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233,605 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Izumi, A."

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Search Summary

This query matches 24 Structures.

Refinements

Structure Determination Methodology

experimental (24)

Scientific Name of Source Organism

	Cellvibrio japonicus (8)
	Chamberlinius hualienensis (6)
	Escherichia coli (3)
	Mycobacterium tuberculosis H37Rv (3)
	Acetivibrio thermocellus (2)
	Pseudomonas aeruginosa PAO1 (2)

Taxonomy

	Bacteria (18)
	Eukaryota (6)

Experimental Method

X-RAY DIFFRACTION (24)

Polymer Entity Type

Protein (24)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (14)
	2.0 - 2.5 (7)
	2.5 - 3.0 (2)

Release Date

	2005 - 2009 (7)
	2010 - 2014 (11)
	2020 - 2024 (6)

Enzyme Classification Name

	Hydrolases (10)
	Lyases (5)
	Transferases (3)
	Oxidoreductases (1)

Symmetry Type

	Cyclic (11)
	Asymmetric (10)
	Dihedral (3)

SCOP Classification

	Alpha and beta proteins (a+b) (3)
	All beta proteins (4)
	Alpha and beta proteins (a/b) (3)
	Artifacts (1)

AllSelected

1 to 24 of 24 Structures

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2EB4 \| pdb_00002eb4	Download File View File

Crystal structure of apo-HpcG

Izumi, A., Rea, D., Adachi, T., Unzai, S., Park, S.Y., Roper, D.I., Tame, J.R.H.

(2007) J Mol Biology 370: 899-911

Released	2007-07-17
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Escherichia coli
Macromolecule	2-oxo-hept-3-ene-1,7-dioate hydratase (protein)
Unique Ligands	NA, SCN

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2EB5 \| pdb_00002eb5	Download File View File

Crystal structure of HpcG complexed with oxalate

Izumi, A., Rea, D., Adachi, T., Unzai, S., Park, S.Y., Roper, D.I., Tame, J.R.H.

(2007) J Mol Biology 370: 899-911

Released	2007-07-17
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Escherichia coli
Macromolecule	2-oxo-hept-3-ene-1,7-dioate hydratase (protein)
Unique Ligands	MG, OXL, SCN

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2EB6 \| pdb_00002eb6	Download File View File

Crystal structure of HpcG complexed with Mg ion

Izumi, A., Rea, D., Adachi, T., Unzai, S., Park, S.Y., Roper, D.I., Tame, J.R.H.

(2007) J Mol Biology 370: 899-911

Released	2007-07-17
Method	X-RAY DIFFRACTION 1.69 Å
Organisms	Escherichia coli
Macromolecule	2-oxo-hept-3-ene-1,7-dioate hydratase (protein)
Unique Ligands	MG

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2W9X \| pdb_00002w9x	Download File View File

The active site of a carbohydrate esterase displays divergent catalytic and non-catalytic binding functions

Montanier, C., Money, V.A., Pires, V., Flint, J.E., Benedita, P.A., Goyal, A., Prates, J.A., Izumi, A., Stalbrand, H., Morland, C., Cartmell, A., Kolenova, K., Topakas, E., Dobson, E., Bolam, D.N., Davies, G.J., Fontes, C.M., Gilbert, H.J.

(2009) PLoS Biol 7: E71

Released	2009-03-24
Method	X-RAY DIFFRACTION 2 Å
Organisms	Cellvibrio japonicus
Macromolecule	PUTATIVE ACETYL XYLAN ESTERASE (protein)
Unique Ligands	GOL

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2WAA \| pdb_00002waa	Download File View File

Structure of a family two carbohydrate esterase from Cellvibrio japonicus

Montainer, C., Money, V.A., Pires, V.M.R., Flint, J.E., Pinheiro, B.A., Goyal, A., Prates, J.A.M., Izumi, A., Stalbrand, H., Kolenova, K., Topakas, E., Dodson, E.J., Bolam, D.N., Davies, G.J., Fontes, C.M.G.A., Gilbert, H.J.

