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233,249 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Furukawa, Y."

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Search Summary

This query matches 16 Structures.

Refinements

Structure Determination Methodology

experimental (16)

Scientific Name of Source Organism

	Canis lupus familiaris (6)
	Homo sapiens (3)
	Mus musculus (2)
	Agriosphodrus dohrni (1)
	Paenibacillus lautus NBRC 15380 (1)
	Saccharomyces cerevisiae S288C (1)
	Salmonella enterica subsp. enterica serovar Typhimurium (1)
	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (1)
	Thermosynechococcus vestitus BP-1 (1)
	Thermotoga maritima MSB8 (1)

Taxonomy

	Eukaryota (11)
	Bacteria (5)

Experimental Method

	X-RAY DIFFRACTION (14)
	SOLUTION NMR (2)

Polymer Entity Type

Protein (16)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (4)
	2.0 - 2.5 (3)
	2.5 - 3.0 (3)
	3.0 - 3.5 (2)

Release Date

	2000 - 2004 (1)
	2005 - 2009 (2)
	2010 - 2014 (2)
	2015 - 2019 (3)
	2020 - 2024 (8)

Enzyme Classification Name

	Hydrolases (2)
	Oxidoreductases (6)

Symmetry Type

	Cyclic (10)
	Asymmetric (6)
	Dihedral (1)

SCOP Classification

	Alpha and beta proteins (a+b) (1)
	All beta proteins (2)
	Alpha and beta proteins (a/b) (1)
	Small proteins (1)

AllSelected

1 to 16 of 16 Structures

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1LMR \| pdb_00001lmr	Download File View File

Solution of ADO1, a Toxin from the Assassin Bugs Agriosphodrus dohrni that Blocks the Voltage Sensitive Calcium Channel L-type

Bernard, C., Corzo, G., Adachi-Akahane, S., Foures, G., Kanemaru, K., Furukawa, Y., Nakajima, T., Darbon, H.

(2004) Proteins 54: 195-205

Released	2003-08-19
Method	SOLUTION NMR
Organisms	Agriosphodrus dohrni
Macromolecule	TOXIN ADO1 (protein)

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1VGL \| pdb_00001vgl	Download File View File

Crystal structure of tetrameric KaiB from T.elongatus BP-1

Iwase, R., Imada, K., Hayashi, F., Uzumaki, T., Namba, K., Ishiura, M.

(2005) J Biological Chem 280: 43141-43149

Released	2005-08-16
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	Circadian clock protein kaiB (protein)
Unique Ligands	HG

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2YRN \| pdb_00002yrn	Download File View File

Solution structure of the CH domain from Human Neuron navigator 2

Tomizawa, T., Tochio, N., Koshiba, S., Inoue, M., Nakamura, Y., Furukawa, Y., Kigawa, T., Yokoyama, S., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2008-02-12
Method	SOLUTION NMR
Organisms	Homo sapiens
Macromolecule	Neuron navigator 2 isoform 4 (protein)

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3A7M \| pdb_00003a7m	Download File View File

Structure of FliT, the flagellar type III chaperone for FliD

Imada, K., Minamino, T., Kinoshita, M., Namba, K.

(2010) Proc Natl Acad Sci U S A 107: 8812-8817

Released	2010-04-28
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Salmonella enterica subsp. enterica serovar Typhimurium
Macromolecule	Flagellar protein fliT (protein)

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4EU2 \| pdb_00004eu2	Download File View File

Crystal structure of 20s proteasome with novel inhibitor K-7174

Kikuchi, J., Shibayama, N., Yamada, S., Wada, T., Nobuyoshi, M., Izumi, T., Akutsu, M., Kano, Y., Ohki, M., Sugiyama, K., Park, S.-Y., Furukawa, Y.

(2013) PLoS One 8: e60649-e60649

Released	2013-05-01
Method	X-RAY DIFFRACTION 2.509 Å
Organisms	Saccharomyces cerevisiae S288C
Macromolecule	Unique protein chains: 14
Unique Ligands	WPI

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5B3D \| pdb_00005b3d	Download File View File

Structure of a flagellar type III secretion chaperone, FlgN

Nakanishi, Y., Kinoshita, M., Namba, K., Minamino, T., Imada, K.

