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232,418 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Abe, K."

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Search Summary

This query matches 77 Structures.

Refinements

Structure Determination Methodology

experimental (77)

Scientific Name of Source Organism

	Sus scrofa (25)
	Listeria innocua Clip11262 (13)
	Homo sapiens (10)
	Rattus norvegicus (5)
	Bacteroides thetaiotaomicron VPI-5482 (4)
	Mariniflexile fucanivorans (3)
	Talaromyces funiculosus (3)
	Chitinophaga pinensis DSM 2588 (2)
	Rattus (2)
	Tetragenococcus halophilus (2)

More...

Taxonomy

	Eukaryota (49)
	Bacteria (26)
	other sequences (2)

Experimental Method

	X-RAY DIFFRACTION (45)
	ELECTRON MICROSCOPY (25)
	ELECTRON CRYSTALLOGRAPHY (6)
	SOLUTION NMR (1)

Polymer Entity Type

	Protein (75)
	DNA (2)

Refinement Resolution (Å)

	1.5 - 2.0 (12)
	2.0 - 2.5 (21)
	2.5 - 3.0 (13)
	3.0 - 3.5 (16)
	3.5 - 4.0 (6)
	4.0 - 4.5 (2)
	> 4.5 (6)

Release Date

	2000 - 2004 (1)
	2005 - 2009 (2)
	2010 - 2014 (4)
	2015 - 2019 (35)
	2020 - 2024 (33)
	2025 - 2029 (2)

Enzyme Classification Name

	Translocases (43)
	Hydrolases (28)
	Isomerases (1)
	Lyases (1)

Membrane Protein Annotation

	PDBTM (45)
	MemProtMD (35)
	OPM (25)
	mpstruc (25)

Symmetry Type

	Asymmetric (58)
	Cyclic (17)

SCOP Classification

	Alpha and beta proteins (a/b) (5)
	All beta proteins (1)
	Artifacts (4)
	Alpha and beta proteins (a+b) (1)

AllSelected

1 to 25 of 77 Structures

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1EQK	Download File View File

SOLUTION STRUCTURE OF ORYZACYSTATIN-I, A CYSTEINE PROTEINASE INHIBITOR OF THE RICE, ORYZA SATIVA L. JAPONICA

Nagata, K., Kudo, N., Abe, K., Arai, S., Tanokura, M.

(2000) Biochemistry 39: 14753-14760

Released	2001-01-10
Method	SOLUTION NMR
Organisms	Oryza sativa Japonica Group
Macromolecule	ORYZACYSTATIN-I (protein)

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2D04	Download File View File

Crystal structure of neoculin, a sweet protein with taste-modifying activity.

Shimizu-Ibuka, A., Morita, Y., Terada, T., Asakura, T., Nakajima, K., Iwata, S., Misaka, T., Sorimachi, H., Arai, S., Abe, K.

(2006) J Mol Biol 359: 148-158

Released	2006-06-20
Method	X-RAY DIFFRACTION 2.76 Å
Organisms	Molineria latifolia
Macromolecule	Curculin (protein) neoculin acidic subunit (protein)
Unique Ligands	NAG
Unique branched monosaccharides	BMA, FUL, NAG

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2XZB	Download File View File

Pig Gastric H,K-ATPase with bound BeF and SCH28080

Abe, K., Tani, K., Fujiyoshi, Y.

(2011) Nat Commun 2: 155

Released	2011-01-26
Method	ELECTRON CRYSTALLOGRAPHY 7 Å
Organisms	Sus scrofa
Macromolecule	POTASSIUM-TRANSPORTING ATPASE ALPHA CHAIN 1 (protein) POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA (protein)

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2YN9	Download File View File

Cryo-EM structure of gastric H+,K+-ATPase with bound rubidium

Abe, K., Tani, K., Friedrich, T., Fujiyoshi, Y.

(2012) Proc Natl Acad Sci U S A 109: 18401

Released	2012-11-07
Method	ELECTRON CRYSTALLOGRAPHY 8 Å
Organisms	Sus scrofa
Macromolecule	POTASSIUM-TRANSPORTING ATPASE ALPHA CHAIN 1 (protein) POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA (protein)

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3IXZ	Download File View File

Pig gastric H+/K+-ATPase complexed with aluminium fluoride

Abe, K., Tani, K., Nishizawa, T., Fujiyoshi, Y.

