RCSB PDB: Search

Warning You are using a web browser that we do not support. Our website will not work properly. Please update to a newer version or download a new web browser, such as Chrome or Firefox.

Help

Help

RCSB PDB

Deposit
- PDBx/mmCIF file
- pdb_extract
- SF-Tool
- Ligand Expo
- MAXIT
- Validation Server
- Validation API
- Information for Journals
- Validation Task Forces
- wwPDB OneDep System
- PDB-IHM
Search
Visualize
Analyze
Download
Learn
- Training Courses
- Guide to PDB Data
- Molecule of the Month
- Educational Resources
- Curricula
- Browse
- News
- SciArt Galleries
- Irving Geis
- David Goodsell
About
Careers
COVID-19

235,458 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

	Include CSM
Advanced Search \| Browse Annotations		Help

Search
Query History
Browse Annotations
MyPDB

QUERY: Source Organism Taxonomy Name (Full Lineage) = "Megalodesulfovibrio gigas"

MyPDB Login

Search API

Advanced Search Query Builder

Help

Full Text

Structure Attributes

Help

NOT

Count

Add Subquery

Chemical Attributes

Sequence Similarity

Sequence Motif

Structure Similarity

Structure Motif

Chemical Similarity

Return

grouped by

Include Computed Structure Models (CSM)

Count

Clear

Search Summary

This query matches 42 Structures.

Refinements

Structure Determination Methodology

experimental (42)

Scientific Name of Source Organism

	Megalodesulfovibrio gigas (42)
	Megalodesulfovibrio gigas DSM 1382 = ATCC 19364 (1)

Taxonomy

Bacteria (42)

Experimental Method

	X-RAY DIFFRACTION (35)
	SOLUTION NMR (7)

Polymer Entity Type

Protein (42)

Refinement Resolution (Å)

	0.5 - 1.0 (1)
	1.0 - 1.5 (8)
	1.5 - 2.0 (12)
	2.0 - 2.5 (7)
	2.5 - 3.0 (4)
	3.0 - 3.5 (2)
	3.5 - 4.0 (1)

Release Date

	1985 - 1989 (1)
	1990 - 1994 (1)
	1995 - 1999 (8)
	2000 - 2004 (8)
	2005 - 2009 (7)
	2010 - 2014 (16)
	2015 - 2019 (1)

Enzyme Classification Name

	Oxidoreductases (18)
	Transferases (3)

Membrane Protein Annotation

	OPM (1)
	PDBTM (1)

Symmetry Type

	Asymmetric (22)
	Cyclic (22)
	Dihedral (1)

SCOP Classification

	Alpha and beta proteins (a+b) (17)
	Multi-domain proteins (alpha and beta) (3)
	All alpha proteins (16)
	Small proteins (10)
	Alpha and beta proteins (a/b) (4)
	All beta proteins (1)
	Artifacts (1)

AllSelected

1 to 25 of 42 Structures

Page 1 of 2

Sort by

Explore in 3D

1CFW \| pdb_00001cfw	Download File View File

GA-SUBSTITUTED DESULFOREDOXIN

Archer, M., Carvalho, A.L., Teixeira, S., Moura, I., Moura, J.J.G., Rusnak, F., Romao, M.J.

(1999) Protein Sci 8: 1536-1545

Released	1999-07-09
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	PROTEIN (DESULFOREDOXIN) (protein)
Unique Ligands	GA, SO4

Explore in 3D

1DCD \| pdb_00001dcd	Download File View File

DESULFOREDOXIN COMPLEXED WITH CD2+

Archer, M., Carvalho, A.L., Teixeira, S., Romao, M.J.

(1999) Protein Sci 8: 1536-1545

Released	1999-07-09
Method	X-RAY DIFFRACTION 2 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	PROTEIN (DESULFOREDOXIN) (protein)
Unique Ligands	CD

Explore in 3D

1DHG \| pdb_00001dhg	Download File View File

HG-SUBSTITUTED DESULFOREDOXIN

Archer, M., Carvalho, A.L., Teixeira, S., Moura, I., Moura, J.J.G., Rusnak, F., Romao, M.J.

(1999) Protein Sci 8: 1536-1545

Released	1999-07-09
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	PROTEIN (DESULFOREDOXIN) (protein)
Unique Ligands	HG

Explore in 3D

1DXG \| pdb_00001dxg	Download File View File

CRYSTAL STRUCTURE OF DESULFOREDOXIN FROM DESULFOVIBRIO GIGAS AT 1.8 A RESOLUTION

Archer, M., Huber, R., Romao, M.J.