(2016) Mol Microbiol 101: 656-670

Released	2016-06-01
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Salmonella enterica subsp. enterica serovar Typhimurium str. LT2
Macromolecule	Flagella synthesis protein FlgN (protein)

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5H72 \| pdb_00005h72	Download File View File

Structure of the periplasmic domain of FliP

Fukumura, T., Kawaguchi, T., Saijo-Hamano, Y., Namba, K., Minamino, T., Imada, K.

(2017) PLoS Biol 15: e2002281-e2002281

Released	2017-08-02
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Thermotoga maritima MSB8
Macromolecule	Flagellar biosynthetic protein FliP (protein)

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5ZLQ \| pdb_00005zlq	Download File View File

Crystal Structure of C1orf123

Furukawa, Y., Lim, C.T., Tosha, T.

(2018) PLoS One 13: e0204355-e0204355

Released	2018-10-10
Method	X-RAY DIFFRACTION 2 Å
Organisms	Homo sapiens
Macromolecule	UPF0587 protein C1orf123 (protein)
Unique Ligands	ZN

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6L98 \| pdb_00006l98	Download File View File

Crystalline cast nephropathy-causing Bence-Jones protein AK: An entire immunoglobulin lambda light chain dimer

Nakagaki, T., Noguchi, K., Yohda, M., Odaka, M., Wakui, H., Matsumura, H.

(2020) Kidney Int Rep 5: 1595-1602

Released	2020-09-23
Method	X-RAY DIFFRACTION 1.77 Å
Organisms	Homo sapiens
Macromolecule	Bence-Jones protein lambda light chain AK (protein)

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7WWT \| pdb_00007wwt	Download File View File

Cu/Zn-superoxide dismutase from dog (Canis familiaris)

Narikiyo, S., Furukawa, Y., Akutsu, M.

(2023) J Biological Chem 299: 104798-104798

Released	2023-02-15
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Canis lupus familiaris
Macromolecule	Superoxide dismutase [Cu-Zn] (protein)
Unique Ligands	CU, ZN

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7WWY \| pdb_00007wwy	Download File View File

M117L variant of Cu/Zn-superoxide dismutase from dog (Canis familiaris)

Narikiyo, S., Furukawa, Y., Akutsu, M.

(2023) J Biological Chem 299: 104798-104798

Released	2023-02-15
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Canis lupus familiaris
Macromolecule	Superoxide dismutase [Cu-Zn] (protein)
Unique Ligands	CU, ZN

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7WX0 \| pdb_00007wx0	Download File View File

E40K variant of Cu/Zn-superoxide dismutase from dog (Canis familiaris)

Narikiyo, S., Furukawa, Y., Akutsu, M.

(2023) J Biological Chem 299: 104798-104798

Released	2023-02-15
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Canis lupus familiaris
Macromolecule	Superoxide dismutase [Cu-Zn] (protein)
Unique Ligands	CU, ZN

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7WX1 \| pdb_00007wx1	Download File View File

E40K/M117L variant of Cu/Zn-superoxide dismutase from dog (Canis familiaris)

Narikiyo, S., Furukawa, Y., Akutsu, M.

(2023) J Biological Chem 299: 104798-104798

Released	2023-02-15
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Canis lupus familiaris
Macromolecule	Superoxide dismutase [Cu-Zn] (protein)
Unique Ligands	CU, ZN

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8IMD \| pdb_00008imd	Download File View File

Crystal structure of Cu/Zn Superoxide dismutase from Paenibacillus lautus

Narikiyo, S., Furukawa, Y., Akutsu, M.

