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234,785 Structures from the PDB

1,068,577 Computed Structure Models (CSM)

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QUERY: Chemical ID(s) = DDQ

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Search Summary

This query matches 36 Structures.

Refinements

Structure Determination Methodology

experimental (36)

Scientific Name of Source Organism

	Escherichia coli K-12 (16)
	synthetic construct (15)
	Homo sapiens (8)
	Escherichia coli (3)
	Streptococcus pneumoniae (2)
	Equus caballus (1)
	Escherichia phage T5 (1)
	Mycolicibacterium vanbaalenii PYR-1 (1)
	Myxococcus xanthus (1)
	Neisseria meningitidis MC58 (1)

More...

Taxonomy

	Bacteria (26)
	other sequences (15)
	Eukaryota (10)
	Duplodnaviria (1)

Experimental Method

	X-RAY DIFFRACTION (35)
	ELECTRON MICROSCOPY (1)

Polymer Entity Type

Protein (36)

Refinement Resolution (Å)

	1.0 - 1.5 (1)
	1.5 - 2.0 (8)
	2.0 - 2.5 (6)
	2.5 - 3.0 (18)
	3.0 - 3.5 (3)

Release Date

	2000 - 2004 (6)
	2005 - 2009 (4)
	2010 - 2014 (4)
	2015 - 2019 (7)
	2020 - 2024 (15)

Enzyme Classification Name

	Oxidoreductases (8)
	Hydrolases (4)
	Lyases (1)
	Transferases (1)

Membrane Protein Annotation

	PDBTM (21)
	mpstruc (19)
	MemProtMD (17)
	OPM (6)

Symmetry Type

	Asymmetric (32)
	Cyclic (4)

SCOP Classification

	All beta proteins (4)
	Alpha and beta proteins (a/b) (9)
	All alpha proteins (2)
	Artifacts (2)
	Membrane and cell surface proteins and peptides (4)

AllSelected

1 to 25 of 36 Structures

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1D3G \| pdb_00001d3g	Download File View File

HUMAN DIHYDROOROTATE DEHYDROGENASE COMPLEXED WITH BREQUINAR ANALOG

Liu, S., Neidhardt, E.A., Grossman, T.H., Ocain, T., Clardy, J.

(2000) Structure 8: 25-33

Released	2000-09-13
Method	X-RAY DIFFRACTION 1.6 Å
Organisms	Homo sapiens
Macromolecule	DIHYDROOROTATE DEHYDROGENASE (protein)
Unique Ligands	ACT, BRE, DDQ, FMN, ORO, SO4

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1FI1 \| pdb_00001fi1	Download File View File

FhuA in complex with lipopolysaccharide and rifamycin CGP4832

Ferguson, A.D., Koedding, J., Boes, C., Walker, G., Coulton, J.W., Diederichs, K., Braun, V., Welte, W.

(2001) Structure 9: 707-716

Released	2001-08-29
Method	X-RAY DIFFRACTION 2.9 Å
Organisms	Escherichia coli K-12
Macromolecule	FERRICHROME-IRON RECEPTOR (protein)
Unique Ligands	DDQ, DPO, FTT, MG, NA, NI, PO4, RIF
Unique branched monosaccharides	GCN, GLA, GLC, GMH, KDO, PA1

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1GVM \| pdb_00001gvm	Download File View File

CHOLINE BINDING DOMAIN OF THE MAJOR AUTOLYSIN (C-LYTA) FROM STREPTOCOCCUS PNEUMONIAE

Fernandez-Tornero, C., Lopez, R., Garcia, E., Gimenez-Gallego, G., Romero, A.

(2002) J Mol Biology 321: 163

Released	2002-08-01
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Streptococcus pneumoniae
Macromolecule	AUTOLYSIN (protein)
Unique Ligands	CHT, DDQ, TRS

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1HCX \| pdb_00001hcx	Download File View File

Choline binding domain of the major autolysin (C-LytA) from Streptococcus pneumoniae

Fernandez-Tornero, C., Lopez, R., Garcia, E., Gimenez-Gallego, G., Romero, A.

(2001) Nat Struct Biol 8: 1020

Released	2001-11-29
Method	X-RAY DIFFRACTION 2.6 Å
Organisms	Streptococcus pneumoniae
Macromolecule	MAJOR AUTOLYSIN (protein)
Unique Ligands	CHT, DDQ, TPT

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1QFF \| pdb_00001qff	Download File View File

E. COLI FERRIC HYDROXAMATE UPTAKE RECEPTOR (FHUA) IN COMPLEX WITH BOUND FERRICHROME-IRON

Ferguson, A.D., Hofmann, E., Coulton, J.W., Diederichs, K., Welte, W.