(2009) EMBO J 28: 1637-1643

Released	2009-06-23
Method	ELECTRON CRYSTALLOGRAPHY
Organisms	Sus scrofa
Macromolecule	Potassium-transporting ATPase alpha (protein) Potassium-transporting ATPase subunit beta (protein)

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4UAP	Download File View File

X-ray structure of GH31 CBM32-2 bound to GalNAc

Grondin, J.M., Abe, K., Boraston, A.B., Smith, S.P.

(2017) PLoS One 12: e0171606-e0171606

Released	2015-10-07
Method	X-RAY DIFFRACTION 2 Å
Organisms	Clostridium perfringens ATCC 13124
Macromolecule	Glycosyl hydrolase, family 31/fibronectin type III domain protein (protein)
Unique Ligands	CA, GOL, NGA

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4UX1	Download File View File

Cryo-EM structure of antagonist-bound E2P gastric H,K-ATPase (SCH.E2. AlF)

Abe, K., Tani, K., Fujiyoshi, Y.

(2014) J Biol Chem 289: 30590

Released	2014-09-17
Method	ELECTRON CRYSTALLOGRAPHY 8 Å
Organisms	Sus scrofa
Macromolecule	POTASSIUM-TRANSPORTING ATPASE ALPHA CHAIN 1 (protein) POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA (protein)

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4UX2	Download File View File

Cryo-EM structure of antagonist-bound E2P gastric H,K-ATPase (SCH.E2. MgF)

Abe, K., Tani, K., Fujiyoshi, Y.

(2014) J Biol Chem 289: 30590

Released	2014-09-17
Method	ELECTRON CRYSTALLOGRAPHY 7 Å
Organisms	Sus scrofa
Macromolecule	POTASSIUM-TRANSPORTING ATPASE ALPHA CHAIN 1 (protein) POTASSIUM-TRANSPORTING ATPASE SUBUNIT BETA (protein)

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4ZO6	Download File View File

Crystal Structure of mutant (D270A) beta-glucosidase from Listeria innocua in complex with cellobiose

Nakajima, M., Yoshida, R., Miyanaga, A., Abe, K., Takahashi, Y., Sugimoto, N., Toyoizumi, H., Nakai, H., Kitaoka, M., Taguchi, H.

(2016) PLoS One 11: e0148870-e0148870

Released	2016-05-18
Method	X-RAY DIFFRACTION 2 Å
Organisms	Listeria innocua Clip11262
Macromolecule	Lin1840 protein (protein)
Unique Ligands	BGC, GOL, MG
Unique branched monosaccharides	BGC

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4ZO7	Download File View File

Crystal structure of mutant (D270A) beta-glucosidase from Listeria innocua in complex with gentiobiose

Nakajima, M., Yoshida, R., Miyanaga, A., Abe, K., Takahashi, Y., Sugimoto, N., Toyoizumi, H., Nakai, H., Kitaoka, M., Taguchi, H.

(2016) PLoS One 11: e0148870-e0148870

Released	2016-05-18
Method	X-RAY DIFFRACTION 2 Å
Organisms	Listeria innocua Clip11262
Macromolecule	Lin1840 protein (protein)
Unique Ligands	BGC, GLC, GOL, MG
Unique branched monosaccharides	BGC, GLC

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4ZO8	Download File View File

Crystal Structure of mutant (D270A) beta-glucosidase from Listeria innocua in complex with sophorose

Nakajima, M., Yoshida, R., Miyanaga, A., Abe, K., Takahashi, Y., Sugimoto, N., Toyoizumi, H., Nakai, H., Kitaoka, M., Taguchi, H.

