RCSB PDB: Search

5IYS: Entity 1	Download File View File

Crystal structure of a dehydrosqualene synthase in complex with ligand

Liu, G.Z., Liu, W.D., Chen, C.C., Guo, R.T.

To be published

Released	2017-03-29
Method	X-RAY DIFFRACTION 1.93 Å
Chain ID	A
Organism	Enterococcus hirae ATCC 9790
Macromolecule	Phytoene synthase

Explore in 3D

5KNB: Entity 1	Download File View File

Crystal structure of the 2 ADP-bound V1 complex

Suzuki, K., Mizutani, K., Maruyama, S., Shimono, K., Imai, F.L., Muneyuki, E., Kakinuma, Y., Ishizuka-Katsura, Y., Shirouzu, M., Yokoyama, S., Yamato, I., Murata, T.

(2016) Nat Commun 7: 13235-13235

Released	2016-11-02
Method	X-RAY DIFFRACTION 3.251 Å
Chain IDs	A, B, C
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase catalytic subunit A

Explore in 3D

5KNB: Entity 2	Download File View File

Crystal structure of the 2 ADP-bound V1 complex

Suzuki, K., Mizutani, K., Maruyama, S., Shimono, K., Imai, F.L., Muneyuki, E., Kakinuma, Y., Ishizuka-Katsura, Y., Shirouzu, M., Yokoyama, S., Yamato, I., Murata, T.

(2016) Nat Commun 7: 13235-13235

Released	2016-11-02
Method	X-RAY DIFFRACTION 3.251 Å
Chain IDs	D, E, F
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit B

Explore in 3D

5KNB: Entity 3	Download File View File

Crystal structure of the 2 ADP-bound V1 complex

Suzuki, K., Mizutani, K., Maruyama, S., Shimono, K., Imai, F.L., Muneyuki, E., Kakinuma, Y., Ishizuka-Katsura, Y., Shirouzu, M., Yokoyama, S., Yamato, I., Murata, T.

(2016) Nat Commun 7: 13235-13235

Released	2016-11-02
Method	X-RAY DIFFRACTION 3.251 Å
Chain ID	G
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit D

Explore in 3D

5KNB: Entity 4	Download File View File

Crystal structure of the 2 ADP-bound V1 complex

Suzuki, K., Mizutani, K., Maruyama, S., Shimono, K., Imai, F.L., Muneyuki, E., Kakinuma, Y., Ishizuka-Katsura, Y., Shirouzu, M., Yokoyama, S., Yamato, I., Murata, T.

(2016) Nat Commun 7: 13235-13235

Released	2016-11-02
Method	X-RAY DIFFRACTION 3.251 Å
Chain ID	H
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit NtpG (F)

Explore in 3D

5KNC: Entity 1	Download File View File

Crystal structure of the 3 ADP-bound V1 complex

Suzuki, K., Mizutani, K., Maruyama, S., Shimono, K., Imai, F.L., Muneyuki, E., Kakinuma, Y., Ishizuka-Katsura, Y., Shirouzu, M., Yokoyama, S., Yamato, I., Murata, T.

(2016) Nat Commun 7: 13235-13235

Released	2016-11-02
Method	X-RAY DIFFRACTION 3.015 Å
Chain IDs	A, B, C
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase catalytic subunit A

Explore in 3D

5KNC: Entity 2	Download File View File

Crystal structure of the 3 ADP-bound V1 complex

Suzuki, K., Mizutani, K., Maruyama, S., Shimono, K., Imai, F.L., Muneyuki, E., Kakinuma, Y., Ishizuka-Katsura, Y., Shirouzu, M., Yokoyama, S., Yamato, I., Murata, T.

(2016) Nat Commun 7: 13235-13235

Released	2016-11-02
Method	X-RAY DIFFRACTION 3.015 Å
Chain IDs	D, E, F
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit B

Explore in 3D

5KNC: Entity 3	Download File View File

Crystal structure of the 3 ADP-bound V1 complex

Suzuki, K., Mizutani, K., Maruyama, S., Shimono, K., Imai, F.L., Muneyuki, E., Kakinuma, Y., Ishizuka-Katsura, Y., Shirouzu, M., Yokoyama, S., Yamato, I., Murata, T.

(2016) Nat Commun 7: 13235-13235

Released	2016-11-02
Method	X-RAY DIFFRACTION 3.015 Å
Chain ID	G
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit D

Explore in 3D

5KNC: Entity 4	Download File View File

Crystal structure of the 3 ADP-bound V1 complex

Suzuki, K., Mizutani, K., Maruyama, S., Shimono, K., Imai, F.L., Muneyuki, E., Kakinuma, Y., Ishizuka-Katsura, Y., Shirouzu, M., Yokoyama, S., Yamato, I., Murata, T.

