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234,136 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Citation Author = "Tondi, D."

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Search Summary

This query matches 301 Structures.

Refinements

Structure Determination Methodology

experimental (301)

Scientific Name of Source Organism

	Bacteroides thetaiotaomicron VPI-5482 (62)
	Bacteroides thetaiotaomicron (27)
	Homo sapiens (23)
	Pseudomonas aeruginosa PAO1 (13)
	Methylosinus trichosporium OB3b (11)
	Halothiobacillus neapolitanus (7)
	Ruminococcus flavefaciens FD-1 (7)
	Staphylococcus aureus (7)
	[Eubacterium] cellulosolvens (7)
	Acetivibrio thermocellus (6)

More...

Taxonomy

	Bacteria (266)
	Eukaryota (32)
	Archaea (3)
	Duplodnaviria (2)

Experimental Method

	X-RAY DIFFRACTION (254)
	ELECTRON MICROSCOPY (45)
	ELECTRON CRYSTALLOGRAPHY (1)
	SOLUTION NMR (1)

Polymer Entity Type

	Protein (301)
	RNA (7)

Refinement Resolution (Å)

	0.5 - 1.0 (4)
	1.0 - 1.5 (35)
	1.5 - 2.0 (77)
	2.0 - 2.5 (65)
	2.5 - 3.0 (68)
	3.0 - 3.5 (38)
	3.5 - 4.0 (9)
	4.0 - 4.5 (2)
	> 4.5 (1)

Release Date

	2005 - 2009 (4)
	2010 - 2014 (33)
	2015 - 2019 (127)
	2020 - 2024 (134)
	2025 - 2029 (3)

Enzyme Classification Name

	Oxidoreductases (28)
	Hydrolases (29)
	Lyases (9)
	Transferases (7)
	Isomerases (5)
	Translocases (3)

Membrane Protein Annotation

	PDBTM (74)
	MemProtMD (61)
	mpstruc (52)
	OPM (35)

Symmetry Type

	Asymmetric (172)
	Cyclic (107)
	Dihedral (17)
	Icosahedral (6)

SCOP Classification

	All alpha proteins (10)
	Alpha and beta proteins (a+b) (13)
	Membrane and cell surface proteins and peptides (9)
	Artifacts (5)
	Alpha and beta proteins (a/b) (4)

AllSelected

1 to 25 of 301 Structures

Page 1 of 13

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2BAS \| pdb_00002bas	Download File View File

Crystal Structure of the Bacillus subtilis YkuI Protein, with an EAL Domain.

Minasov, G., Brunzelle, J.S., Shuvalova, L., Miller, D.J., Collart, F.R., Joachimiak, A., Anderson, W.F., Midwest Center for Structural Genomics (MCSG)

(2009) J Biological Chem 284: 13174-13184

Released	2005-11-29
Method	X-RAY DIFFRACTION 2.61 Å
Organisms	Bacillus subtilis
Macromolecule	YkuI protein (protein)
Unique Ligands	BME

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2J1N \| pdb_00002j1n	Download File View File

osmoporin OmpC

Basle, A., Storici, P., Rummel, G., Rosenbusch, J.P., Schirmer, T.

(2006) J Mol Biology 362: 933

Released	2006-09-06
Method	X-RAY DIFFRACTION 2 Å
Organisms	Escherichia coli
Macromolecule	OUTER MEMBRANE PROTEIN C (protein)
Unique Ligands	CL, D12, MG

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2W27 \| pdb_00002w27	Download File View File

CRYSTAL STRUCTURE OF THE BACILLUS SUBTILIS YKUI PROTEIN, WITH AN EAL DOMAIN, IN COMPLEX WITH SUBSTRATE C-DI-GMP AND CALCIUM

Padavattan, S., AndERSON, W.F., Schirmer, T.

(2009) J Biological Chem 284: 13174

Released	2009-02-24
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Bacillus subtilis
Macromolecule	YKUI PROTEIN (protein)
Unique Ligands	5GP, CA

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2WQL \| pdb_00002wql	Download File View File

CRYSTAL STRUCTURE OF THE MAJOR CARROT ALLERGEN DAU C 1

Markovic-Housley, Z., Basle, A., Padavattan, S., Hoffmann-Sommergruber, K., Schirmer, T.

(2009) Acta Crystallogr D Biol Crystallogr 65: 1206

Released	2009-09-01
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Daucus carota
Macromolecule	MAJOR ALLERGEN DAU C 1 (protein)
Unique Ligands	CL, P4C, PEG

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2XJH \| pdb_00002xjh	Download File View File

Structure and Copper-binding Properties of Methanobactins from Methylosinus trichosporium OB3b

El-Ghazouani, A., Basle, A., Firbank, S.J., Knapp, C.W., Gray, J., Graham, D.W., Dennison, C.

