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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Noguchi, H."

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Search Summary

This query matches 135 Structures.

Refinements

Structure Determination Methodology

experimental (135)

Scientific Name of Source Organism

	synthetic construct (68)
	Metapseudomonas resinovorans (17)
	Janthinobacterium sp. J3 (14)
	Cannabis sativa (9)
	Tetradium ruticarpum (5)
	Rattus norvegicus (4)
	Aloe arborescens (3)
	Janthinobacterium (3)
	Mammuthus primigenius (3)
	Rheum palmatum (3)

More...

Taxonomy

	other sequences (68)
	Eukaryota (35)
	Bacteria (24)
	Archaea (2)

Experimental Method

X-RAY DIFFRACTION (135)

Polymer Entity Type

Protein (135)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (31)
	1.5 - 2.0 (67)
	2.0 - 2.5 (29)
	2.5 - 3.0 (5)
	3.0 - 3.5 (2)

Release Date

	2005 - 2009 (10)
	2010 - 2014 (31)
	2015 - 2019 (44)
	2020 - 2024 (50)

Enzyme Classification Name

	Oxidoreductases (18)
	Transferases (12)
	Lyases (9)
	Hydrolases (5)
	Ligases (1)

Symmetry Type

	Asymmetric (69)
	Cyclic (65)
	Dihedral (1)

SCOP Classification

	Alpha and beta proteins (a/b) (18)
	Alpha and beta proteins (a+b) (15)
	All beta proteins (6)
	Artifacts (11)
	All alpha proteins (3)

AllSelected

1 to 25 of 135 Structures

Page 1 of 6

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1VCK \| pdb_00001vck	Download File View File

Crystal structure of ferredoxin component of carbazole 1,9a-dioxygenase of Pseudomonas resinovorans strain CA10

Nam, J.-W., Noguchi, H., Fujiomoto, Z., Mizuno, H., Fushinobu, S., Kobashi, N., Iwata, K., Yoshida, T., Habe, H., Yamane, H., Omori, T., Nojiri, H.

(2005) Proteins 58: 779-789

Released	2005-03-01
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Metapseudomonas resinovorans
Macromolecule	ferredoxin component of carbazole (protein)
Unique Ligands	FE, FES, H2S

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1WW9 \| pdb_00001ww9	Download File View File

Crystal structure of the terminal oxygenase component of carbazole 1,9a-dioxygenase, a non-heme iron oxygenase system catalyzing the novel angular dioxygenation for carbazole and dioxin

Nojiri, H., Ashikawa, Y., Noguchi, H., Nam, J.-W., Urata, M., Fujimoto, Z., Mizuno, H., Yoshida, T., Habe, H., Omori, T.

(2005) J Mol Biology 351: 355-370

Released	2005-08-23
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Janthinobacterium sp. J3
Macromolecule	terminal oxygenase component of carbazole (protein)
Unique Ligands	FE2, FES

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2D3M \| pdb_00002d3m	Download File View File

Pentaketide chromone synthase complexed with coenzyme A

Morita, H., Kondo, S., Oguro, S., Noguchi, H., Sugio, S., Abe, I., Kohno, T.

(2007) Chem Biol 14: 359-369

Released	2006-10-24
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Aloe arborescens
Macromolecule	pentaketide chromone synthase (protein)
Unique Ligands	COA

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2D51 \| pdb_00002d51	Download File View File

Pentaketide chromone synthase (M207G mutant)

Kohno, T., Morita, H.

(2007) Chem Biol 14: 359-369

Released	2006-11-14
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Aloe arborescens
Macromolecule	pentaketide chromone synthase (protein)

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2D52 \| pdb_00002d52	Download File View File

Pentaketide chromone synthase (M207G mutant complexed with Coa)

Kohno, T., Morita, H.

(2007) Chem Biol 14: 359-369

Released	2006-11-14
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Aloe arborescens
Macromolecule	pentaketide chromone synthase (protein)
Unique Ligands	COA

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2DE5 \| pdb_00002de5	Download File View File

Crystal structure of the electron transfer complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase

Ashikawa, Y., Nojiri, H.

