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235,183 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Structure Author = "Handa, P."

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Search Summary

This query matches 21 Structures.

Refinements

Structure Determination Methodology

experimental (21)

Scientific Name of Source Organism

	Methanosarcina acetivorans (5)
	Acinetobacter radioresistens (3)
	Rhodovulum sulfidophilum (3)
	Homo sapiens (2)
	Mycobacterium tuberculosis (2)
	Synechocystis sp. PCC 6714 (2)
	Azotobacter vinelandii (1)
	Bordetella pertussis Tohama I (1)
	Dissostichus mawsoni (1)
	Paracoccus denitrificans (1)

Taxonomy

	Bacteria (13)
	Archaea (5)
	Eukaryota (3)

Experimental Method

X-RAY DIFFRACTION (21)

Polymer Entity Type

Protein (21)

Refinement Resolution (Å)

	1.0 - 1.5 (2)
	1.5 - 2.0 (8)
	2.0 - 2.5 (6)
	2.5 - 3.0 (3)
	3.0 - 3.5 (2)

Release Date

	2000 - 2004 (6)
	2005 - 2009 (1)
	2010 - 2014 (9)
	2015 - 2019 (2)
	2020 - 2024 (3)

Enzyme Classification Name

	Oxidoreductases (5)
	Transferases (5)
	Isomerases (2)
	Lyases (2)

Symmetry Type

	Cyclic (14)
	Asymmetric (7)

SCOP Classification

	All alpha proteins (6)
	All beta proteins (6)
	Artifacts (5)
	Alpha and beta proteins (a/b) (2)

AllSelected

1 to 21 of 21 Structures

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1DKE \| pdb_00001dke	Download File View File

NI BETA HEME HUMAN HEMOGLOBIN

Bruno, S., Bettatti, S., Mozzarelli, A., Bolognesi, M., Deriu, D., Rosano, C., Tsuneshige, A., Yonetani, T., Henry, E.R.

(2000) Protein Sci 9: 683-692

Released	2000-05-23
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	HEMOGLOBIN: ALPHA CHAIN (protein) HEMOGLOBIN: BETA CHAIN (protein)
Unique Ligands	HEM, SO4

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1H31 \| pdb_00001h31	Download File View File

Oxidised SoxAX complex from Rhodovulum sulfidophilum

Bamford, V.A., Bruno, S., Rasmussen, T., Appia-Ayme, C., Cheesman, M.R., Berks, B.C., Hemmings, A.M.

(2002) EMBO J 21: 5599

Released	2002-11-07
Method	X-RAY DIFFRACTION 2.55 Å
Organisms	Rhodovulum sulfidophilum
Macromolecule	CYTOCHROME C (protein) DIHEME CYTOCHROME C (protein)
Unique Ligands	HEC

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1H32 \| pdb_00001h32	Download File View File

Reduced SoxAX complex from Rhodovulum sulfidophilum

Bamford, V.A., Bruno, S., Rasmussen, T., Appia-Ayme, C., Cheesman, M.R., Berks, B.C., Hemmings, A.M.

(2002) EMBO J 21: 5599

Released	2002-11-07
Method	X-RAY DIFFRACTION 1.5 Å
Organisms	Rhodovulum sulfidophilum
Macromolecule	CYTOCHROME C (protein) DIHEME CYTOCHROME C (protein)
Unique Ligands	EDO, HEC

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1H33 \| pdb_00001h33	Download File View File

Oxidised SoxAX complex from Rhodovulum sulfidophilum

Bamford, V.A., Bruno, S., Rasmussen, T., Appia-Ayme, C., Cheesman, M.R., Berks, B.C., Hemmings, A.M.

(2002) EMBO J 21: 5599

Released	2002-11-07
Method	X-RAY DIFFRACTION 1.75 Å
Organisms	Rhodovulum sulfidophilum
Macromolecule	CYTOCHROME C (protein) DIHEME CYTOCHROME C (protein)
Unique Ligands	HEC

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1N2T \| pdb_00001n2t	Download File View File

C-DES Mutant K223A with GLY Covalenty Linked to the PLP-cofactor

Kaiser, J.T., Bruno, S., Clausen, T., Huber, R., Schiaretti, F., Mozzarelli, A., Kessler, D.

(2003) J Biological Chem 278: 357-365

Released	2003-01-21
Method	X-RAY DIFFRACTION 2 Å
Organisms	Synechocystis sp. PCC 6714
Macromolecule	L-cysteine/cystine lyase C-DES (protein)
Unique Ligands	GLY, K, PLP

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1N31 \| pdb_00001n31	Download File View File

Structure of A Catalytically Inactive Mutant (K223A) of C-DES with a Substrate (Cystine) Linked to the Co-Factor

Kaiser, J.T., Bruno, S., Clausen, T., Huber, R., Schiaretti, F., Mozzarelli, A., Kessler, D.