(2016) Nat Commun 7: 13235-13235

Released	2016-11-02
Method	X-RAY DIFFRACTION 3.015 Å
Chain ID	H
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit NtpG (F)

Explore in 3D

5KND: Entity 1	Download File View File

Crystal structure of the Pi-bound V1 complex

Suzuki, K., Mizutani, K., Maruyama, S., Shimono, K., Imai, F.L., Muneyuki, E., Kakinuma, Y., Ishizuka-Katsura, Y., Shirouzu, M., Yokoyama, S., Yamato, I., Murata, T.

(2016) Nat Commun 7: 13235-13235

Released	2016-11-02
Method	X-RAY DIFFRACTION 2.888 Å
Chain IDs	A, B, C
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase catalytic subunit A

Explore in 3D

5KND: Entity 2	Download File View File

Crystal structure of the Pi-bound V1 complex

Suzuki, K., Mizutani, K., Maruyama, S., Shimono, K., Imai, F.L., Muneyuki, E., Kakinuma, Y., Ishizuka-Katsura, Y., Shirouzu, M., Yokoyama, S., Yamato, I., Murata, T.

(2016) Nat Commun 7: 13235-13235

Released	2016-11-02
Method	X-RAY DIFFRACTION 2.888 Å
Chain IDs	D, E, F
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit B

Explore in 3D

5KND: Entity 3	Download File View File

Crystal structure of the Pi-bound V1 complex

Suzuki, K., Mizutani, K., Maruyama, S., Shimono, K., Imai, F.L., Muneyuki, E., Kakinuma, Y., Ishizuka-Katsura, Y., Shirouzu, M., Yokoyama, S., Yamato, I., Murata, T.

(2016) Nat Commun 7: 13235-13235

Released	2016-11-02
Method	X-RAY DIFFRACTION 2.888 Å
Chain ID	G
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit D

Explore in 3D

5KND: Entity 4	Download File View File

Crystal structure of the Pi-bound V1 complex

Suzuki, K., Mizutani, K., Maruyama, S., Shimono, K., Imai, F.L., Muneyuki, E., Kakinuma, Y., Ishizuka-Katsura, Y., Shirouzu, M., Yokoyama, S., Yamato, I., Murata, T.

(2016) Nat Commun 7: 13235-13235

Released	2016-11-02
Method	X-RAY DIFFRACTION 2.888 Å
Chain ID	H
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit NtpG (F)

Explore in 3D

5ZE9: Entity 1	Download File View File

Crystal structure of AMP-PNP bound mutant A3B3 complex from Enterococcus hirae V-ATPase

Maruyama, S., Suzuki, K., Sasaki, H., Mizutani, K., Saito, Y., Imai, F.L., Ishizuka-Katsura, Y., Shirouzu, M., Ichiro, Y., Murata, T.

(2019) Sci Adv 5: eaau8149-eaau8149

Released	2019-02-06
Method	X-RAY DIFFRACTION 2.102 Å
Chain IDs	A, B, C
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase catalytic subunit A

Explore in 3D

5ZE9: Entity 2	Download File View File

Crystal structure of AMP-PNP bound mutant A3B3 complex from Enterococcus hirae V-ATPase

Maruyama, S., Suzuki, K., Sasaki, H., Mizutani, K., Saito, Y., Imai, F.L., Ishizuka-Katsura, Y., Shirouzu, M., Ichiro, Y., Murata, T.

(2019) Sci Adv 5: eaau8149-eaau8149

Released	2019-02-06
Method	X-RAY DIFFRACTION 2.102 Å
Chain IDs	F, D, E
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit B

Explore in 3D

5ZEA: Entity 1	Download File View File

Crystal structure of the nucleotide-free mutant A3B3

Maruyama, S., Suzuki, K., Mizutani, K., Saito, Y., Imai, F.L., Ishizuka-Katsura, Y., Shirouzu, M., Ichiro, Y., Murata, T.

(2019) Sci Adv 5: eaau8149-eaau8149

Released	2019-02-06
Method	X-RAY DIFFRACTION 3.384 Å
Chain IDs	A, B, C, G, H
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase catalytic subunit A

Explore in 3D

5ZEA: Entity 2	Download File View File

Crystal structure of the nucleotide-free mutant A3B3

Maruyama, S., Suzuki, K., Mizutani, K., Saito, Y., Imai, F.L., Ishizuka-Katsura, Y., Shirouzu, M., Ichiro, Y., Murata, T.