(2023) J Biological Chem 299: 105040-105040

Released	2024-01-17
Method	X-RAY DIFFRACTION 1.45 Å
Organisms	Paenibacillus lautus NBRC 15380
Macromolecule	Cu/Zn-Superoxide dismutase (protein)
Unique Ligands	CU, MES, ZN

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8ZD5 \| pdb_00008zd5	Download File View File

Crystal structure of E40K variant of Cu/Zn-superoxide dismutase from dog (Canis familiaris) in the holo form complexed with 22E1 Fv-clasp

Shino, Y., Furukawa, Y., Muraki, N.

(2024) Protein Sci 33: e5210-e5210

Released	2024-11-27
Method	X-RAY DIFFRACTION 2.89 Å
Organisms	Canis lupus familiaris Mus musculus
Macromolecule	22E1VH-SARAH (protein) 22E1VL-SARAH (protein) Superoxide dismutase [Cu-Zn] (protein)
Unique Ligands	CU, ZN

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8ZD6 \| pdb_00008zd6	Download File View File

Crystal structure of E40K variant of Cu/Zn-superoxide dismutase from dog (Canis familiaris) in the apo form complexed with 22E1 Fv-clasp

Shino, Y., Furukawa, Y., Muraki, N.

(2024) Protein Sci 33: e5210-e5210

Released	2024-11-27
Method	X-RAY DIFFRACTION 3.29 Å
Organisms	Canis lupus familiaris Mus musculus
Macromolecule	22E1VH-SARAH (protein) 22E1VL-SARAH (protein) Superoxide dismutase [Cu-Zn] (protein)

1 to 16 of 16 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.

1LMR | pdb_00001lmr

Solution of ADO1, a Toxin from the Assassin Bugs Agriosphodrus dohrni that Blocks the Voltage Sensitive Calcium Channel L-type

1VGL | pdb_00001vgl

Crystal structure of tetrameric KaiB from T.elongatus BP-1

2YRN | pdb_00002yrn

Solution structure of the CH domain from Human Neuron navigator 2

3A7M | pdb_00003a7m

Structure of FliT, the flagellar type III chaperone for FliD

4EU2 | pdb_00004eu2

Crystal structure of 20s proteasome with novel inhibitor K-7174

5B3D | pdb_00005b3d

Structure of a flagellar type III secretion chaperone, FlgN

5H72 | pdb_00005h72

Structure of the periplasmic domain of FliP

5ZLQ | pdb_00005zlq

Crystal Structure of C1orf123

6L98 | pdb_00006l98

Crystalline cast nephropathy-causing Bence-Jones protein AK: An entire immunoglobulin lambda light chain dimer

7WWT | pdb_00007wwt

Cu/Zn-superoxide dismutase from dog (Canis familiaris)

7WWY | pdb_00007wwy

M117L variant of Cu/Zn-superoxide dismutase from dog (Canis familiaris)

7WX0 | pdb_00007wx0

E40K variant of Cu/Zn-superoxide dismutase from dog (Canis familiaris)

7WX1 | pdb_00007wx1

E40K/M117L variant of Cu/Zn-superoxide dismutase from dog (Canis familiaris)

8IMD | pdb_00008imd

Crystal structure of Cu/Zn Superoxide dismutase from Paenibacillus lautus

8ZD5 | pdb_00008zd5

Crystal structure of E40K variant of Cu/Zn-superoxide dismutase from dog (Canis familiaris) in the holo form complexed with 22E1 Fv-clasp

8ZD6 | pdb_00008zd6

Crystal structure of E40K variant of Cu/Zn-superoxide dismutase from dog (Canis familiaris) in the apo form complexed with 22E1 Fv-clasp

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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

1LMR | pdb_00001lmr

1VGL | pdb_00001vgl

2YRN | pdb_00002yrn

3A7M | pdb_00003a7m

4EU2 | pdb_00004eu2

5B3D | pdb_00005b3d

5H72 | pdb_00005h72

5ZLQ | pdb_00005zlq

6L98 | pdb_00006l98

7WWT | pdb_00007wwt

7WWY | pdb_00007wwy

7WX0 | pdb_00007wx0

7WX1 | pdb_00007wx1

8IMD | pdb_00008imd

8ZD5 | pdb_00008zd5

8ZD6 | pdb_00008zd6