-mannopyranuronic acid-(1-4)-beta-D-mannopyranuronic acid, Alginate lyase, alpha-L-gulopyranuronic acid-(1-4)-beta-D-mannopyranuronic acid
Authors:Mikami, B, Ban, M, Suzuki, S, Yoon, H.-J, Miyake, O, Yamasaki, M, Ogura, K, Maruyama, Y, Hashimoto, W, Murata, K.
Deposit date:2012-05-05
Release date:2012-06-27
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Induced-fit motion of a lid loop involved in catalysis in alginate lyase A1-III
Acta Crystallogr.,Sect.D, 68, 2012
6IUK
DownloadVisualize
BU of 6iuk by Molmil
Cryo-EM structure of Murine Norovirus capsid
Descriptor: Major capsid protein VP1
Authors:Song, C, Miyazaki, N, Iwasaki, K, Katayama, K, Murata, K.
Deposit date:2018-11-28
Release date:2020-02-26
Last modified:2024-03-27
Method:ELECTRON MICROSCOPY (3.5 Å)
Cite:Dynamic rotation of the protruding domain enhances the infectivity of norovirus.
Plos Pathog., 16, 2020
6S2C
DownloadVisualize
BU of 6s2c by Molmil
Acquired functional capsid structures in metazoan totivirus-like dsRNA virus.
Descriptor: Capsid protein
Authors:Okamoto, K, Larsson, S.D.D, Maia, R.N.C.F, Murata, K, Hajdu, J, Iwasaki, K, Miyazaki, N.
Deposit date:2019-06-20
Release date:2020-04-29
Last modified:2020-08-19
Method:ELECTRON MICROSCOPY (3.2 Å)
Cite:Acquired Functional Capsid Structures in Metazoan Totivirus-like dsRNA Virus.
Structure, 28, 2020
3GNE
DownloadVisualize
BU of 3gne by Molmil
Crystal structure of alginate lyase vAL-1 from Chlorella virus
Descriptor: CITRATE ANION, GLYCEROL, VAL-1
Authors:Ogura, K, Yamasaki, M, Hashidume, T, Yamada, T, Mikami, B, Hashimoto, W, Murata, K.
Deposit date:2009-03-17
Release date:2009-10-20
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (1.2 Å)
Cite:Crystal structure of family 14 polysaccharide lyase with pH-dependent modes of action
J.Biol.Chem., 284, 2009
3IM0
DownloadVisualize
BU of 3im0 by Molmil
Crystal structure of Chlorella virus vAL-1 soaked in 200mM D-glucuronic acid, 10% PEG-3350, and 200mM glycine-NaOH (pH 10.0)
Descriptor: VAL-1, beta-D-glucopyranuronic acid
Authors:Ogura, K, Yamasaki, M, Hashidume, T, Yamada, T, Mikami, B, Hashimoto, W, Murata, K.
Deposit date:2009-08-08
Release date:2009-10-20
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.66 Å)
Cite:Crystal structure of family 14 polysaccharide lyase with pH-dependent modes of action
J.Biol.Chem., 284, 2009
6JBO
DownloadVisualize
BU of 6jbo by Molmil
Crystal structure of EfeO-like protein Algp7 containing samarium ion
Descriptor: 1,2-ETHANEDIOL, Alginate-binding protein, CITRIC ACID
Authors:Okumura, K, Takase, R, Maruyama, Y, Mikami, B, Murata, K, Hashimoto, W.
Deposit date:2019-01-26
Release date:2020-01-29
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (1.88 Å)
Cite:Rare metal binding by a cell-surface component of bacterial EfeUOB iron importer
To Be Published
6JBN
DownloadVisualize
BU of 6jbn by Molmil
Crystal structure of Sphingomonas sp. A1 peroxidase EfeB responsible for import of iron
Descriptor: 1,2-ETHANEDIOL, DI(HYDROXYETHYL)ETHER, OXYGEN MOLECULE, ...
Authors:Okumura, K, Takase, R, Mikami, B, Murata, K, Hashimoto, W.
