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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Source Organism Taxonomy Name (Full Lineage) = "Rhodococcus erythropolis"

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Search Summary

This query matches 87 Structures.

Refinements

Structure Determination Methodology

experimental (87)

Scientific Name of Source Organism

	Rhodococcus erythropolis (84)
	Rhodococcus erythropolis DN1 (1)
	Rhodococcus erythropolis PR4 (1)
	Rhodococcus erythropolis XP (1)

Taxonomy

Bacteria (87)

Experimental Method

X-RAY DIFFRACTION (87)

Polymer Entity Type

Protein (87)

Refinement Resolution (Å)

	1.0 - 1.5 (18)
	1.5 - 2.0 (30)
	2.0 - 2.5 (24)
	2.5 - 3.0 (12)
	3.0 - 3.5 (3)

Release Date

	1995 - 1999 (1)
	2000 - 2004 (5)
	2005 - 2009 (20)
	2010 - 2014 (17)
	2015 - 2019 (30)
	2020 - 2024 (14)

Enzyme Classification Name

	Lyases (31)
	Hydrolases (32)
	Oxidoreductases (15)

Symmetry Type

	Cyclic (52)
	Asymmetric (36)
	Dihedral (11)

SCOP Classification

	Alpha and beta proteins (a+b) (53)
	All beta proteins (27)
	Artifacts (8)
	Alpha and beta proteins (a/b) (1)
	All alpha proteins (1)

AllSelected

1 to 25 of 87 Structures

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1NU3 \| pdb_00001nu3	Download File View File

Limonene-1,2-epoxide hydrolase in complex with valpromide

Arand, M., Hallberg, B.M., Zou, J., Bergfors, T., Oesch, F., van der Werf, M.J., de Bont, J.A.M., Jones, T.A., Mowbray, S.L.

(2003) EMBO J 22: 2583-2592

Released	2003-06-10
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Rhodococcus erythropolis
Macromolecule	limonene-1,2-epoxide hydrolase (protein)
Unique Ligands	MES, VPR

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1NWW \| pdb_00001nww	Download File View File

Limonene-1,2-epoxide hydrolase

Arand, M., Hallberg, B.M., Zou, J., Bergfors, T., Oesch, F., van der Werf, M.J., de Bont, J.A.M., Jones, T.A., Mowbray, S.L.

(2003) EMBO J 22: 2583-2592

Released	2003-06-10
Method	X-RAY DIFFRACTION 1.2 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Limonene-1,2-epoxide hydrolase (protein)
Unique Ligands	HPN, MES

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1O8U \| pdb_00001o8u	Download File View File

The 2 Angstrom Structure of 6-Oxo Camphor Hydrolase: New Structural Diversity in the Crotonase Superfamily

Grogan, G., Whittingham, J.L., Turkenburg, J.P., Verma, C.S., Walsh, M.A.

(2003) J Biological Chem 278: 1744

Released	2003-01-24
Method	X-RAY DIFFRACTION 2 Å
Organisms	Rhodococcus erythropolis
Macromolecule	6-OXO CAMPHOR HYDROLASE (protein)
Unique Ligands	NA

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1Q5Q \| pdb_00001q5q	Download File View File

The Rhodococcus 20S proteasome

Kwon, Y.D., Nagy, I., Adams, P.D., Baumeister, W., Jap, B.K.

(2004) J Mol Biology 335: 233-245

Released	2003-12-16
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Rhodococcus erythropolis
Macromolecule	proteasome alpha-type subunit 1 (protein) proteasome beta-type subunit 1 (protein)

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1Q5R \| pdb_00001q5r	Download File View File

The Rhodococcus 20S proteasome with unprocessed pro-peptides

Kwon, Y.D., Nagy, I., Adams, P.D., Baumeister, W., Jap, B.K.

(2004) J Mol Biology 335: 233-245

Released	2003-12-16
Method	X-RAY DIFFRACTION 3.1 Å
Organisms	Rhodococcus erythropolis
Macromolecule	proteasome alpha-type subunit 1 (protein) proteasome beta-type subunit 1 (protein)

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2AHJ \| pdb_00002ahj	Download File View File

NITRILE HYDRATASE COMPLEXED WITH NITRIC OXIDE

Nagashima, S., Nakasako, M., Dohmae, N., Tsujimura, M., Takio, K., Odaka, M., Yohda, M., Kamiya, N., Endo, I.

