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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Muraki, N."

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Search Summary

This query matches 60 Structures.

Refinements

Structure Determination Methodology

experimental (60)

Scientific Name of Source Organism

	Corynebacterium glutamicum ATCC 13032 (9)
	Aquifex aeolicus VF5 (8)
	Canis lupus familiaris (6)
	Rhodobacter capsulatus (6)
	Clostridium pasteurianum (5)
	Streptococcus agalactiae NEM316 (4)
	Zea mays (4)
	Bacillus sp. OxB-1 (3)
	Chlamydomonas reinhardtii (3)
	Thermosynechococcus vestitus BP-1 (3)

More...

Taxonomy

	Bacteria (44)
	Eukaryota (16)

Experimental Method

X-RAY DIFFRACTION (60)

Polymer Entity Type

	Protein (60)
	DNA (1)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (12)
	1.5 - 2.0 (16)
	2.0 - 2.5 (19)
	2.5 - 3.0 (9)
	3.0 - 3.5 (1)
	3.5 - 4.0 (1)
	4.0 - 4.5 (1)

Release Date

	2010 - 2014 (15)
	2015 - 2019 (26)
	2020 - 2024 (19)

Enzyme Classification Name

	Oxidoreductases (26)
	Lyases (3)
	Hydrolases (1)

Membrane Protein Annotation

OPM (1)

Symmetry Type

	Asymmetric (36)
	Cyclic (25)

SCOP Classification

	Alpha and beta proteins (a+b) (12)
	Alpha and beta proteins (a/b) (8)
	All beta proteins (4)
	Artifacts (5)
	All alpha proteins (1)

AllSelected

1 to 25 of 60 Structures

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3AB1 \| pdb_00003ab1	Download File View File

Crystal Structure of Ferredoxin NADP+ Oxidoreductase

Muraki, N., Seo, D., Kurisu, G.

(2010) J Mol Biology 401: 403-414

Released	2010-11-24
Method	X-RAY DIFFRACTION 2.39 Å
Organisms	Chlorobaculum tepidum
Macromolecule	Ferredoxin--NADP reductase (protein)
Unique Ligands	FAD

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3AEK \| pdb_00003aek	Download File View File

Structure of the light-independent protochlorophyllide reductase catalyzing a key reduction for greening in the dark

Muraki, N., Nomata, J., Shiba, T., Fujita, Y., Kurisu, G.

(2010) Nature 465: 110-114

Released	2010-04-21
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Rhodobacter capsulatus
Macromolecule	Light-independent protochlorophyllide reductase subunit B (protein) Light-independent protochlorophyllide reductase subunit N (protein)
Unique Ligands	PMR, SF4

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3AEQ \| pdb_00003aeq	Download File View File

Structure of the light-independent protochlorophyllide reductase catalyzing a key reduction for greening in the dark

Muraki, N., Nomata, J., Shiba, T., Fujita, Y., Kurisu, G.

(2010) Nature 465: 110-114

Released	2010-04-21
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Rhodobacter capsulatus
Macromolecule	Light-independent protochlorophyllide reductase subunit B (protein) Light-independent protochlorophyllide reductase subunit N (protein)
Unique Ligands	PMR, SF4

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3AER \| pdb_00003aer	Download File View File

Structure of the light-independent protochlorophyllide reductase catalyzing a key reduction for greening in the dark

Muraki, N., Nomata, J., Shiba, T., Fujita, Y., Kurisu, G.

(2010) Nature 465: 110-114

Released	2010-04-21
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Rhodobacter capsulatus
Macromolecule	Light-independent protochlorophyllide reductase subunit B (protein) Light-independent protochlorophyllide reductase subunit N (protein)
Unique Ligands	SF4

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3AES \| pdb_00003aes	Download File View File

Structure of the light-independent protochlorophyllide reductase catalyzing a key reduction for greening in the dark

Muraki, N., Nomata, J., Shiba, T., Fujita, Y., Kurisu, G.

(2010) Nature 465: 110-114

Released	2010-04-21
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Rhodobacter capsulatus
Macromolecule	Light-independent protochlorophyllide reductase subunit B (protein) Light-independent protochlorophyllide reductase subunit N (protein)
Unique Ligands	SF4

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3AET \| pdb_00003aet	Download File View File

Structure of the light-independent protochlorophyllide reductase catalyzing a key reduction for greening in the dark

Muraki, N., Nomata, J., Shiba, T., Fujita, Y., Kurisu, G.

(2010) Nature 465: 110-114

Released	2010-04-21
Method	X-RAY DIFFRACTION 2.91 Å
Organisms	Rhodobacter capsulatus
Macromolecule	Light-independent protochlorophyllide reductase subunit B (protein) Light-independent protochlorophyllide reductase subunit N (protein)
Unique Ligands	SF4

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3AEU \| pdb_00003aeu	Download File View File

Structure of the light-independent protochlorophyllide reductase catalyzing a key reduction for greening in the dark

Muraki, N., Nomata, J., Shiba, T., Fujita, Y., Kurisu, G.