(2019) Sci Adv 5: eaau8149-eaau8149

Released	2019-02-06
Method	X-RAY DIFFRACTION 3.384 Å
Chain IDs	D, E, F, J, K
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit B

Explore in 3D

6M73: Entity 1	Download File View File

Crystal structure of Enterococcus hirae L-lactate oxidase in complex with D-lactate form ligand

Yoshida, H., Hiraka, K., Tsugawa, W., Sode, K.

(2022) Protein Sci 31:

Released	2021-03-17
Method	X-RAY DIFFRACTION 1.7 Å
Chain ID	A
Organism	Enterococcus hirae ATCC 9790
Macromolecule	L-lactate oxidase

Explore in 3D

6M74: Entity 1	Download File View File

Crystal structure of Enterococcus hirae L-lactate oxidase M207L in complex with D-lactate form ligand

Yoshida, H., Hiraka, K., Tsugawa, W., Sode, K.

(2022) Protein Sci 31:

Released	2021-03-17
Method	X-RAY DIFFRACTION 1.52 Å
Chain ID	A
Organism	Enterococcus hirae ATCC 9790
Macromolecule	L-lactate oxidase

Explore in 3D

7COQ: Entity 1	Download File View File

Hexameric Ring Complex of Engineered V1-ATPase bound to AMP-PNP: A3(De)3_(ANP)1cat

Kosugi, T., Tanabe, M., Koga, N.

To be published

Released	2021-08-11
Method	X-RAY DIFFRACTION 3.44 Å
Chain IDs	A, B, C
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase catalytic subunit A

Explore in 3D

7COQ: Entity 2	Download File View File

Hexameric Ring Complex of Engineered V1-ATPase bound to AMP-PNP: A3(De)3_(ANP)1cat

Kosugi, T., Tanabe, M., Koga, N.

To be published

Released	2021-08-11
Method	X-RAY DIFFRACTION 3.44 Å
Chain IDs	D, E, F
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit B

Explore in 3D

7DQC: Entity 1	Download File View File

Crystal structure of nucleotide-free mutant A(S23C)3B(N64C)3 complex from Enterococcus hirae V-ATPase

Maruyama, S., Suzuki, K., Mizutani, K., Imai, F.L., Ishizuka-Katsura, Y., Shirouzu, M., Murata, M.

To be published

Released	2021-12-29
Method	X-RAY DIFFRACTION 2.706 Å
Chain IDs	A, B, E [auth C]
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase catalytic subunit A

Explore in 3D

7DQC: Entity 2	Download File View File

Crystal structure of nucleotide-free mutant A(S23C)3B(N64C)3 complex from Enterococcus hirae V-ATPase

Maruyama, S., Suzuki, K., Mizutani, K., Imai, F.L., Ishizuka-Katsura, Y., Shirouzu, M., Murata, M.

To be published

Released	2021-12-29
Method	X-RAY DIFFRACTION 2.706 Å
Chain IDs	C [auth D], D [auth E], F
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit B

Explore in 3D

7DQD: Entity 1	Download File View File

Crystal structure of the AMP-PNP-bound mutant A(S23C)3B(N64C)3 complex from enterococcus hirae V-ATPase

Maruyama, S., Suzuki, K., Mizutani, K., Imai, F.L., Ishizuka-Katsura, Y., Shirouzu, M., Murata, T.

To be published

Released	2021-12-29
Method	X-RAY DIFFRACTION 3.383 Å
Chain IDs	A, B, C, G [auth I], H [auth J]
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase catalytic subunit A

Explore in 3D

7DQD: Entity 2	Download File View File

Crystal structure of the AMP-PNP-bound mutant A(S23C)3B(N64C)3 complex from enterococcus hirae V-ATPase

Maruyama, S., Suzuki, K., Mizutani, K., Imai, F.L., Ishizuka-Katsura, Y., Shirouzu, M., Murata, T.

To be published

Released	2021-12-29
Method	X-RAY DIFFRACTION 3.383 Å
Chain IDs	D, E, F, J [auth L], K [auth M]
Organism	Enterococcus hirae ATCC 9790
Macromolecule	V-type sodium ATPase subunit B

Prepare Data

Validate Data

Deposit Data

Help and Resources

Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Membrane Protein Annotation

Symmetry Type

SCOP Classification