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234,785 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Kano, K."

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Search Summary

This query matches 11 Structures.

Refinements

Structure Determination Methodology

experimental (11)

Scientific Name of Source Organism

	Nitratidesulfovibrio vulgaris str. 'Miyazaki F (5)
	Mus musculus (2)
	Paracoccus denitrificans (2)
	Albifimbria verrucaria (1)
	Methylorubrum extorquens AM1 (1)

Taxonomy

	Bacteria (8)
	Eukaryota (3)

Experimental Method

X-RAY DIFFRACTION (11)

Polymer Entity Type

Protein (11)

Refinement Resolution (Å)

	1.0 - 1.5 (4)
	1.5 - 2.0 (3)
	2.0 - 2.5 (4)

Release Date

	2000 - 2004 (2)
	2005 - 2009 (5)
	2010 - 2014 (1)
	2015 - 2019 (2)
	2020 - 2024 (1)

Enzyme Classification Name

	Oxidoreductases (9)
	Hydrolases (2)

Symmetry Type

Asymmetric (11)

SCOP Classification

	Multi-domain proteins (alpha and beta) (5)
	All beta proteins (2)
	All alpha proteins (2)

AllSelected

1 to 11 of 11 Structures

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1JJU \| pdb_00001jju	Download File View File

Structure of a Quinohemoprotein Amine Dehydrogenase with a Unique Redox Cofactor and Highly Unusual Crosslinking

Datta, S., Mori, Y., Takagi, K., Kawaguchi, K., Chen, Z.-W., Kano, K., Ikeda, T., Okajima, T., Kuroda, S., Tanizawa, K., Mathews, F.S.

(2001) Proc Natl Acad Sci U S A 98: 14268-14273

Released	2001-12-12
Method	X-RAY DIFFRACTION 2.05 Å
Organisms	Paracoccus denitrificans
Macromolecule	QUINOHEMOPROTEIN AMINE DEHYDROGENASE (protein)
Unique Ligands	HEM, NA, TBU

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1PBY \| pdb_00001pby	Download File View File

Structure of the Phenylhydrazine Adduct of the Quinohemoprotein Amine Dehydrogenase from Paracoccus denitrificans at 1.7 A Resolution

Datta, S., Ikeda, T., Kano, K., Mathews, F.S.

(2003) Acta Crystallogr D Biol Crystallogr 59: 1551-1556

Released	2003-09-02
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Paracoccus denitrificans
Macromolecule	quinohemoprotein amine dehydrogenase 40 kDa subunit (protein) quinohemoprotein amine dehydrogenase 60 kDa subunit (protein) quinohemoprotein amine dehydrogenase 9 kDa subunit (protein)
Unique Ligands	HEC, TBU

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1WUH \| pdb_00001wuh	Download File View File

Three-Dimensional Structure Of The Ni-A State Of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F

Ogata, H., Hirota, S., Nakahara, A., Komori, H., Shibata, N., Kato, T., Kano, K., Higuchi, Y.

To be published

Released	2005-12-07
Method	X-RAY DIFFRACTION 1.24 Å
Organisms	Nitratidesulfovibrio vulgaris str. 'Miyazaki F
Macromolecule	Periplasmic [NiFe] hydrogenase large subunit (protein) Periplasmic [NiFe] hydrogenase small subunit (protein)
Unique Ligands	F3S, MG, MPD, NFC, SF4

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1WUI \| pdb_00001wui	Download File View File

Ultra-High resolution Structure Of The Ni-A State Of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F

Ogata, H., Hirota, S., Nakahara, A., Komori, H., Shibata, N., Kato, T., Kano, K., Higuchi, Y.

(2005) Structure 13: 1635-1642

Released	2005-12-07
Method	X-RAY DIFFRACTION 1.04 Å
Organisms	Nitratidesulfovibrio vulgaris str. 'Miyazaki F
Macromolecule	Periplasmic [NiFe] hydrogenase large subunit (protein) Periplasmic [NiFe] hydrogenase small subunit (protein)
Unique Ligands	F3S, MG, MPD, MRD, NFC, SF4

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1WUJ \| pdb_00001wuj	Download File View File

Three-Dimensional Structure Of The Ni-B State Of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F

Ogata, H., Hirota, S., Nakahara, A., Komori, H., Shibata, N., Kato, T., Kano, K., Higuchi, Y.

(2005) Structure 13: 1635-1642

Released	2005-12-07
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Nitratidesulfovibrio vulgaris str. 'Miyazaki F
Macromolecule	Periplasmic [NiFe] hydrogenase large subunit (protein) Periplasmic [NiFe] hydrogenase small subunit (protein)
Unique Ligands	F3S, MG, NFO, SF4

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1WUK \| pdb_00001wuk	Download File View File

High resolution Structure Of The Oxidized State Of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F

Ogata, H., Hirota, S., Nakahara, A., Komori, H., Shibata, N., Kato, T., Kano, K., Higuchi, Y.

(2005) Structure 13: 1635-1642

Released	2005-12-07
Method	X-RAY DIFFRACTION 1.1 Å
Organisms	Nitratidesulfovibrio vulgaris str. 'Miyazaki F
Macromolecule	Periplasmic [NiFe] hydrogenase large subunit (protein) Periplasmic [NiFe] hydrogenase small subunit (protein)
Unique Ligands	F3S, MG, MRD, NFO, SF4

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1WUL \| pdb_00001wul	Download File View File

High Resolution Structure Of The Reduced State Of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F

Ogata, H., Hirota, S., Nakahara, A., Komori, H., Shibata, N., Kato, T., Kano, K., Higuchi, Y.