(2006) Structure 14: 1779-1789

Released	2006-12-05
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Janthinobacterium Metapseudomonas resinovorans
Macromolecule	ferredoxin component of carbazole (protein) terminal oxygenase component of carbazole (protein)
Unique Ligands	FE2, FES

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2DE6 \| pdb_00002de6	Download File View File

The reduced complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase

Ashikawa, Y., Nojiri, H.

(2006) Structure 14: 1779-1789

Released	2006-12-05
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Janthinobacterium Metapseudomonas resinovorans
Macromolecule	ferredoxin component of carbazole (protein) terminal oxygenase component of carbazole (protein)
Unique Ligands	FE2, FES

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2DE7 \| pdb_00002de7	Download File View File

The substrate-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase

Ashikawa, Y., Nojiri, H.

(2006) Structure 14: 1779-1789

Released	2006-12-05
Method	X-RAY DIFFRACTION 2 Å
Organisms	Janthinobacterium Metapseudomonas resinovorans
Macromolecule	ferredoxin component of carbazole (protein) terminal oxygenase component of carbazole (protein)
Unique Ligands	9CA, FE2, FES

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3A5Q \| pdb_00003a5q	Download File View File

Benzalacetone synthase from Rheum palmatum

Morita, H., Kato, R., Abe, I., Sugio, S., Kohno, T.

(2010) Proc Natl Acad Sci U S A 107: 669-673

Released	2010-01-26
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Rheum palmatum
Macromolecule	Benzalacetone synthase (protein)

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3A5R \| pdb_00003a5r	Download File View File

Benzalacetone synthase from Rheum palmatum complexed with 4-coumaroyl-primed monoketide intermediate

Morita, H., Kato, R., Abe, I., Sugio, S., Kohno, T.

(2010) Proc Natl Acad Sci U S A 107: 669-673

Released	2010-01-26
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Rheum palmatum
Macromolecule	Benzalacetone synthase (protein)
Unique Ligands	HC4

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3A5S \| pdb_00003a5s	Download File View File

Benzalacetone synthase (I207L/L208F)

Morita, H., Kato, R., Abe, I., Sugio, S., Kohno, T.

(2010) Proc Natl Acad Sci U S A 107: 669-673

Released	2010-01-26
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Rheum palmatum
Macromolecule	Benzalacetone synthase (protein)

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3GCE \| pdb_00003gce	Download File View File

Ferredoxin of carbazole 1,9a-dioxygenase from Nocardioides aromaticivorans IC177

Inoue, K., Nojiri, H.

(2009) J Mol Biology 392: 436-451

Released	2009-09-15
Method	X-RAY DIFFRACTION 2 Å
Organisms	Nocardioides aromaticivorans
Macromolecule	Ferredoxin component of carbazole 1,9a-dioxygenase (protein)
Unique Ligands	FES

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3GCF \| pdb_00003gcf	Download File View File

Terminal oxygenase of carbazole 1,9a-dioxygenase from Nocardioides aromaticivorans IC177

Inoue, K., Nojiri, H.

(2009) J Mol Biology 392: 436-451

Released	2009-09-15
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Nocardioides aromaticivorans
Macromolecule	Terminal oxygenase component of carbazole 1,9a-dioxygenase (protein)
Unique Ligands	CL, FE2, FES

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3GKQ \| pdb_00003gkq	Download File View File

Terminal oxygenase of carbazole 1,9a-dioxygenase from Novosphingobium sp. KA1

Umeda, T., Nojiri, H.

To be published

Released	2010-03-31
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Novosphingobium sp. KA1
Macromolecule	Terminal oxygenase component of carbazole 1,9a-dioxygenase (protein)
Unique Ligands	FE2, FES

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3VMG \| pdb_00003vmg	Download File View File

Reduced carbazole-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase

Ashikawa, Y., Nojiri, H.