(2003) J Biological Chem 278: 357-365

Released	2003-01-21
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Synechocystis sp. PCC 6714
Macromolecule	L-cysteine/cystine lyase C-DES (protein)
Unique Ligands	CYS, K, PLP

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2OX5 \| pdb_00002ox5	Download File View File

The SoxYZ complex of Paracoccus pantotrophus

Bruno, S., Sauve, V., Berks, B.C., Hemmings, A.M.

(2007) J Biological Chem 282: 23194-23204

Released	2007-05-22
Method	X-RAY DIFFRACTION 1.98 Å
Organisms	Paracoccus denitrificans
Macromolecule	SoxY protein (protein) SoxZ protein (protein)
Unique Ligands	ACT, EDO, SO4

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2XSR \| pdb_00002xsr	Download File View File

Crystal structure of wild type Acinetobacter radioresistens catechol 1,2 dioxygenase

Micalella, C., Martignon, S., Bruno, S., Rizzi, M.

(2011) Biochim Biophys Acta 1814: 817

Released	2010-12-08
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Acinetobacter radioresistens
Macromolecule	CATECHOL 1,2 DIOXYGENASE (protein)
Unique Ligands	FE, PIE

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2XSU \| pdb_00002xsu	Download File View File

Crystal structure of the A72G mutant of Acinetobacter radioresistens catechol 1,2 dioxygenase

Micalella, C., Martignon, S., Bruno, S., Rizzi, M.

(2011) Biochim Biophys Acta 1814: 817

Released	2010-10-13
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Acinetobacter radioresistens
Macromolecule	CATECHOL 1,2 DIOXYGENASE (protein)
Unique Ligands	FE, PIE

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2XSV \| pdb_00002xsv	Download File View File

Crystal structure of L69A mutant Acinetobacter radioresistens catechol 1,2 dioxygenase

Micalella, C., Martignon, S., Bruno, S., Rizzi, M.

(2011) Biochim Biophys Acta 1814: 817

Released	2010-10-13
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Acinetobacter radioresistens
Macromolecule	CATECHOL 1,2 DIOXYGENASE (protein)
Unique Ligands	FE, PIE

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3QZX \| pdb_00003qzx	Download File View File

3D Structure of ferric methanosarcina acetivorans protoglobin Y61A mutant with unknown ligand

Pesce, A., Tilleman, L., Dewilde, S., Ascenzi, P., Coletta, M., Ciaccio, C., Bruno, S., Moens, L., Bolognesi, M., Nardini, M.

(2011) IUBMB Life 63: 287-294

Released	2011-06-08
Method	X-RAY DIFFRACTION 1.3 Å
Organisms	Methanosarcina acetivorans
Macromolecule	Methanosarcina acetivorans protoglobin (protein)
Unique Ligands	GOL, HEM, PO4

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3QZZ \| pdb_00003qzz	Download File View File

3D Structure of Ferric Methanosarcina Acetivorans Protoglobin Y61W mutant in Aquomet form

Pesce, A., Tilleman, L., Dewilde, S., Ascenzi, P., Coletta, M., Ciaccio, C., Bruno, S., Moens, L., Bolognesi, M., Nardini, M.

(2011) IUBMB Life 63: 287-294

Released	2011-06-08
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Methanosarcina acetivorans
Macromolecule	Methanosarcina acetivorans protoglobin (protein)
Unique Ligands	HEM

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3R0G \| pdb_00003r0g	Download File View File

3D Structure of Ferric Methanosarcina Acetivorans Protoglobin I149F mutant in Aquomet form

Pesce, A., Tilleman, L., Dewilde, S., Ascenzi, P., Coletta, M., Ciaccio, C., Bruno, S., Moens, L., Bolognesi, M., Nardini, M.

(2011) IUBMB Life 63: 287-294

Released	2011-06-08
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Methanosarcina acetivorans
Macromolecule	Methanosarcina acetivorans protoglobin (protein)
Unique Ligands	EPE, GOL, HEM, IPA

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3ZOL \| pdb_00003zol	Download File View File

M.acetivorans protoglobin F93Y mutant in complex with cyanide

Tilleman, L., Abbruzzetti, S., Ciaccio, C., De Sanctis, G., Nardini, M., Pesce, A., Desmet, F., Moens, L., Van Doorslaer, S., Bruno, S., Bolognesi, M., Ascenzi, P., Coletta, M., Viappiani, C., Dewilde, S.