Deposit date:2019-01-26
Release date:2020-01-29
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.3 Å)
Cite:Rare metal binding by a cell-surface component of bacterial EfeUOB iron importer
To Be Published
6JHX
DownloadVisualize
BU of 6jhx by Molmil
Crystal structure of alginate-binding protein AlgQ2 without calcium ion
Descriptor: 4-deoxy-alpha-L-erythro-hex-4-enopyranuronic acid-(1-4)-beta-D-mannopyranuronic acid-(1-4)-beta-D-mannopyranuronic acid, AlgQ2
Authors:Okumura, K, Maruyama, Y, Murata, K, Hashimoto, W.
Deposit date:2019-02-19
Release date:2020-02-19
Last modified:2023-11-22
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Crystal structure of alginate-binding protein AlgQ2 without calcium ion
To Be Published
4MMH
DownloadVisualize
BU of 4mmh by Molmil
Crystal structure of heparan sulfate lyase HepC from Pedobacter heparinus
Descriptor: CALCIUM ION, Heparinase III protein
Authors:Maruyama, Y, Nakamichi, Y, Mikami, B, Murata, K, Hashimoto, W.
Deposit date:2013-09-09
Release date:2014-01-29
Last modified:2024-03-20
Method:X-RAY DIFFRACTION (2.2 Å)
Cite:Crystal Structure of Pedobacter heparinus Heparin Lyase Hep III with the Active Site in a Deep Cleft
Biochemistry, 53, 2014
4MMI
DownloadVisualize
BU of 4mmi by Molmil
Crystal structure of heparan sulfate lyase HepC mutant from Pedobacter heparinus
Descriptor: CALCIUM ION, Heparinase III protein
Authors:Maruyama, Y, Nakamichi, Y, Mikami, B, Murata, K, Hashimoto, W.
Deposit date:2013-09-09
Release date:2014-01-29
Last modified:2023-11-08
Method:X-RAY DIFFRACTION (2.4 Å)
Cite:Crystal Structure of Pedobacter heparinus Heparin Lyase Hep III with the Active Site in a Deep Cleft
Biochemistry, 53, 2014
1J1N
DownloadVisualize
BU of 1j1n by Molmil
Structure Analysis of AlgQ2, A Macromolecule(Alginate)-Binding Periplasmic Protein Of Sphingomonas Sp. A1., Complexed with an Alginate Tetrasaccharide
Descriptor: AlgQ2, CALCIUM ION, beta-D-mannopyranuronic acid-(1-4)-alpha-D-mannopyranuronic acid-(1-4)-alpha-L-gulopyranuronic acid-(1-4)-alpha-D-mannopyranuronic acid
Authors:Momma, K, Mikami, B, Mishima, Y, Hashimoto, W, Murata, K.
Deposit date:2002-12-11
Release date:2003-06-10
Last modified:2023-10-25
Method:X-RAY DIFFRACTION (1.6 Å)
Cite:Crystal structure of AlgQ2, a macromolecule (alginate)-binding protein of Sphingomonas sp. A1, complexed with an alginate tetrasaccharide at 1.6-A resolution
J.BIOL.CHEM., 278, 2003
3K8W
DownloadVisualize
BU of 3k8w by Molmil
Crysatl structure of a bacterial cell-surface flagellin N20C45
Descriptor: Flagellin homolog
Authors:Maruyama, Y, Momma, M, Hashimoto, W, Murata, K.
Deposit date:2009-10-15
Release date:2010-10-06
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.7 Å)
Cite:Crystal structure of N- and C-terminal regions of flagellin
To be Published
3K3T
DownloadVisualize
BU of 3k3t by Molmil
E185A mutant of peptidoglycan hydrolase from Sphingomonas sp. A1
Descriptor: Peptidoglycan hydrolase FlgJ, SULFATE ION
Authors:Maruyama, Y, Ochiai, A, Itoh, T, Mikami, B, Hashimoto, W, Murata, K.
Deposit date:2009-10-04
Release date:2010-07-14
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (1.75 Å)
Cite:Mutational studies of the peptidoglycan hydrolase FlgJ of Sphingomonas sp. strain A1
J.Basic Microbiol., 50, 2010
3K8V
DownloadVisualize
BU of 3k8v by Molmil
Crysatl structure of a bacterial cell-surface flagellin N20C20
Descriptor: Flagellin homolog
Authors:Maruyama, Y, Momma, M, Hashimoto, W, Murata, K.