(2009) PLoS Biol 7: E71

Released	2009-03-24
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Cellvibrio japonicus
Macromolecule	XYLAN ESTERASE, PUTATIVE, AXE2C (protein)
Unique Ligands	ACT, GOL

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2WAB \| pdb_00002wab	Download File View File

Structure of an active site mutant of a family two carbohydrate esterase from Clostridium thermocellum in complex with celluohexase

(2009) PLoS Biol 7: E71

Released	2009-03-24
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Acetivibrio thermocellus
Macromolecule	ENDOGLUCANASE E (protein)
Unique Ligands	GOL, IOD
Unique branched monosaccharides	BGC

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2WAO \| pdb_00002wao	Download File View File

Structure of a family two carbohydrate esterase from Clostridium thermocellum in complex with cellohexaose

(2009) PLoS Biol 7: E71

Released	2009-10-06
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Acetivibrio thermocellus
Macromolecule	ENDOGLUCANASE E (protein)
Unique Ligands	FMT
Unique branched monosaccharides	BGC

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2XVG \| pdb_00002xvg	Download File View File

crystal structure of alpha-xylosidase (GH31) from Cellvibrio japonicus

Larsbrink, J., Izumi, A., Ibatullin, F., Nakhai, A., Gilbert, H.J., Davies, G.J., Brumer, H.

(2011) Biochem J 436: 567

Released	2011-04-13
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Cellvibrio japonicus
Macromolecule	ALPHA XYLOSIDASE (protein)
Unique Ligands	CL, EDO, NI, SO4

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2XVK \| pdb_00002xvk	Download File View File

crystal structure of alpha-xylosidase (GH31) from Cellvibrio japonicus in complex with 5-fluoro-alpha-D-xylopyranosyl fluoride

Larsbrink, J., Izumi, A., Ibatullin, F., Nakhai, A., Gilbert, H.J., Davies, G.J., Brumer, H.

(2011) Biochem J 436: 567

Released	2011-04-13
Method	X-RAY DIFFRACTION 2.503 Å
Organisms	Cellvibrio japonicus
Macromolecule	ALPHA-XYLOSIDASE, PUTATIVE, XYL31A (protein)
Unique Ligands	CL, FFX, NI

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2XVL \| pdb_00002xvl	Download File View File

crystal structure of alpha-xylosidase (GH31) from Cellvibrio japonicus in complex with Pentaerythritol propoxylate (5 4 PO OH)

Larsbrink, J., Izumi, A., Ibatullin, F., Nakhai, A., Gilbert, H.J., Davies, G.J., Brumer, H.

(2011) Biochem J 436: 567

Released	2011-04-13
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Cellvibrio japonicus
Macromolecule	ALPHA-XYLOSIDASE, PUTATIVE, XYL31A (protein)
Unique Ligands	CL, NI, PXN, SO4

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4AIV \| pdb_00004aiv	Download File View File

Crystal Structure of putative NADH-dependent nitrite reductase small subunit from Mycobacterium tuberculosis

Izumi, A., Schnell, R., Schneider, G.

(2012) Proteins 80: 2799

Released	2012-09-12
Method	X-RAY DIFFRACTION 2 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	PROBABLE NITRITE REDUCTASE [NAD(P)H] SMALL SUBUNIT NIRD (protein)
Unique Ligands	GOL

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4B9Y \| pdb_00004b9y	Download File View File

Crystal Structure of Apo Agd31B, alpha-transglucosylase in Glycoside Hydrolase Family 31

Larsbrink, J., Izumi, A., Hemsworth, G.R., Davies, G.J., Brumer, H.

(2012) J Biological Chem 287: 43288

Released	2012-11-14
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Cellvibrio japonicus
Macromolecule	ALPHA-GLUCOSIDASE, PUTATIVE, ADG31B (protein)
Unique Ligands	EDO, OXL, PG4, SO4

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4B9Z \| pdb_00004b9z	Download File View File

Crystal Structure of Agd31B, alpha-transglucosylase, complexed with Acarbose

Larsbrink, J., Izumi, A., Hemsworth, G.R., Davies, G.J., Brumer, H.

(2012) J Biological Chem 287: 43288

Released	2012-11-14
Method	X-RAY DIFFRACTION 2 Å
Organisms	Cellvibrio japonicus
Macromolecule	ALPHA-GLUCOSIDASE, PUTATIVE, ADG31B (protein)
Unique Ligands	EDO, OXL, PEG, SO4
Unique branched monosaccharides	AC1, GLC

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4BA0 \| pdb_00004ba0	Download File View File

Crystal Structure of Agd31B, alpha-transglucosylase, complexed with 5F-alpha-GlcF

Larsbrink, J., Izumi, A., Hemsworth, G.R., Davies, G.J., Brumer, H.