(1995) J Mol Biology 251: 690-702

Released	1997-11-12
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	DESULFOREDOXIN (protein)
Unique Ligands	FE

Explore in 3D

1E5D \| pdb_00001e5d	Download File View File

RUBREDOXIN OXYGEN:OXIDOREDUCTASE (ROO) FROM ANAEROBE DESULFOVIBRIO GIGAS

Frazao, C., Silva, G., Gomes, C.M., Matias, P., Coelho, R., Sieker, L., Macedo, S., Liu, M.Y., Oliveira, S., Teixeira, M., Xavier, A.V., Rodrigues-Pousada, C., Carrondo, M.A., Le Gall, J.

(2000) Nat Struct Biol 7: 1041

Released	2000-11-17
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	RUBREDOXIN\:OXYGEN OXIDOREDUCTASE (protein)
Unique Ligands	FEO, FMN, OXY

Explore in 3D

1E8J \| pdb_00001e8j	Download File View File

SOLUTION STRUCTURE OF DESULFOVIBRIO GIGAS ZINC RUBREDOXIN, NMR, 20 STRUCTURES

Lamosa, P., Brennan, L., Vis, H., Turner, D.L., Santos, H.

(2001) Extremophiles 5: 303-311

Released	2001-10-18
Method	SOLUTION NMR
Organisms	Megalodesulfovibrio gigas
Macromolecule	RUBREDOXIN (protein)

Explore in 3D

1F2G \| pdb_00001f2g	Download File View File

THE NMR SOLUTION STRUCTURE OF THE 3FE FERREDOXIN II FROM DESULFOVIBRIO GIGAS, 15 STRUCTURES

Goodfellow, B.J., Macedo, A.L., Rodrigues, P., Wray, V., Moura, I., Moura, J.J.G.

(1999) J Biol Inorg Chem 4: 421-430

Released	1999-09-02
Method	SOLUTION NMR
Organisms	Megalodesulfovibrio gigas
Macromolecule	FERREDOXIN II (protein)
Unique Ligands	F3S

Explore in 3D

1FRV \| pdb_00001frv	Download File View File

CRYSTAL STRUCTURE OF THE OXIDIZED FORM OF NI-FE HYDROGENASE

Volbeda, A., Frey, M., Fontecilla-Camps, J.C.

(1995) Nature 373: 580-587

Released	1996-11-08
Method	X-RAY DIFFRACTION 2.85 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	HYDROGENASE (protein)
Unique Ligands	F3S, FEL, NI, SF4

Explore in 3D

1FXD \| pdb_00001fxd	Download File View File

REFINED CRYSTAL STRUCTURE OF FERREDOXIN II FROM DESULFOVIBRIO GIGAS AT 1.7 ANGSTROMS

Kissinger, C.R., Sieker, L.C., Adman, E.T., Jensen, L.H.

(1991) J Mol Biology 219: 693-715

Released	1993-04-15
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	FERREDOXIN II (protein)
Unique Ligands	F3S

Explore in 3D

1GYO \| pdb_00001gyo	Download File View File

Crystal structure of the di-tetraheme cytochrome c3 from Desulfovibrio gigas at 1.2 Angstrom resolution

Aragao, D., Frazao, C., Sieker, L., Sheldrick, G.M., Legall, J., Carrondo, M.A.

(2003) Acta Crystallogr D Biol Crystallogr 59: 644

Released	2002-05-24
Method	X-RAY DIFFRACTION 1.2 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	CYTOCHROME C3, A DIMERIC CLASS III C-TYPE CYTOCHROME (protein)
Unique Ligands	GOL, HEC

Explore in 3D

1H0H \| pdb_00001h0h	Download File View File

Tungsten containing Formate Dehydrogenase from Desulfovibrio Gigas

Raaijmakers, H.C.A.

(2002) Structure 10: 1261

Released	2003-02-20
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	FORMATE DEHYDROGENASE SUBUNIT ALPHA (protein) FORMATE DEHYDROGENASE SUBUNIT BETA (protein)
Unique Ligands	2MD, CA, EPE, MGD, SF4, UNX, W

Explore in 3D

1QN0 \| pdb_00001qn0	Download File View File

SOLUTION STRUCTURE OF DESULFOVIBRIO GIGAS FERROCYTOCHROME C3, NMR, 20 STRUCTURES

Messias, A.C., Teodoro, M.L., Brennan, L., Legall, J., Santos, H., Xavier, A.V., Turner, D.L.