(2011) Inorg Chem 50: 1378

Released	2011-02-02
Method	X-RAY DIFFRACTION 0.92 Å
Organisms	Methylosinus trichosporium OB3b
Macromolecule	METHANOBACTIN MB-OB3B (protein)
Unique Ligands	CU, NA

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2XJI \| pdb_00002xji	Download File View File

Structure and Copper-binding Properties of Methanobactins from Methylosinus trichosporium OB3b

El-Ghazouani, A., Basle, A., Firbank, S.J., Knapp, C.W., Gray, J., Graham, D.W., Dennison, C.

(2011) Inorg Chem 50: 1378

Released	2011-02-02
Method	X-RAY DIFFRACTION 1 Å
Organisms	Methylosinus trichosporium OB3b
Macromolecule	METHANOBACTIN MB-OB3B (protein)
Unique Ligands	CU

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2YB7 \| pdb_00002yb7	Download File View File

CBM62 in complex with 6-alpha-D-Galactosyl-mannotriose

Montanier, C.Y., Correia, M.A.S., Flint, J.E., Zhu, Y., McKee, L.S., Prates, J.A.M., Polizzi, S.J., Coutinho, P.M., Henrissat, B., Fontes, C.M.G.A., Gilbert, H.J.

(2011) J Biological Chem 286: 22499

Released	2011-08-17
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Acetivibrio thermocellus
Macromolecule	CARBOHYDRATE BINDING FAMILY 6 (protein)
Unique Ligands	CA, GOL
Unique branched monosaccharides	BMA, GLA

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2YFU \| pdb_00002yfu	Download File View File

CBM62 FROM CLOSTRIDIUM THERMOCELLUM XYL5A

Montanier, C.Y., Correia, M.A.S., Flint, J.E., Zhu, Y., Basle, A., Mckee, L.S., Prates, J.A.M., Polizzi, S.J., Coutinho, P.M., Henrissat, B., Fontes, C.M.G.A., Gilbert, H.J.

(2011) J Biological Chem 286: 22499

Released	2011-05-18
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Acetivibrio thermocellus
Macromolecule	CARBOHYDRATE BINDING FAMILY 6 (protein)
Unique Ligands	CA, GOL

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2YFZ \| pdb_00002yfz	Download File View File

CBM62 FROM CLOSTRIDIUM THERMOCELLUM XYL5A

Montanier, C.Y., Correia, M.A.S., Flint, J.E., Zhu, Y., Basle, A., Mckee, L.S., Prates, J.A.M., Polizzi, S.J., Coutinho, P.M., Henrissat, B., Fontes, C.M.G.A., Gilbert, H.J.

(2011) J Biological Chem 286: 22499

Released	2011-05-18
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Acetivibrio thermocellus
Macromolecule	CARBOHYDRATE BINDING FAMILY 6 (protein)
Unique Ligands	CA, GOL
Unique branched monosaccharides	BGC, GAL, XYS

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2YG0 \| pdb_00002yg0	Download File View File

CBM62 FROM CLOSTRIDIUM THERMOCELLUM XYL5A

Montanier, C.Y., Correia, M.A.S., Flint, J.E., Zhu, Y., Basle, A., Mckee, L.S., Prates, J.A.M., Polizzi, S.J., Coutinho, P.M., Henrissat, B., Fontes, C.M.G.A., Gilbert, H.J.

(2011) J Biological Chem 286: 22499

Released	2011-05-18
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Acetivibrio thermocellus
Macromolecule	CARBOHYDRATE BINDING FAMILY 6 (protein)
Unique Ligands	CA, GOL
Unique branched monosaccharides	BMA, GLA

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2YGI \| pdb_00002ygi	Download File View File

Methanobactin HM1

Ghazouani, A., Basle, A., Firbank, S.J., Gray, J., Dennison, C.

(2012) Proc Natl Acad Sci U S A 109: 8400

Released	2012-04-25
Method	X-RAY DIFFRACTION 0.8 Å
Organisms	Methylocystis hirsuta
Macromolecule	METHANOBACTIN HM1 (protein)
Unique Ligands	CU

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2YGJ \| pdb_00002ygj	Download File View File

Methanobactin MB4

Ghazouani, A., Basle, A., Firbank, S.J., Gray, J., Dennison, C.

(2012) Proc Natl Acad Sci U S A 109: 8400

Released	2012-04-25
Method	X-RAY DIFFRACTION 0.8 Å
Organisms	Methylocystis sp. M
Macromolecule	METHANOBACTIN MB4 (protein)
Unique Ligands	CU, NA

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2YPJ \| pdb_00002ypj	Download File View File

Non-catalytic carbohydrate binding module CBM65B

Luis, A.S., Venditto, I., Prates, J.A.M., Ferreira, L.M.A., Temple, M.J., Rogowski, A., Basle, A., Xue, J., Knox, J.P., Gilbert, H.J., Fontes, C.M.G.A., Najmudin, S.

(2013) J Biological Chem 288: 4799

Released	2012-12-19
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	[Eubacterium] cellulosolvens
Macromolecule	ENDOGLUCANASE CEL5A (protein)
Unique branched monosaccharides	BGC, XYS

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3ZT9 \| pdb_00003zt9	Download File View File

The bacterial stressosome: a modular system that has been adapted to control secondary messenger signaling

Quin, M.B., Berrisford, J.M., Newman, J.A., Basle, A., Lewis, R.J., Marles-Wright, J.