(2000) Structure 8: 585-592

Released	2000-07-26
Method	X-RAY DIFFRACTION 2.7 Å
Organisms	Escherichia coli
Macromolecule	FERRIC HYDROXAMATE UPTAKE RECEPTOR (protein)
Unique Ligands	DAO, DDQ, DPO, EAP, FCI, FTT, MYR, PO4
Unique branched monosaccharides	GCN, GLA, GLC, GMH, KDO, PA1

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1QFG \| pdb_00001qfg	Download File View File

E. COLI FERRIC HYDROXAMATE RECEPTOR (FHUA)

Ferguson, A.D., Welte, W., Hofmann, E., Lindner, B., Holst, O., Coulton, J.W., Diederichs, K.

(2000) Structure 8: 585-592

Released	2000-07-26
Method	X-RAY DIFFRACTION 2.5 Å
Organisms	Escherichia coli
Macromolecule	PROTEIN (FERRIC HYDROXAMATE UPTAKE RECEPTOR) (protein)
Unique Ligands	DAO, DDQ, DPO, FTT, GOL, MYR, NI, PO4
Unique branched monosaccharides	GCN, GLA, GLC, GMH, KDO, PA1

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1W52 \| pdb_00001w52	Download File View File

Crystal structure of a proteolyzed form of pancreatic lipase related protein 2 from horse

Mancheno, J.M., Jayne, S., Kerfelec, B., Chapus, C., Crenon, I., Hermoso, J.A.

(2004) Acta Crystallogr D Biol Crystallogr 60: 2107

Released	2006-07-12
Method	X-RAY DIFFRACTION 2.99 Å
Organisms	Equus caballus
Macromolecule	PANCREATIC LIPASE RELATED PROTEIN 2 (protein)
Unique Ligands	CA, DDQ

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2F6M \| pdb_00002f6m	Download File View File

Structure of a Vps23-C:Vps28-N subcomplex

Kostelansky, M.S., Lee, S., Kim, J., Hurley, J.H.

(2006) Cell 125: 113-126

Released	2006-04-18
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Saccharomyces cerevisiae
Macromolecule	Suppressor protein STP22 of temperature-sensitive alpha-factor receptor and arginine permease (protein) Vacuolar protein sorting-associated protein VPS28 (protein)
Unique Ligands	DDQ, MG

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2PRH \| pdb_00002prh	Download File View File

The structures of apo- and inhibitor bound human dihydroorotate dehydrogenase reveal conformational flexibility within the inhibitor binding site

Walse, B., Dufe, V.T., Al-Karadaghi, S.

(2008) Biochemistry 47: 8929-8936

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.4 Å
Organisms	Homo sapiens
Macromolecule	Dihydroorotate dehydrogenase, mitochondrial (protein)
Unique Ligands	238, DDQ, FMN, ORO

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2PRL \| pdb_00002prl	Download File View File

The structures of apo- and inhibitor bound human dihydroorotate dehydrogenase reveal conformational flexibility within the inhibitor binding site

Walse, B., Dufe, V.T., Al-Karadaghi, S.

(2008) Biochemistry 47: 8929-8936

Released	2008-05-20
Method	X-RAY DIFFRACTION 2.1 Å
Organisms	Homo sapiens
Macromolecule	Dihydroorotate dehydrogenase, mitochondrial (protein)
Unique Ligands	ACT, DDQ, FMN, ORO, R2C, SO4

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2WV8 \| pdb_00002wv8	Download File View File

Complex of human dihydroorotate dehydrogenase with the inhibitor 221290

Walse, B., Svensson, B., Fritzson, I., Dahlberg, L., Wellmar, U., Al-Karadaghi, S.

(2010) ChemMedChem 5: 608

Released	2010-08-25
Method	X-RAY DIFFRACTION 1.9 Å
Organisms	Homo sapiens
Macromolecule	DIHYDROOROTATE DEHYDROGENASE, MITOCHONDRIAL (protein)
Unique Ligands	ACT, DDQ, FMN, ORO, SO4, VGN

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3NOK \| pdb_00003nok	Download File View File

Crystal structure of Myxococcus xanthus Glutaminyl Cyclase

Parthier, C., Carrillo, D.R., Stubbs, M.T.