(2000) J Mol Biology 298: 61

Released	2000-10-12
Method	SOLUTION NMR
Organisms	Megalodesulfovibrio gigas
Macromolecule	CYTOCHROME C3 (protein)
Unique Ligands	HEC

Explore in 3D

1QN1 \| pdb_00001qn1	Download File View File

SOLUTION STRUCTURE OF DESULFOVIBRIO GIGAS FERRICYTOCHROME C3, NMR, 15 STRUCTURES

Brennan, L., Messias, A.C., Legall, J., Turner, D.L., Xavier, A.V.

(2000) J Mol Biology 298: 61

Released	2000-10-12
Method	SOLUTION NMR
Organisms	Megalodesulfovibrio gigas
Macromolecule	CYTOCHROME C3 (protein)
Unique Ligands	HEC

Explore in 3D

1RDG \| pdb_00001rdg	Download File View File

RUBREDOXIN FROM DESULFOVIBRIO GIGAS. A MOLECULAR MODEL OF THE OXIDIZED FORM AT 1.4 ANGSTROMS RESOLUTION

Frey, M., Sieker, L.C., Payan, F.

(1987) J Mol Biology 197: 525-541

Released	1989-04-19
Method	X-RAY DIFFRACTION 1.4 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	RUBREDOXIN (protein)
Unique Ligands	FE, FOR

Explore in 3D

1SIJ \| pdb_00001sij	Download File View File

Crystal structure of the Aldehyde Dehydrogenase (a.k.a. AOR or MOP) of Desulfovibrio gigas covalently bound to [AsO3]-

Boer, D.R., Thapper, A., Brondino, C.D., Romao, M.J., Moura, J.J.G.

(2004) J Am Chem Soc 126: 8614-8615

Released	2004-07-27
Method	X-RAY DIFFRACTION 2.3 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	Aldehyde oxidoreductase (protein)
Unique Ligands	AST, CL, FES, MG, PCD

Explore in 3D

1SPW \| pdb_00001spw	Download File View File

Solution Structure of a Loop Truncated Mutant from D. gigas Rubredoxin, NMR

Pais, T.M., Lamosa, P., dos Santos, W., LeGall, J., Turner, D.L., Santos, H.

(2005) FEBS J 272: 999-1011

Released	2005-03-29
Method	SOLUTION NMR
Organisms	Megalodesulfovibrio gigas
Macromolecule	Rubredoxin (protein)

Explore in 3D

1VLB \| pdb_00001vlb	Download File View File

STRUCTURE REFINEMENT OF THE ALDEHYDE OXIDOREDUCTASE FROM DESULFOVIBRIO GIGAS AT 1.28 A

Rebelo, J.M., Dias, J.M., Huber, R., Moura, J.J.G., Romao, M.J.

(2001) J Biol Inorg Chem 6: 791-800

Released	2004-07-27
Method	X-RAY DIFFRACTION 1.28 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	ALDEHYDE OXIDOREDUCTASE (protein)
Unique Ligands	CL, FES, IPA, MG, PCD

Explore in 3D

1WAD \| pdb_00001wad	Download File View File

CYTOCHROME C3 WITH 4 HEME GROUPS AND ONE CALCIUM ION

Matias, P.M., Morais, J., Coelho, R., Carrondo, M.A., Wilson, K., Dauter, Z., Sieker, L.

(1996) Protein Sci 5: 1342-1354

Released	1997-01-27
Method	X-RAY DIFFRACTION 1.8 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	CYTOCHROME C3 (protein)
Unique Ligands	CA, HEM

Explore in 3D

1YQ9 \| pdb_00001yq9	Download File View File

Structure of the unready oxidized form of [NiFe] hydrogenase

Volbeda, A., Martin, L., Cavazza, C., Matho, M., Faber, B.W., Roseboom, W., Albracht, S.P., Garcin, E., Rousset, M., Fontecilla-Camps, J.C.

(2005) J Biol Inorg Chem 10: 239-249

Released	2005-04-19
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	Periplasmic [NiFe] hydrogenase large subunit (protein) Periplasmic [NiFe] hydrogenase small subunit (protein)
Unique Ligands	F3S, FCO, GOL, H2S, MG, NI, PER, SF4

Explore in 3D

1Z1N \| pdb_00001z1n	Download File View File

Crystal Structure of the sixteen heme cytochrome from Desulfovibrio gigas

Santos-Silva, T., Dias, J.M., Romao, M.J.