(2012) BMC Struct Biol 12: 15-15

Released	2012-08-22
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Janthinobacterium sp. J3 Metapseudomonas resinovorans
Macromolecule	Ferredoxin component of carbazole (protein) Terminal oxygenase component of carbazole (protein)
Unique Ligands	9CA, FE2, FES

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3VMH \| pdb_00003vmh	Download File View File

Oxygen-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase

Ashikawa, Y., Nojiri, H.

(2012) BMC Struct Biol 12: 15-15

Released	2012-08-22
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Janthinobacterium sp. J3 Metapseudomonas resinovorans
Macromolecule	Ferredoxin component of carbazole (protein) Terminal oxygenase component of carbazole (protein)
Unique Ligands	FE2, FES, OXY

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3VMI \| pdb_00003vmi	Download File View File

Carbazole- and oxygen-bound complex between oxygenase and ferredoxin in carbazole 1,9a-dioxygenase

Ashikawa, Y., Nojiri, H.

(2012) BMC Struct Biol 12: 15-15

Released	2012-08-22
Method	X-RAY DIFFRACTION 2 Å
Organisms	Janthinobacterium sp. J3 Metapseudomonas resinovorans
Macromolecule	Ferredoxin component of carbazole (protein) Terminal oxygenase component of carbazole (protein)
Unique Ligands	9CA, FE2, FES, OXY

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3VRE \| pdb_00003vre	Download File View File

The crystal structure of hemoglobin from woolly mammoth in the deoxy form

Noguchi, H., Campbell, K.L., Ho, C., Park, S.-Y., Tame, J.R.H.

(2012) Acta Crystallogr D Biol Crystallogr 68: 1441-1449

Released	2012-11-07
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Mammuthus primigenius
Macromolecule	Hemoglobin subunit alpha (protein) Hemoglobin subunit beta/delta hybrid (protein)
Unique Ligands	HEM

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3VRF \| pdb_00003vrf	Download File View File

The crystal structure of hemoglobin from woolly mammoth in the carbonmonoxy forms

Noguchi, H., Campbell, K.L., Ho, C., Park, S.-Y., Tame, J.R.H.

(2012) Acta Crystallogr D Biol Crystallogr 68: 1441-1449

Released	2012-11-07
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Mammuthus primigenius
Macromolecule	Hemoglobin subunit alpha (protein) Hemoglobin subunit beta/delta hybrid (protein)
Unique Ligands	CMO, HEM

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3VRG \| pdb_00003vrg	Download File View File

The crystal structure of hemoglobin from woolly mammoth in the met form

Noguchi, H., Campbell, K.L., Ho, C., Park, S.-Y., Tame, J.R.H.

(2012) Acta Crystallogr D Biol Crystallogr 68: 1441-1449

Released	2012-11-07
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Mammuthus primigenius
Macromolecule	Hemoglobin subunit alpha (protein) Hemoglobin subunit beta/delta hybrid (protein)
Unique Ligands	HEM, SO4

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3VUS \| pdb_00003vus	Download File View File

Escherichia coli PgaB N-terminal domain

Nishiyama, T., Noguchi, H., Yoshida, H., Park, S.-Y., Tame, J.R.H.

(2013) Acta Crystallogr D Biol Crystallogr 69: 44-51

Released	2012-11-14
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Escherichia coli K-12
Macromolecule	Poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase (protein)
Unique Ligands	ACT, HG, ZN

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3WD7 \| pdb_00003wd7	Download File View File

Type III polyketide synthase

Mori, T., Shimokawa, Y., Matsui, T., Kato, R., Sugio, S., Morita, H., Abe, I.

To be published

Released	2013-09-04
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Citrus x microcarpa
Macromolecule	Type III polyketide synthases acridone synthase (protein)
Unique Ligands	COA, NI, SO4

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3WD8 \| pdb_00003wd8	Download File View File

TypeIII polyketide synthases

Mori, T., Shimokawa, Y., Matsui, T., Morita, H., Abe, I.

To be published

Released	2013-09-04
Method	X-RAY DIFFRACTION 2.463 Å
Organisms	Citrus x microcarpa
Macromolecule	Type III polyketide synthase quinolone synthase (protein)
Unique Ligands	GOL