(2012) J Biological Chem 287: 43288

Released	2012-11-14
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Cellvibrio japonicus
Macromolecule	ALPHA-GLUCOSIDASE, PUTATIVE, ADG31B (protein)
Unique Ligands	5GF, ARG, EDO, PEG, PGE, SO4

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4IP2 \| pdb_00004ip2	Download File View File

Putative Aromatic Acid Decarboxylase

Schneider, G., Brunner, K., Izumi, A., Jacewicz, A.

(2013) PLoS One 8: e63161-e63161

Released	2013-07-10
Method	X-RAY DIFFRACTION 1.95 Å
Organisms	Pseudomonas aeruginosa PAO1
Macromolecule	Aromatic Acid Decarboxylase (protein)
Unique Ligands	EDO, GOL, MG

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4IWS \| pdb_00004iws	Download File View File

Putative Aromatic Acid Decarboxylase

Jacewicz, A., Izumi, A., Brunner, K., Schneider, G.

(2013) PLoS One 8: e63161-e63161

Released	2013-05-29
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Pseudomonas aeruginosa PAO1
Macromolecule	PA0254 (protein)
Unique Ligands	SO4

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4JXB \| pdb_00004jxb	Download File View File

RipD (Rv1566c) from Mycobacterium tuberculosis: a non-catalytic NlpC/p60 domain protein, adaptation to peptidoglycan-binding function

Both, D., Steiner, E.M., Schnell, R., Schneider, G.

(2014) Biochem J 457: 33-41

Released	2013-10-30
Method	X-RAY DIFFRACTION 1.56 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Invasion-associated protein (protein)
Unique Ligands	ACT

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4LJ1 \| pdb_00004lj1	Download File View File

RipD (Rv1566c) from Mycobacterium tuberculosis: a non-catalytic NlpC/p60 domain protein with two penta-peptide repeat units (PVQQA-PVQPA)

Both, D., Steiner, E.M., Linder, D.C., Schnell, R., Schneider, G.

(2014) Biochem J 457: 33-41

Released	2013-11-06
Method	X-RAY DIFFRACTION 1.17 Å
Organisms	Mycobacterium tuberculosis H37Rv
Macromolecule	Invasion-associated protein (protein)

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6JHC \| pdb_00006jhc	Download File View File

Hydroxynitrile lyase from the millipede, Chamberlinius hualienensis (ligand free)

Motojima, F., Asano, Y.

(2021) FEBS J 288: 1679-1695

Released	2020-02-19
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Chamberlinius hualienensis
Macromolecule	Hydroxynitrile lyase (protein)
Unique Ligands	NAG

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6KFA \| pdb_00006kfa	Download File View File

Hydroxynitrile lyase from the millipede, Chamberlinius hualienensis bound with acetate

Motojima, F., Izumi, A., Asano, Y.

(2021) FEBS J 288: 1679-1695

Released	2020-07-08
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Chamberlinius hualienensis
Macromolecule	Hydroxynitrile lyase (protein)
Unique Ligands	ACT, NAG

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6KFB \| pdb_00006kfb	Download File View File

Hydroxynitrile lyase from the millipede, Chamberlinius hualienensis bound with thiocyanate

Motojima, F., Izumi, A., Asano, Y.

(2021) FEBS J 288: 1679-1695

Released	2020-07-08
Method	X-RAY DIFFRACTION 1.55 Å
Organisms	Chamberlinius hualienensis
Macromolecule	Hydroxynitrile lyase (protein)
Unique Ligands	SCN
Unique branched monosaccharides	FUC, NAG

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6KFC \| pdb_00006kfc	Download File View File

Hydroxynitrile lyase from the millipede, Chamberlinius hualienensis, complexed with cyanide ion

Motojima, F., Izumi, A., Asano, Y.

(2021) FEBS J 288: 1679-1695

Released	2020-07-08
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Chamberlinius hualienensis
Macromolecule	Hydroxynitrile lyase (protein)
Unique Ligands	CYN, NAG
Unique branched monosaccharides	FUC, NAG