(2005) Structure 13: 1635-1642

Released	2005-12-07
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Nitratidesulfovibrio vulgaris str. 'Miyazaki F
Macromolecule	Periplasmic [NiFe] hydrogenase large subunit (protein) Periplasmic [NiFe] hydrogenase small subunit (protein)
Unique Ligands	F3S, MG, MPD, MRD, NFR, SF4

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3ABG \| pdb_00003abg	Download File View File

X-ray Crystal Analysis of Bilirubin Oxidase from Myrothecium verrucaria at 2.3 angstrom Resolution using a Twin Crystal

Mizutani, K., Toyoda, M., Sagara, K., Takahashi, N., Sato, A., Kamitaka, Y., Tsujimura, S., Nakanishi, Y., Sugiura, T., Yamaguchi, S., Kano, K., Mikami, B.

(2010) Acta Crystallogr Sect F Struct Biol Cryst Commun 66: 765-770

Released	2010-08-18
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Albifimbria verrucaria
Macromolecule	Bilirubin oxidase (protein)
Unique Ligands	CU, GOL, OXY
Unique branched monosaccharides	BMA, MAN, NAG

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5EGE \| pdb_00005ege	Download File View File

Structure of ENPP6, a choline-specific glycerophosphodiester-phosphodiesterase

Morita, J., Kano, K., Kato, K., Takita, H., Ishitani, R., Nishimasu, H., Nureki, O., Aoki, J.

(2016) Sci Rep 6: 20995-20995

Released	2016-03-09
Method	X-RAY DIFFRACTION 2 Å
Organisms	Mus musculus
Macromolecule	Ectonucleotide pyrophosphatase/phosphodiesterase family member 6 (protein)
Unique Ligands	EDO, NAG, ZN
Unique branched monosaccharides	FUL, NAG

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5EGH \| pdb_00005egh	Download File View File

Structure of ENPP6, a choline-specific glycerophosphodiester-phosphodiesterase in complex with phosphocholine

Morita, J., Kano, K., Kato, K., Takita, H., Ishitani, R., Nishimasu, H., Nureki, O., Aoki, J.

(2016) Sci Rep 6: 20995-20995

Released	2016-03-09
Method	X-RAY DIFFRACTION 1.803 Å
Organisms	Mus musculus
Macromolecule	Ectonucleotide pyrophosphatase/phosphodiesterase family member 6 (protein)
Unique Ligands	EDO, NAG, PC, ZN
Unique branched monosaccharides	FUL, NAG

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8J83 \| pdb_00008j83	Download File View File

Crystal structure of formate dehydrogenase from Methylorubrum extorquens AM1

Kobayashi, A., Taketa, M., Sowa, K., Kano, K., Higuchi, Y., Ogata, H.

(2023) IUCrJ 10: 544-554

Released	2023-10-11
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Methylorubrum extorquens AM1
Macromolecule	Tungsten-containing formate dehydrogenase alpha subunit (protein) Tungsten-containing formate dehydrogenase beta subunit (protein)
Unique Ligands	FES, FMN, GOL, MGD, PEG, SF4, W

1 to 11 of 11 Structures

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RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

1JJU | pdb_00001jju

Structure of a Quinohemoprotein Amine Dehydrogenase with a Unique Redox Cofactor and Highly Unusual Crosslinking

1PBY | pdb_00001pby

Structure of the Phenylhydrazine Adduct of the Quinohemoprotein Amine Dehydrogenase from Paracoccus denitrificans at 1.7 A Resolution

1WUH | pdb_00001wuh

Three-Dimensional Structure Of The Ni-A State Of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F

1WUI | pdb_00001wui

Ultra-High resolution Structure Of The Ni-A State Of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F

1WUJ | pdb_00001wuj

Three-Dimensional Structure Of The Ni-B State Of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F

1WUK | pdb_00001wuk

High resolution Structure Of The Oxidized State Of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F

1WUL | pdb_00001wul

High Resolution Structure Of The Reduced State Of [Nife]Hydrogenase From Desulufovibrio Vulgaris Miyazaki F

3ABG | pdb_00003abg

X-ray Crystal Analysis of Bilirubin Oxidase from Myrothecium verrucaria at 2.3 angstrom Resolution using a Twin Crystal

5EGE | pdb_00005ege

Structure of ENPP6, a choline-specific glycerophosphodiester-phosphodiesterase

5EGH | pdb_00005egh

Structure of ENPP6, a choline-specific glycerophosphodiester-phosphodiesterase in complex with phosphocholine

8J83 | pdb_00008j83

Crystal structure of formate dehydrogenase from Methylorubrum extorquens AM1

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Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Symmetry Type

SCOP Classification

1JJU | pdb_00001jju

1PBY | pdb_00001pby

1WUH | pdb_00001wuh

1WUI | pdb_00001wui

1WUJ | pdb_00001wuj

1WUK | pdb_00001wuk

1WUL | pdb_00001wul

3ABG | pdb_00003abg

5EGE | pdb_00005ege

5EGH | pdb_00005egh

8J83 | pdb_00008j83