(2010) Biol Chem 391: 1419-1428

Released	2010-11-03
Method	X-RAY DIFFRACTION 1.65 Å
Organisms	Myxococcus xanthus
Macromolecule	Glutaminyl Cyclase (protein)
Unique Ligands	CA, DDQ, GOL, MES

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3W7R \| pdb_00003w7r	Download File View File

Structure of Human dihydroorotate dehydrogenase in complex with mii-4-097

Inaoka, D.K., Iida, M., Tabuchi, T., Lee, N., Hashimoto, S., Matsuoka, S., Kuranaga, T., Shiba, T., Sakamoto, K., Suzuki, S., Balogun, E.O., Nara, T., Aoki, T., Inoue, M., Honma, T., Tanaka, A., Harada, S., Kita, K.

To be published

Released	2014-03-12
Method	X-RAY DIFFRACTION 1.68 Å
Organisms	Homo sapiens
Macromolecule	Dihydroorotate dehydrogenase (quinone), mitochondrial (protein)
Unique Ligands	ACT, CL, DDQ, FMN, GOL, ORO, SO4, W7A

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4KAV \| pdb_00004kav	Download File View File

Crystal Structure of the soluble domain of Lipooligosaccharide phosphoethanolamine transferase A from Neisseria meningitidis

Vrielink, A., Wanty, C.

(2013) J Mol Biology 425: 3389-3402

Released	2013-07-24
Method	X-RAY DIFFRACTION 1.433 Å
Organisms	Neisseria meningitidis MC58
Macromolecule	YhbX/YhjW/YijP/YjdB family protein (protein)
Unique Ligands	CU, DDQ, MG, NA, PO4, ZN

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4XU4 \| pdb_00004xu4	Download File View File

Crystal structure of a mycobacterial Insig homolog MvINS from Mycobacterium vanbaalenii at 1.9A resolution

Ren, R.B., Wu, J.P., Yan, C.Y., He, Y., Yan, N.

(2015) Science 349: 187-191

Released	2015-10-14
Method	X-RAY DIFFRACTION 1.901 Å
Organisms	Mycolicibacterium vanbaalenii PYR-1
Macromolecule	Uncharacterized protein (protein)
Unique Ligands	BNG, DDQ

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5UXI \| pdb_00005uxi	Download File View File

Protein 4 with aldehyde deformylating oxygenase activity from Nostoc puntiforme

Wilson, D.K., Mak, W.S., Siegel, J.B.

To be published

Released	2018-02-28
Method	X-RAY DIFFRACTION 2 Å
Organisms	Nostoc punctiforme PCC 73102
Macromolecule	Aldehyde decarbonylase (protein)
Unique Ligands	DDQ

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6ET4 \| pdb_00006et4	Download File View File

HUMAN DIHYDROOROTATE DEHYDROGENASE IN COMPLEX WITH NOVEL INHIBITOR

Hakansson, M., Walse, B., Gustavsson, A.-L., Lain, S.

(2018) Nat Commun 9: 1107-1107

Released	2018-03-28
Method	X-RAY DIFFRACTION 1.7 Å
Organisms	Homo sapiens
Macromolecule	Dihydroorotate dehydrogenase (quinone), mitochondrial (protein)
Unique Ligands	ACY, CL, DDQ, DOR, FMN, GOL, SDV, SO4

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6GK0 \| pdb_00006gk0	Download File View File

HUMAN DIHYDROOROTATE DEHYDROGENASE IN COMPLEX WITH CLASS III HISTONE DEACETYLASE INHIBITOR

Hakansson, M., Ladds, M.J.G.W., Walse, B., Lain, S.

(2020) J Biological Chem 295: 17935-17949

Released	2019-11-27
Method	X-RAY DIFFRACTION 1.85 Å
Organisms	Homo sapiens
Macromolecule	Dihydroorotate dehydrogenase (quinone), mitochondrial (protein)
Unique Ligands	ACY, CL, DDQ, DOR, F1W, FMN, GOL, SO4

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6O9V \| pdb_00006o9v	Download File View File

KirBac3.1 mutant at a resolution of 3.1 Angstroms

Gulbis, J.M., Black, K.A., Miller, D.M.

(2020) Nat Commun 11: 3024-3024

Released	2020-05-27
Method	X-RAY DIFFRACTION 3.094 Å
Organisms	Paramagnetospirillum magnetotacticum
Macromolecule	Inward rectifier potassium channel Kirbac3.1 (protein)
Unique Ligands	DDQ, K, M1M, TMO

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6Q4N \| pdb_00006q4n	Download File View File

Fusidic acid bound AcrB_V340A

Tam, H.K., Pos, K.M.