(1998) Nat Struct Biol 5: 347-351

Released	1999-01-27
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Rhodococcus erythropolis
Macromolecule	NITRILE HYDRATASE (protein)
Unique Ligands	DIO, FE, NO, SO4, ZN

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2CYZ \| pdb_00002cyz	Download File View File

photo-activation state of Fe-type NHase in anaerobic condition

Kawano, Y., Hashimoto, K., Odaka, M., Nakayama, H., Takio, K., Endo, I., Kamiya, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2006-01-09
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Nitrile hydratase subunit alpha (protein) Nitrile hydratase subunit beta (protein)
Unique Ligands	FE, MG

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2CZ0 \| pdb_00002cz0	Download File View File

photo-activation state of Fe-type NHase in aerobic condition

Kawano, Y., Hashimoto, K., Odaka, M., Nakayama, H., Takio, K., Endo, I., Kamiya, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2006-01-09
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Nitrile hydratase subunit alpha (protein) Nitrile hydratase subunit beta (protein)
Unique Ligands	BUA, FE

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2CZ1 \| pdb_00002cz1	Download File View File

photo-activation state of Fe-type NHase with n-BA in anaerobic condition

Kawano, Y., Hashimoto, K., Odaka, M., Nakayama, H., Takio, K., Endo, I., Kamiya, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2006-01-09
Method	X-RAY DIFFRACTION 1.39 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Nitrile hydratase subunit alpha (protein) Nitrile hydratase subunit beta (protein)
Unique Ligands	BUA, FE, MG

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2CZ6 \| pdb_00002cz6	Download File View File

Complex of Inactive Fe-type NHase with Cyclohexyl isocyanide

Nojiri, M., Kawano, Y., Hashimoto, K., Kamiya, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2006-01-11
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Nitrile hydratase subunit alpha (protein) Nitrile hydratase subunit beta (protein)
Unique Ligands	CYI, FE, MG, NO

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2CZ7 \| pdb_00002cz7	Download File View File

Fe-type NHase photo-activated for 75min at 105K

Nojiri, M., Kawano, Y., Hashimoto, K., Kamiya, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2006-01-11
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Nitrile hydratase subunit alpha (protein) Nitrile hydratase subunit beta (protein)
Unique Ligands	FE, MG, NO

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2D0Q \| pdb_00002d0q	Download File View File

Complex of Fe-type NHase with Cyclohexyl isocyanide, photo-activated for 1hr at 277K

Nojiri, M., Kawano, Y., Hashimoto, K., Kamiya, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

To be published

Released	2006-02-05
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Nitrile hydratase subunit alpha (protein) Nitrile hydratase subunit beta (protein)
Unique Ligands	CYI, FE, MG

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2H6J \| pdb_00002h6j	Download File View File

Crystal Structure of the Beta F145A Rhodococcus Proteasome

Kwon, Y.D.

(2006) Structure 14: 1179-1188

Released	2006-08-01
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Proteasome alpha-type subunit 1 (protein) Proteasome beta-type subunit 1 (protein)

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2QDY \| pdb_00002qdy	Download File View File

Crystal Structure of Fe-type NHase from Rhodococcus erythropolis AJ270

Song, L., Shi, J., Xue, Z., Wang, M.-X., Qian, S.

(2007) Biochem Biophys Res Commun 362: 319-324

Released	2008-05-13
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Nitrile hydratase subunit alpha (protein) Nitrile hydratase subunit beta (protein)
Unique Ligands	CL, FE, GOL, IBN, MG

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2WFW \| pdb_00002wfw	Download File View File

Structure and activity of the N-terminal substrate recognition domains in proteasomal ATPases - The Arc domain structure

Djuranovic, S., Hartmann, M.D., Habeck, M., Ursinus, A., Zwickl, P., Martin, J., Lupas, A.N., Zeth, K.

(2009) Mol Cell 34: 580

Released	2009-05-12
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Rhodococcus erythropolis
Macromolecule	ARC (protein)

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2YG3 \| pdb_00002yg3	Download File View File

Structure-based redesign of cofactor binding in Putrescine Oxidase: wild type enzyme

Kopacz, M.M., Rovida, S., van Duijn, E., Fraaije, M.W., Mattevi, A.

(2011) Biochemistry 50: 4209

Released	2011-05-18
Method	X-RAY DIFFRACTION 2 Å
Organisms	Rhodococcus erythropolis
Macromolecule	PUTRESCINE OXIDASE (protein)
Unique Ligands	FAD, GOL, SO4

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2YG4 \| pdb_00002yg4	Download File View File

Structure-based redesign of cofactor binding in Putrescine Oxidase: wild type bound to Putrescine

Kopacz, M.M., Rovida, S., van Duijn, E., Fraaije, M.W., Mattevi, A.

(2011) Biochemistry 50: 4209

Released	2011-05-18
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Rhodococcus erythropolis
Macromolecule	PUTRESCINE OXIDASE (protein)
Unique Ligands	4HA, FAD, GOL, SO4

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2YG5 \| pdb_00002yg5	Download File View File

Structure-based redesign of cofactor binding in Putrescine Oxidase: A394C mutant

Kopacz, M.M., Rovida, S., van Duijn, E., Fraaije, M.W., Mattevi, A.

(2011) Biochemistry 50: 4209

Released	2011-05-18
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Rhodococcus erythropolis
Macromolecule	PUTRESCINE OXIDASE (protein)
Unique Ligands	FAD, GOL, SO4

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2YG6 \| pdb_00002yg6	Download File View File

Structure-based redesign of cofactor binding in Putrescine Oxidase: P15I-A394C double mutant

Kopacz, M.M., Rovida, S., van Duijn, E., Fraaije, M.W., Mattevi, A.