(2010) Nature 465: 110-114

Released	2010-04-21
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Rhodobacter capsulatus
Macromolecule	Light-independent protochlorophyllide reductase subunit B (protein) Light-independent protochlorophyllide reductase subunit N (protein)
Unique Ligands	SF4

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3VO1 \| pdb_00003vo1	Download File View File

Crystal structure of Zea mays leaf ferredoxin-NADP+ reductase II

Muraki, N., Hase, T., Kurisu, G.

(2012) Plant Cell 24: 2979-2991

Released	2012-12-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	Zea mays
Macromolecule	Ferredoxin (protein)
Unique Ligands	FAD

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3VO2 \| pdb_00003vo2	Download File View File

Crystal structure of Zea mays leaf ferredoxin-NADP+ reductase III

Muraki, N., Hase, T., Kurisu, G.

(2012) Plant Cell 24: 2979-2991

Released	2012-12-05
Method	X-RAY DIFFRACTION 1.39 Å
Organisms	Zea mays
Macromolecule	Putative uncharacterized protein (protein)
Unique Ligands	FAD

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3VV4 \| pdb_00003vv4	Download File View File

Crystal structure of cyanobacteriochrome TePixJ GAF domain

Ishizuka, T., Narikawa, R., Muraki, N., Shiba, T., Kurisu, G., Ikeuchi, M.

(2013) Proc Natl Acad Sci U S A 110: 918-923

Released	2013-01-30
Method	X-RAY DIFFRACTION 2 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	Methyl-accepting chemotaxis protein (protein)
Unique Ligands	PVG, SO4

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3W2Z \| pdb_00003w2z	Download File View File

Crystal structure of the cyanobacterial protein

Narikawa, R., Muraki, N., Shiba, T., Kurisu, G., Ikeuchi, M.

(2013) Proc Natl Acad Sci U S A 110: 918-923

Released	2013-01-30
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Nostoc sp. PCC 7120 = FACHB-418
Macromolecule	Methyl-accepting chemotaxis protein (protein)
Unique Ligands	CYC, IOD

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3W5U \| pdb_00003w5u	Download File View File

Cross-linked complex between Ferredoxin and Ferredoxin-NADP+ reductase

Kimata-Ariga, Y., Kubota-Kawai, H., Muraki, N., Hase, T., Kurisu, G.

(2013) Biochem Biophys Res Commun 434: 867-872

Released	2013-06-19
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Zea mays
Macromolecule	Ferredoxin (protein) Ferredoxin-1, chloroplastic (protein)
Unique Ligands	FAD, FES

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3W5V \| pdb_00003w5v	Download File View File

Cross-linked complex between Ferredoxin and Ferredoxin-NADP+ reductase

Kimata-Ariga, Y., Kubota-Kawai, H., Muraki, N., Hase, T., Kurisu, G.

(2013) Biochem Biophys Res Commun 434: 867-872

Released	2013-06-19
Method	X-RAY DIFFRACTION 3.81 Å
Organisms	Zea mays
Macromolecule	Ferredoxin (protein) Ferredoxin-1, chloroplastic (protein)
Unique Ligands	FAD, FES

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3W6Q \| pdb_00003w6q	Download File View File

Crystal structure of melB apo-protyrosinase from Asperugillus oryzae

Fujieda, N., Yabuta, S., Ikeda, T., Oyama, T., Muraki, N., Kurisu, G., Itoh, S.

(2013) J Biological Chem 288: 22128-22140

Released	2013-06-19
Method	X-RAY DIFFRACTION 2.052 Å
Organisms	Aspergillus oryzae
Macromolecule	tyrosinase (protein)

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3W6W \| pdb_00003w6w	Download File View File

Crystal structure of melB holo-protyrosinase from Asperugillus oryzae

Fujieda, N., Yabuta, S., Ikeda, T., Oyama, T., Muraki, N., Kurisu, G., Itoh, S.

(2013) J Biological Chem 288: 22128-22140

Released	2013-06-19
Method	X-RAY DIFFRACTION 1.394 Å
Organisms	Aspergillus oryzae
Macromolecule	Tyrosinase (protein)
Unique Ligands	CU

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4XDC \| pdb_00004xdc	Download File View File

Active semisynthetic [FeFe]-hydrogenase CpI with aza-dithiolato-bridged [2Fe] cofactor

Esselborn, J., Hofmann, E., Kurisu, G., Happe, T.

(2016) Chem Sci 7: 959-968

Released	2015-11-11
Method	X-RAY DIFFRACTION 1.63 Å
Organisms	Clostridium pasteurianum
Macromolecule	Iron hydrogenase 1 (protein)
Unique Ligands	402, FES, MG, SF4

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4XDD \| pdb_00004xdd	Download File View File

Apo [FeFe]-Hydrogenase CpI

Esselborn, J., Hofmann, E., Kurisu, G., Happe, T.