(2020) J Mol Biology 432: 861-877

Released	2019-11-13
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Escherichia coli K-12 synthetic construct
Macromolecule	DARPin (protein) Multidrug efflux pump subunit AcrB (protein)
Unique Ligands	D10, D12, DDQ, DDR, FUA, GOL, HEX, LMT, OCT, P6G, PTY, SO4

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6Q4O \| pdb_00006q4o	Download File View File

Fusidic acid bound AcrB_I27A

Tam, H.K., Pos, K.M.

(2020) J Mol Biology 432: 861-877

Released	2019-11-13
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Escherichia coli K-12 synthetic construct
Macromolecule	DARPIN (protein) Multidrug efflux pump subunit AcrB (protein)
Unique Ligands	D10, D12, DDQ, DDR, FUA, GOL, HEX, LMT, OCT, PTY, SO4

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6Q4P \| pdb_00006q4p	Download File View File

Fusidic acid bound AcrB_N298A

Tam, H.K., Pos, K.M.

(2020) J Mol Biology 432: 861-877

Released	2019-11-13
Method	X-RAY DIFFRACTION 2.8 Å
Organisms	Escherichia coli K-12 synthetic construct
Macromolecule	DARPin (protein) Multidrug efflux pump subunit AcrB (protein)
Unique Ligands	C14, CL, D10, D12, DDQ, DDR, ETE, FUA, GOL, HEX, LMT, OCT, PTY, SO4

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6VND \| pdb_00006vnd	Download File View File

Quaternary Complex of human dihydroorotate dehydrogenase (DHODH) with flavin mononucleotide (FMN), orotic acid and AG-636

Padyana, A., Jin, L.

(2020) Mol Cancer Ther 19: 2502-2515

Released	2020-11-04
Method	X-RAY DIFFRACTION 1.97 Å
Organisms	Homo sapiens
Macromolecule	Dihydroorotate dehydrogenase (quinone), mitochondrial (protein)
Unique Ligands	ACT, CL, DDQ, DET, FMN, GOL, NA, ORO, R4P

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6ZO6 \| pdb_00006zo6	Download File View File

Minocycline binding to the deep binding pocket of AcrB-G619P

Tam, H.K., Foong, W.E., Pos, K.M.

(2021) Nat Commun 12: 3889-3889

Released	2021-05-19
Method	X-RAY DIFFRACTION 2.35 Å
Organisms	Escherichia coli K-12 synthetic construct
Macromolecule	DARPIN (protein) Multidrug efflux pump subunit AcrB (protein)
Unique Ligands	1PE, 8K6, C14, CL, D10, D12, DDQ, DDR, EDO, GOL, HEX, LMT, LPX, MIY, MYS, OCT, PG4, PGE, PTY, R16, SO4

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6ZO7 \| pdb_00006zo7	Download File View File

3-Formylrifamycin SV binding to the access pocket of AcrB-G619P L and T protomer

Tam, H.K., Foong, W.E., Pos, K.M.

(2021) Nat Commun 12: 3889-3889

Released	2021-05-19
Method	X-RAY DIFFRACTION 2.85 Å
Organisms	Escherichia coli K-12 synthetic construct
Macromolecule	DARPIN (protein) Multidrug efflux pump subunit AcrB (protein)
Unique Ligands	3YI, CL, D10, D12, DDQ, EDO, GOL, HEX, LMT, NA, PTY, R16, SO4

1 to 25 of 36 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

Membrane Protein Annotation

Symmetry Type

SCOP Classification

1D3G | pdb_00001d3g

1FI1 | pdb_00001fi1

1GVM | pdb_00001gvm

1HCX | pdb_00001hcx

1QFF | pdb_00001qff

1QFG | pdb_00001qfg

1W52 | pdb_00001w52

2F6M | pdb_00002f6m

2PRH | pdb_00002prh

2PRL | pdb_00002prl

2WV8 | pdb_00002wv8

3NOK | pdb_00003nok

3W7R | pdb_00003w7r

4KAV | pdb_00004kav

4XU4 | pdb_00004xu4

5UXI | pdb_00005uxi

6ET4 | pdb_00006et4

6GK0 | pdb_00006gk0

6O9V | pdb_00006o9v

6Q4N | pdb_00006q4n

6Q4O | pdb_00006q4o

6Q4P | pdb_00006q4p

6VND | pdb_00006vnd

6ZO6 | pdb_00006zo6

6ZO7 | pdb_00006zo7