(2015) PLoS One 10: 25959

Released	2014-03-12
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Methanosarcina acetivorans
Macromolecule	PROTOGLOBIN (protein)
Unique Ligands	CYN, GOL, HEM, SO4

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3ZOM \| pdb_00003zom	Download File View File

M.acetivorans protoglobin F145W mutant

(2015) PLoS One 10: 25959

Released	2014-03-12
Method	X-RAY DIFFRACTION 2.2 Å
Organisms	Methanosarcina acetivorans
Macromolecule	PROTOGLOBIN (protein)
Unique Ligands	GOL, HEM, SO4

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4B3W \| pdb_00004b3w	Download File View File

Crystal structure of human cytoglobin H(E7)Q mutant

Gabba, M., Abbruzzetti, S., Spyrakis, F., Forti, F., Bruno, S., Mozzarelli, A., Luque, F.J., Viappiani, C., Cozzini, P., Nardini, M., Germani, F., Bolognesi, M., Moens, L., Dewilde, S.

(2013) PLoS One 8: 49770

Released	2013-01-23
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Homo sapiens
Macromolecule	CYTOGLOBIN (protein)
Unique Ligands	ACT, CYN, FC6, HEM

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4UII \| pdb_00004uii	Download File View File

Crystal structure of the Azotobacter vinelandii globin-coupled oxygen sensor in the aquo-met form

Germani, F., De Schutter, A., Pesce, A., Berghmans, H., Van Hauwaert, M.-L., Cuypers, B., Bruno, S., Mozzarelli, A., Moens, L., Van Doorslaer, S., Bolognesi, M., Nardini, M., Dewilde, S.

To be published

Released	2016-04-13
Method	X-RAY DIFFRACTION 2.827 Å
Organisms	Azotobacter vinelandii
Macromolecule	GGDEF DOMAIN PROTEIN (protein)
Unique Ligands	HEM

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6I2Z \| pdb_00006i2z	Download File View File

Isolated globin domain of the Bordetella pertussis globin-coupled sensor

Germani, F., De Schutter, A., Cuypers, B., Berghmans, H., Van Hauwaert, M.-L., Bruno, S., Mozzarelli, A., Moens, L., Van Doorslaer, S., Bolognesi, M., Pesce, A., Dewilde, S.

(2020) Antioxid Redox Signal 32: 378-395

Released	2019-10-16
Method	X-RAY DIFFRACTION 3.2 Å
Organisms	Bordetella pertussis Tohama I
Macromolecule	Uncharacterized protein (protein)
Unique Ligands	HEM

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6Q6P \| pdb_00006q6p	Download File View File

Antarctic fish cytoglobin 1 from D.mawsoni

Giordano, D., Pesce, A., Vermeylen, S., Abbruzzetti, S., Nardini, M., Marchesani, F., Berghmans, H., Seira, C., Bruno, S., Luque, F.J., di Prisco, G., Ascenzi, P., Dewilde, S., Bolognesi, M., Viappiani, C., Verde, C.

(2020) Comput Struct Biotechnol J 18: 2132-2144

Released	2020-01-15
Method	X-RAY DIFFRACTION 3 Å
Organisms	Dissostichus mawsoni
Macromolecule	Cytoglobin (protein)
Unique Ligands	HEM

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6R3W \| pdb_00006r3w	Download File View File

M.tuberculosis nitrobindin with a water molecule coordinated to the heme iron atom

De Simone, G., di Masi, A., Polticelli, F., Pesce, A., Nardini, M., Bolognesi, M., Ciaccio, C., Coletta, M., Turilli, E.S., Fasano, M., Tognaccini, L., Smulevich, G., Abbruzzetti, S., Viappiani, C., Bruno, S., Ascenzi, P.

(2020) Antioxid Redox Signal 33: 229-246

Released	2020-04-08
Method	X-RAY DIFFRACTION 1.2 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	UPF0678 fatty acid-binding protein-like protein ERS007657_00996 (protein)
Unique Ligands	HEM

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6R3Y \| pdb_00006r3y	Download File View File

M.tuberculosis nitrobindin with a cyanide molecule coordinated to the heme iron atom

(2020) Antioxid Redox Signal 33: 229-246

Released	2020-04-08
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Mycobacterium tuberculosis
Macromolecule	UPF0678 fatty acid-binding protein-like protein ERS007657_00996 (protein)
Unique Ligands	CYN, HEM

1 to 21 of 21 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

1DKE | pdb_00001dke

1H31 | pdb_00001h31

1H32 | pdb_00001h32

1H33 | pdb_00001h33

1N2T | pdb_00001n2t

1N31 | pdb_00001n31

2OX5 | pdb_00002ox5

2XSR | pdb_00002xsr

2XSU | pdb_00002xsu

2XSV | pdb_00002xsv

3QZX | pdb_00003qzx

3QZZ | pdb_00003qzz

3R0G | pdb_00003r0g

3ZOL | pdb_00003zol

3ZOM | pdb_00003zom

4B3W | pdb_00004b3w

4UII | pdb_00004uii

6I2Z | pdb_00006i2z

6Q6P | pdb_00006q6p

6R3W | pdb_00006r3w

6R3Y | pdb_00006r3y