(2016) Chem Sci 7: 959-968

Released	2015-11-11
Method	X-RAY DIFFRACTION 1.599 Å
Organisms	Clostridium pasteurianum
Macromolecule	Iron hydrogenase 1 (protein)
Unique Ligands	CL, FES, GOL, MG, SF4

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5AUI \| pdb_00005aui	Download File View File

Crystal structure of Ferredoxin from Thermosynechococcus elongatus

Kurisu, G., Shinmura, K.

(2015) Biochemistry 54: 6052-6061

Released	2015-09-23
Method	X-RAY DIFFRACTION 1.499 Å
Organisms	Thermosynechococcus vestitus BP-1
Macromolecule	Ferredoxin-1 (protein)
Unique Ligands	BEN, FES

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5AUK \| pdb_00005auk	Download File View File

Crystal structure of the Ga-substituted Ferredoxin

Kurisu, G., Muraki, N., Taya, M., Hase, T.

(2015) Biochemistry 54: 6052-6061

Released	2015-09-23
Method	X-RAY DIFFRACTION 1.62 Å
Organisms	Synechocystis sp. PCC 6803 substr. Kazusa
Macromolecule	Ferredoxin-1 (protein)
Unique Ligands	BEN, GAK, SO4

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5AZ3 \| pdb_00005az3	Download File View File

Crystal structure of heme binding protein HmuT

Muraki, N., Aono, S.

(2015) Chem Lett

Released	2015-11-18
Method	X-RAY DIFFRACTION 1.423 Å
Organisms	Corynebacterium glutamicum ATCC 13032
Macromolecule	ABC-type transporter, periplasmic component (protein)
Unique Ligands	HEM

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5B4Z \| pdb_00005b4z	Download File View File

Crystal structure of heme binding protein HmuT H141A mutant

Muraki, N., Aono, S.

(2016) Int J Mol Sci 17:

Released	2017-03-01
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Corynebacterium glutamicum ATCC 13032
Macromolecule	ABC-type transporter, periplasmic component (protein)
Unique Ligands	HEM

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5B50 \| pdb_00005b50	Download File View File

Crystal structure of heme binding protein HmuT Y240A

Muraki, N., Aono, S.

(2016) Int J Mol Sci 17:

Released	2017-03-01
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Corynebacterium glutamicum ATCC 13032
Macromolecule	ABC-type transporter, periplasmic component (protein)
Unique Ligands	HEM

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5B51 \| pdb_00005b51	Download File View File

Crystal structure of heme binding protein HmuT R242A mutant

Muraki, N., Aono, S.

(2016) Int J Mol Sci 17:

Released	2017-03-01
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Corynebacterium glutamicum ATCC 13032
Macromolecule	ABC-type transporter, periplasmic component (protein)
Unique Ligands	HEM

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5BYQ \| pdb_00005byq	Download File View File

Semisynthetic [FeFe]-hydrogenase CpI with oxodithiolato-bridged [2Fe] cofactor

Esselborn, J., Muraki, N., Engelbrecht, V., Hofmann, E., Kurisu, G., Happe, T.

(2016) Chem Sci 7: 959-968

Released	2015-11-11
Method	X-RAY DIFFRACTION 1.73 Å
Organisms	Clostridium pasteurianum
Macromolecule	Iron hydrogenase 1 (protein)
Unique Ligands	4WV, FES, GOL, MG, SF4

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5BYR \| pdb_00005byr	Download File View File

Semisynthetic [FeFe]-hydrogenase CpI with propane-dithiolato-bridged [2Fe] cofactor

Esselborn, J., Muraki, N., Engelbrecht, V., Hofmann, E., Kurisu, G., Happe, T.

(2016) Chem Sci 7: 959-968

Released	2015-11-11
Method	X-RAY DIFFRACTION 1.82 Å
Organisms	Clostridium pasteurianum
Macromolecule	Iron hydrogenase 1 (protein)
Unique Ligands	4WW, FES, GOL, MG, SF4

1 to 25 of 60 Structures

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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

Membrane Protein Annotation

Symmetry Type

SCOP Classification

3AB1 | pdb_00003ab1

3AEK | pdb_00003aek

3AEQ | pdb_00003aeq

3AER | pdb_00003aer

3AES | pdb_00003aes

3AET | pdb_00003aet

3AEU | pdb_00003aeu

3VO1 | pdb_00003vo1

3VO2 | pdb_00003vo2

3VV4 | pdb_00003vv4

3W2Z | pdb_00003w2z

3W5U | pdb_00003w5u

3W5V | pdb_00003w5v

3W6Q | pdb_00003w6q

3W6W | pdb_00003w6w

4XDC | pdb_00004xdc

4XDD | pdb_00004xdd

5AUI | pdb_00005aui

5AUK | pdb_00005auk

5AZ3 | pdb_00005az3

5B4Z | pdb_00005b4z

5B50 | pdb_00005b50

5B51 | pdb_00005b51

5BYQ | pdb_00005byq

5BYR | pdb_00005byr