(2012) Structure 20: 350

Released	2012-02-22
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Moorella thermoacetica
Macromolecule	SERINE PHOSPHATASE (protein)
Unique Ligands	MN, PEG

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3ZTA \| pdb_00003zta	Download File View File

The bacterial stressosome: a modular system that has been adapted to control secondary messenger signaling

Quin, M.B., Berrisford, J.M., Newman, J.A., Basle, A., Lewis, R.J., Marles-Wright, J.

(2012) Structure 20: 350

Released	2012-02-22
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Moorella thermoacetica
Macromolecule	ANTI-SIGMA-FACTOR ANTAGONIST (STAS) DOMAIN PROTEIN (protein)

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3ZTB \| pdb_00003ztb	Download File View File

The bacterial stressosome: a modular system that has been adapted to control secondary messenger signaling

Quin, M.B., Berrisford, J.M., Newman, J.A., Basle, A., Lewis, R.J., Marles-Wright, J.

(2012) Structure 20: 350

Released	2012-02-22
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Moorella thermoacetica
Macromolecule	ANTI-SIGMA-FACTOR ANTAGONIST (STAS) DOMAIN PROTEIN (protein)
Unique Ligands	IOD

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3ZXN \| pdb_00003zxn	Download File View File

Moorella thermoacetica RsbS S58E

Quin, M.B., Berrisford, J.M., Newman, J.A., Basle, A., Lewis, R.J., Marles-Wright, J.

(2012) Structure 20: 350

Released	2012-02-22
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Moorella thermoacetica ATCC 39073
Macromolecule	ANTI-SIGMA-FACTOR ANTAGONIST (STAS) DOMAIN PROTEIN (protein)
Unique Ligands	SCN

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4A2L \| pdb_00004a2l	Download File View File

Structure of the periplasmic domain of the heparin and heparan sulphate sensing hybrid two component system BT4663 in apo and ligand bound forms

Lowe, E.C., Basle, A., Czjzek, M., Firbank, S.J., Bolam, D.N.

(2012) Proc Natl Acad Sci U S A 109: 7298

Released	2012-05-02
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Bacteroides thetaiotaomicron VPI-5482
Macromolecule	TWO-COMPONENT SYSTEM SENSOR HISTIDINE KINASE/RESPONSE (protein)
Unique Ligands	2PE, EDO, MES, OAA, PEG, PG4, PGE

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4A2M \| pdb_00004a2m	Download File View File

Structure of the periplasmic domain of the heparin and heparan sulphate sensing hybrid two component system BT4663 in apo and ligand bound forms

Lowe, E.C., Basle, A., Czjzek, M., Firbank, S.J., Bolam, D.N.

(2012) Proc Natl Acad Sci U S A 109: 7298

Released	2012-05-02
Method	X-RAY DIFFRACTION 3.4 Å
Organisms	Bacteroides thetaiotaomicron VPI-5482
Macromolecule	TWO-COMPONENT SYSTEM SENSOR HISTIDINE KINASE/RESPONSE (protein)
Unique branched monosaccharides	GCD, NGS

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4A46 \| pdb_00004a46	Download File View File

Crosstalk between Cu(I) and Zn(II) homeostasis

Badarau, A., Basle, A., Firbank, S.J., Denninson, C.

(2013) Chem Commun (Camb) 49: 8000

Released	2012-12-12
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Synechocystis sp. PCC 6803
Macromolecule	SSR2857 PROTEIN (protein)
Unique Ligands	CL, NA, ZN

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4A47 \| pdb_00004a47	Download File View File

Crosstalk between Cu(I) and Zn(II) homeostasis

Badarau, A., Basle, A., Firbank, S.J., Denninson, C.

(2013) Biochemistry 52: 6816

Released	2012-12-12
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Synechocystis sp. PCC 6803
Macromolecule	SSR2857 PROTEIN (protein)
Unique Ligands	ZN

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4A48 \| pdb_00004a48	Download File View File

Crosstalk between Cu(I) and Zn(II) homeostasis

Badarau, A., Basle, A., Firbank, S.J., Denninson, C.

(2013) Biochemistry 52: 6816

Released	2012-12-12
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Synechocystis sp. PCC 6803
Macromolecule	PROBABLE COPPER-TRANSPORTING ATPASE PACS (protein)
Unique Ligands	MG, ZN

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4A4J \| pdb_00004a4j	Download File View File

Crosstalk between Cu(I) and Zn(II) homeostasis

Badarau, A., Basle, A., Firbank, S.J., Denninson, C.

(2013) Biochemistry 52: 6816

Released	2012-12-12
Method	X-RAY DIFFRACTION 1.25 Å
Organisms	Synechocystis sp. PCC 6803
Macromolecule	COPPER-TRANSPORTING ATPASE PACS (protein)
Unique Ligands	ZN