(2011) Biochemistry 50: 4209-4217

Released	2011-05-18
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Rhodococcus erythropolis
Macromolecule	PUTRESCINE OXIDASE (protein)
Unique Ligands	FAD, GOL, SO4

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2YG7 \| pdb_00002yg7	Download File View File

Structure-based redesign of cofactor binding in Putrescine Oxidase: A394C-A396T-Q431G Triple mutant

Kopacz, M.M., Rovida, S., van Duijn, E., Fraaije, M.W., Mattevi, A.

(2011) Biochemistry 50: 4209

Released	2011-05-18
Method	X-RAY DIFFRACTION 2.75 Å
Organisms	Rhodococcus erythropolis
Macromolecule	PUTRESCINE OXIDASE (protein)
Unique Ligands	FAD

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2ZCF \| pdb_00002zcf	Download File View File

Mutational study on Alpha-Gln90 of Fe-type nitrile hydratase from Rhodococcus sp. N771

Takarada, H., Kawano, Y., Hashimoto, K., Nakayama, H., Ueda, S., Yohda, M., Kamiya, N., Dohmae, N., Maeda, M., Odaka, M., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

(2006) Biosci Biotechnol Biochem 70: 881-889

Released	2007-11-20
Method	X-RAY DIFFRACTION 1.43 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Nitrile hydratase subunit alpha (protein) Nitrile hydratase subunit beta (protein)
Unique Ligands	FE, MG

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2ZPB \| pdb_00002zpb	Download File View File

nitrosylated Fe-type nitrile hydratase

Hashimoto, K., Suzuki, H., Taniguchi, K., Noguchi, T., Yohda, M., Odaka, M.

(2008) J Biological Chem 283: 36617-36623

Released	2008-10-21
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Nitrile hydratase subunit alpha (protein) Nitrile hydratase subunit beta (protein)
Unique Ligands	FE, MG, NO

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2ZPE \| pdb_00002zpe	Download File View File

nitrosylated Fe-type nitrile hydratase with tert-butylisonitrile

Hashimoto, K., Suzuki, H., Taniguchi, K., Noguchi, T., Yohda, M., Odaka, M.

(2008) J Biological Chem 283: 36617-36623

Released	2008-10-21
Method	X-RAY DIFFRACTION 1.48 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Nitrile hydratase subunit alpha (protein) Nitrile hydratase subunit beta (protein)
Unique Ligands	FE, MG, NO, TB0

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2ZPF \| pdb_00002zpf	Download File View File

Complex of Fe-type nitrile hydratase with tert-butylisonitrile, photo-activated for 18min at 293K

Hashimoto, K., Suzuki, H., Taniguchi, K., Noguchi, T., Yohda, M., Odaka, M.

(2008) J Biological Chem 283: 36617-36623

Released	2008-10-21
Method	X-RAY DIFFRACTION 1.482 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Nitrile hydratase subunit alpha (protein) Nitrile hydratase subunit beta (protein)
Unique Ligands	FE, MG, NO, TB0

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2ZPG \| pdb_00002zpg	Download File View File

Complex of Fe-type nitrile hydratase with tert-butylisonitrile, photo-activated for 120min at 293K

Hashimoto, K., Suzuki, H., Taniguchi, K., Noguchi, T., Yohda, M., Odaka, M.

(2008) J Biological Chem 283: 36617-36623

Released	2008-10-21
Method	X-RAY DIFFRACTION 1.39 Å
Organisms	Rhodococcus erythropolis
Macromolecule	Nitrile hydratase subunit alpha (protein) Nitrile hydratase subunit beta (protein)
Unique Ligands	FE, MG, TB0

1 to 25 of 87 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

Symmetry Type

SCOP Classification

1NU3 | pdb_00001nu3

1NWW | pdb_00001nww

1O8U | pdb_00001o8u

1Q5Q | pdb_00001q5q

1Q5R | pdb_00001q5r

2AHJ | pdb_00002ahj

2CYZ | pdb_00002cyz

2CZ0 | pdb_00002cz0

2CZ1 | pdb_00002cz1

2CZ6 | pdb_00002cz6

2CZ7 | pdb_00002cz7

2D0Q | pdb_00002d0q

2H6J | pdb_00002h6j

2QDY | pdb_00002qdy

2WFW | pdb_00002wfw

2YG3 | pdb_00002yg3

2YG4 | pdb_00002yg4

2YG5 | pdb_00002yg5

2YG6 | pdb_00002yg6

2YG7 | pdb_00002yg7

2ZCF | pdb_00002zcf

2ZPB | pdb_00002zpb

2ZPE | pdb_00002zpe

2ZPF | pdb_00002zpf

2ZPG | pdb_00002zpg