(2016) PLoS One 11: e0148870-e0148870

Released	2016-05-18
Method	X-RAY DIFFRACTION 2 Å
Organisms	Listeria innocua Clip11262
Macromolecule	Lin1840 protein (protein)
Unique Ligands	MG
Unique branched monosaccharides	BGC

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4ZO9	Download File View File

Crystal Structure of mutant (D270A) beta-glucosidase from Listeria innocua in complex with laminaribiose

Nakajima, M., Yoshida, R., Miyanaga, A., Abe, K., Takahashi, Y., Sugimoto, N., Toyoizumi, H., Nakai, H., Kitaoka, M., Taguchi, H.

(2016) PLoS One 11: e0148870-e0148870

Released	2016-05-18
Method	X-RAY DIFFRACTION 1.99 Å
Organisms	Listeria innocua Clip11262
Macromolecule	Lin1840 protein (protein)
Unique Ligands	BGC, GOL, MG
Unique branched monosaccharides	BGC, GLC

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4ZOA	Download File View File

Crystal Structure of beta-glucosidase from Listeria innocua in complex with isofagomine

Nakajima, M., Yoshida, R., Miyanaga, A., Abe, K., Takahashi, Y., Sugimoto, N., Toyoizumi, H., Nakai, H., Kitaoka, M., Taguchi, H.

(2016) PLoS One 11: e0148870-e0148870

Released	2016-05-18
Method	X-RAY DIFFRACTION 2.17 Å
Organisms	Listeria innocua Clip11262
Macromolecule	Lin1840 protein (protein)
Unique Ligands	IFM, MG, PEG

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4ZOB	Download File View File

Crystal Structure of beta-glucosidase from Listeria innocua in complex with gluconolactone

Nakajima, M., Yoshida, R., Miyanaga, A., Abe, K., Takahashi, Y., Sugimoto, N., Toyoizumi, H., Nakai, H., Kitaoka, M., Taguchi, H.

(2016) PLoS One 11: e0148870-e0148870

Released	2016-05-18
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Listeria innocua Clip11262
Macromolecule	Lin1840 protein (protein)
Unique Ligands	GOL, LGC, MG, PEG, SO4

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4ZOC	Download File View File

Crystal Structure of mutant (D270A) beta-glucosidase from Listeria innocua in complex with sophorotriose

Nakajima, M., Yoshida, R., Miyanaga, A., Abe, K., Takahashi, Y., Sugimoto, N., Toyoizumi, H., Nakai, H., Kitaoka, M., Taguchi, H.

(2016) PLoS One 11: e0148870-e0148870

Released	2016-05-18
Method	X-RAY DIFFRACTION 1.79 Å
Organisms	Listeria innocua Clip11262
Macromolecule	Lin1840 protein (protein)
Unique Ligands	BGC, GOL, MG

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4ZOD	Download File View File

Crystal Structure of beta-glucosidase from Listeria innocua in complex with glucose

Nakajima, M., Yoshida, R., Miyanaga, A., Abe, K., Takahashi, Y., Sugimoto, N., Toyoizumi, H., Nakai, H., Kitaoka, M., Taguchi, H.

(2016) PLoS One 11: e0148870-e0148870

Released	2016-05-18
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Listeria innocua Clip11262
Macromolecule	Lin1840 protein (protein)
Unique Ligands	BGC, GOL, MG, PEG, SO4

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4ZOE	Download File View File

Crystal Structure of beta-glucosidase from Listeria innocua

Nakajima, M., Yoshida, R., Miyanaga, A., Abe, K., Takahashi, Y., Sugimoto, N., Toyoizumi, H., Nakai, H., Kitaoka, M., Taguchi, H.

(2016) PLoS One 11: e0148870-e0148870

Released	2016-05-18
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Listeria innocua Clip11262
Macromolecule	Lin1840 protein (protein)
Unique Ligands	GOL, MG

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5GZH	Download File View File

Endo-beta-1,2-glucanase from Chitinophaga pinensis - ligand free form

Abe, K., Nakajima, M., Arakawa, T., Fushinobu, S., Taguchi, H.

(2017) J Biol Chem 292: 7487-7506

Released	2017-03-15
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Chitinophaga pinensis DSM 2588
Macromolecule	Endo-beta-1,2-glucanase (protein)
Unique Ligands	IOD
Unique branched monosaccharides	GLC

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5GZK	Download File View File

Endo-beta-1,2-glucanase from Chitinophaga pinensis - sophorotriose and glucose complex

Abe, K., Nakajima, M., Arakawa, T., Fushinobu, S., Taguchi, H.