To be published

Released	2006-04-04
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	sixteen heme cytochrome (protein)
Unique Ligands	GOL, HEC, ZN
Unique branched monosaccharides	NAA, NAG

Explore in 3D

2DSX \| pdb_00002dsx	Download File View File

Crystal structure of rubredoxin from Desulfovibrio gigas to ultra-high 0.68 A resolution

Chen, C.-J., Lin, Y.-H., Huang, Y.-C., Liu, M.-Y.

(2006) Biochem Biophys Res Commun 349: 79-90

Released	2006-10-10
Method	X-RAY DIFFRACTION 0.68 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	Rubredoxin (protein)
Unique Ligands	FE

Explore in 3D

2FRV \| pdb_00002frv	Download File View File

CRYSTAL STRUCTURE OF THE OXIDIZED FORM OF NI-FE HYDROGENASE

Volbeda, A., Frey, M., Fontecilla-Camps, J.C.

(1996) J Am Chem Soc 118: 12989

Released	1998-06-17
Method	X-RAY DIFFRACTION 2.54 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	PERIPLASMIC HYDROGENASE (protein)
Unique Ligands	F3S, FCO, MG, NI, O, SF4

Explore in 3D

2LK5 \| pdb_00002lk5	Download File View File

Solution structure of the Zn(II) form of Desulforedoxin

Goodfellow, B.J., Tavares, P., Romao, M.J., Czaja, C., Rusnak, F., Legall, J., Moura, I., Moura, J.J.G.

(1996) J Biol Inorg Chem 1: 341-354

Released	2012-01-25
Method	SOLUTION NMR
Organisms	Megalodesulfovibrio gigas
Macromolecule	Desulforedoxin (protein)
Unique Ligands	ZN

Explore in 3D

2LK6 \| pdb_00002lk6	Download File View File

NMR determination of the global structure of the Cd-113 derivative of desulforedoxin

Goodfellow, B.J., Rusnak, F., Moura, I., Domke, T., Moura, J.J.G.

(1998) Protein Sci 7: 928-937

Released	2012-01-25
Method	SOLUTION NMR
Organisms	Megalodesulfovibrio gigas
Macromolecule	Desulforedoxin (protein)
Unique Ligands	CD

Explore in 3D

2WFB \| pdb_00002wfb	Download File View File

High resolution structure of the apo form of the orange protein (ORP) from Desulfovibrio gigas

Najmudin, S., Bonifacio, C., Duarte, A.G., Pereira, A.S., Moura, I., Moura, J.M., Romao, M.J.

To be published

Released	2010-05-26
Method	X-RAY DIFFRACTION 2 Å
Organisms	Megalodesulfovibrio gigas
Macromolecule	PUTATIVE UNCHARACTERIZED PROTEIN ORP (protein)
Unique Ligands	ACT, PO4

1 to 25 of 42 Structures

Page 1 of 2

Sort by

About
About Us
Citing Us
Publications
Team
Careers
Usage & Privacy

Support
Contact Us
Help
Website FAQ
Glossary
Service Status

RCSB PDB is hosted by

RCSB PDB is a member of the

RCSB Partners
Nucleic Acid Knowledgebase

wwPDB Partners
RCSB PDB
PDBe
PDBj
BMRB
EMDB

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.

Prepare Data

Validate Data

Deposit Data

Help and Resources

Structure Determination Methodology

Scientific Name of Source Organism

Taxonomy

Experimental Method

Polymer Entity Type

Refinement Resolution (Å)

Release Date

Enzyme Classification Name

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1CFW | pdb_00001cfw

1DCD | pdb_00001dcd

1DHG | pdb_00001dhg

1DXG | pdb_00001dxg

1E5D | pdb_00001e5d

1E8J | pdb_00001e8j

1F2G | pdb_00001f2g

1FRV | pdb_00001frv

1FXD | pdb_00001fxd

1GYO | pdb_00001gyo

1H0H | pdb_00001h0h

1QN0 | pdb_00001qn0

1QN1 | pdb_00001qn1

1RDG | pdb_00001rdg

1SIJ | pdb_00001sij

1SPW | pdb_00001spw

1VLB | pdb_00001vlb

1WAD | pdb_00001wad

1YQ9 | pdb_00001yq9

1Z1N | pdb_00001z1n

2DSX | pdb_00002dsx

2FRV | pdb_00002frv

2LK5 | pdb_00002lk5

2LK6 | pdb_00002lk6

2WFB | pdb_00002wfb