Deposit date:2009-10-15
Release date:2010-10-06
Last modified:2023-11-01
Method:X-RAY DIFFRACTION (2.1 Å)
Cite:Crystal structure of N- and C-terminal regions of flagellin
To be Published
8HG3
DownloadVisualize
BU of 8hg3 by Molmil
Cryo-EM structure of the Lhcp complex from Ostreococcus tauri
Descriptor: (1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY-2,2,6-TRIMETHYL-7-OXABICYCLO[4.1.0]HEPT-1-YL]-3,7,12,16-TETRAMETHYLOCTADECA-1,3,5,7,9,11,13,15,17-NONAENYLIDENE}-1,5,5-TRIMETHYLCYCLOHEXANE-1,3-DIOL, (1~{S})-3,5,5-trimethyl-4-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaenyl]cyclohex-3-en-1-ol, (3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-1-[(1~{S},4~{S})-2,2-dimethyl-6-methylidene-1,4-bis(oxidanyl)cyclohexyl]-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaen-2-one, ...
Authors:Shan, J, Sheng, X, Ishii, A, Watanabe, A, Song, C, Murata, K, Minagawa, J, Liu, Z.
Deposit date:2022-11-13
Release date:2023-04-26
Method:ELECTRON MICROSCOPY (2.94 Å)
Cite:The photosystem I supercomplex from a primordial green alga Ostreococcus tauri harbors three light-harvesting complex trimers.
Elife, 12, 2023
8HG6
DownloadVisualize
BU of 8hg6 by Molmil
Cryo-EM structure of the prasinophyte-specific light-harvesting complex (Lhcp)from Ostreococcus tauri
Descriptor: (1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY-2,2,6-TRIMETHYL-7-OXABICYCLO[4.1.0]HEPT-1-YL]-3,7,12,16-TETRAMETHYLOCTADECA-1,3,5,7,9,11,13,15,17-NONAENYLIDENE}-1,5,5-TRIMETHYLCYCLOHEXANE-1,3-DIOL, (1~{S})-3,5,5-trimethyl-4-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaenyl]cyclohex-3-en-1-ol, (3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-1-[(1~{S},4~{S})-2,2-dimethyl-6-methylidene-1,4-bis(oxidanyl)cyclohexyl]-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaen-2-one, ...
Authors:Shan, J, Sheng, X, Ishii, A, Watanabe, A, Song, C, Murata, K, Minagawa, J, Liu, Z.
Deposit date:2022-11-13
Release date:2023-04-26
Method:ELECTRON MICROSCOPY (3.44 Å)
Cite:The photosystem I supercomplex from a primordial green alga Ostreococcus tauri harbors three light-harvesting complex trimers.
Elife, 12, 2023
8HG5
DownloadVisualize
BU of 8hg5 by Molmil
Cryo-EM structure of the prasinophyte-specific light-harvesting complex (Lhcp)from Ostreococcus tauri
Descriptor: (1R,3R)-6-{(3E,5E,7E,9E,11E,13E,15E,17E)-18-[(1S,4R,6R)-4-HYDROXY-2,2,6-TRIMETHYL-7-OXABICYCLO[4.1.0]HEPT-1-YL]-3,7,12,16-TETRAMETHYLOCTADECA-1,3,5,7,9,11,13,15,17-NONAENYLIDENE}-1,5,5-TRIMETHYLCYCLOHEXANE-1,3-DIOL, (1~{S})-3,5,5-trimethyl-4-[(3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaenyl]cyclohex-3-en-1-ol, (3~{E},5~{E},7~{E},9~{E},11~{E},13~{E},15~{E},17~{E})-1-[(1~{S},4~{S})-2,2-dimethyl-6-methylidene-1,4-bis(oxidanyl)cyclohexyl]-3,7,12,16-tetramethyl-18-[(1~{R},4~{R})-2,6,6-trimethyl-4-oxidanyl-cyclohex-2-en-1-yl]octadeca-3,5,7,9,11,13,15,17-octaen-2-one, ...
Authors:Shan, J, Sheng, X, Ishii, A, Watanabe, A, Song, C, Murata, K, Minagawa, J, Liu, Z.
Deposit date:2022-11-13
Release date:2023-04-26
Method:ELECTRON MICROSCOPY (2.9 Å)
Cite:The photosystem I supercomplex from a primordial green alga Ostreococcus tauri harbors three light-harvesting complex trimers.
Elife, 12, 2023

217705

PDB entries from 2024-03-27

PDB statisticsPDBj update infoContact PDBjnumon