(2017) J Biol Chem 292: 7487-7506

Released	2017-03-15
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Chitinophaga pinensis DSM 2588
Macromolecule	Uncharacterized protein (protein)
Unique Ligands	1PE, BGC, CL, K, PEG, PG4, PO4
Unique branched monosaccharides	BGC

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5XXL	Download File View File

Crystal structure of GH3 beta-glucosidase from Bacteroides thetaiotaomicron

Nakajima, M., Ishiguro, R., Tanaka, N., Abe, K., Maeda, T., Miyanaga, A., Takahash, Y., Sugimoto, N., Nakai, H., Taguchi, H.

(2017) FEBS Lett 591: 3926-3936

Released	2017-12-13
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Bacteroides thetaiotaomicron VPI-5482
Macromolecule	Periplasmic beta-glucosidase (protein)
Unique Ligands	MG, PEG, PG4

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5XXM	Download File View File

Crystal structure of GH3 beta-glucosidase from Bacteroides thetaiotaomicron in complex with gluconolactone

Nakajima, M., Ishiguro, R., Tanaka, N., Abe, K., Maeda, T., Miyanaga, A., Takahash, Y., Sugimoto, N., Nakai, H., Taguchi, H.

(2017) FEBS Lett 591: 3926-3936

Released	2017-12-13
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Bacteroides thetaiotaomicron VPI-5482
Macromolecule	Periplasmic beta-glucosidase (protein)
Unique Ligands	LGC, MG, PG4

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5XXN	Download File View File

Crystal Structure of mutant (D286N) beta-glucosidase from Bacteroides thetaiotaomicron in complex with sophorose

Nakajima, M., Ishiguro, R., Tanaka, N., Abe, K., Maeda, T., Miyanaga, A., Takahashi, Y., Sugimono, N., Nakai, H., Taguchi, H.

(2017) FEBS Lett 591: 3926-3936

Released	2017-12-13
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Bacteroides thetaiotaomicron VPI-5482
Macromolecule	Periplasmic beta-glucosidase (protein)
Unique Ligands	GLC, MG, PEG, PG4
Unique branched monosaccharides	BGC

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5XXO	Download File View File

Crystal structure of mutant (D286N) GH3 beta-glucosidase from Bacteroides thetaiotaomicron in complex with sophorotriose

Nakajima, M., Ishiguro, R., Tanaka, N., Abe, K., Maeda, T., Miyanaga, A., Takahash, Y., Sugimoto, N., Nakai, H., Taguchi, H.

(2017) FEBS Lett 591: 3926-3936

Released	2017-12-13
Method	X-RAY DIFFRACTION 2.02 Å
Organisms	Bacteroides thetaiotaomicron VPI-5482
Macromolecule	Periplasmic beta-glucosidase (protein)
Unique Ligands	BGC, MG, PEG, PG4
Unique branched monosaccharides	BGC

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5Y0B	Download File View File

PIG GASTRIC H+,K+ - ATPASE IN COMPLEX with BYK99

Abe, K., Shimokawa, J., Natio, M., Munson, K., Vagin, O., Sachs, G., Suzuki, H., Tani, K., Fujiyoshi, Y.

(2017) Sci Rep 7: 6632-6632

Released	2017-08-09
Method	ELECTRON CRYSTALLOGRAPHY 6.5 Å
Organisms	Sus scrofa
Macromolecule	Potassium-transporting ATPase alpha chain 1 (protein) Potassium-transporting ATPase subunit beta (protein)

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5YBW	Download File View File

Crystal structure of pyridoxal 5'-phosphate-dependent aspartate racemase

Mizobuchi, T., Nonaka, R., Yoshimura, M., Abe, K., Takahashi, S., Kera, Y., Goto, M.

(2017) Acta Crystallogr F Struct Biol Commun 73: 651-656

Released	2017-12-20
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Anadara broughtonii
Macromolecule	Aspartate racemase (protein)

1 to 25 of 77 Structures

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