1yq4
From Proteopedia
(New page: 200px<br /><applet load="1yq4" size="450" color="white" frame="true" align="right" spinBox="true" caption="1yq4, resolution 2.33Å" /> '''Avian respiratory co...) |
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| - | [[Image:1yq4.gif|left|200px]]<br /><applet load="1yq4" size=" | + | [[Image:1yq4.gif|left|200px]]<br /><applet load="1yq4" size="350" color="white" frame="true" align="right" spinBox="true" |
caption="1yq4, resolution 2.33Å" /> | caption="1yq4, resolution 2.33Å" /> | ||
'''Avian respiratory complex ii with 3-nitropropionate and ubiquinone'''<br /> | '''Avian respiratory complex ii with 3-nitropropionate and ubiquinone'''<br /> | ||
==Overview== | ==Overview== | ||
| - | We report three new structures of mitochondrial respiratory Complex II | + | We report three new structures of mitochondrial respiratory Complex II (succinate ubiquinone oxidoreductase, E.C. 1.3.5.1) at up to 2.1 A resolution, with various inhibitors. The structures define the conformation of the bound inhibitors and suggest the residues involved in substrate binding and catalysis at the dicarboxylate site. In particular they support the role of Arg(297) as a general base catalyst accepting a proton in the dehydrogenation of succinate. The dicarboxylate ligand in oxaloacetate-containing crystals appears to be the same as that reported for Shewanella flavocytochrome c treated with fumarate. The plant and fungal toxin 3-nitropropionic acid, an irreversible inactivator of succinate dehydrogenase, forms a covalent adduct with the side chain of Arg(297). The modification eliminates a trypsin cleavage site in the flavoprotein, and tandem mass spectroscopic analysis of the new fragment shows the mass of Arg(297) to be increased by 83 Da and to have the potential of losing 44 Da, consistent with decarboxylation, during fragmentation. |
==About this Structure== | ==About this Structure== | ||
| - | 1YQ4 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus] with BHG, FAD, FES, SF4, F3S, HEM, 3NP, UQ, PEE and GOL as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Succinate_dehydrogenase_(ubiquinone) Succinate dehydrogenase (ubiquinone)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.5.1 1.3.5.1] Full crystallographic information is available from [http:// | + | 1YQ4 is a [http://en.wikipedia.org/wiki/Protein_complex Protein complex] structure of sequences from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus] with <scene name='pdbligand=BHG:'>BHG</scene>, <scene name='pdbligand=FAD:'>FAD</scene>, <scene name='pdbligand=FES:'>FES</scene>, <scene name='pdbligand=SF4:'>SF4</scene>, <scene name='pdbligand=F3S:'>F3S</scene>, <scene name='pdbligand=HEM:'>HEM</scene>, <scene name='pdbligand=3NP:'>3NP</scene>, <scene name='pdbligand=UQ:'>UQ</scene>, <scene name='pdbligand=PEE:'>PEE</scene> and <scene name='pdbligand=GOL:'>GOL</scene> as [http://en.wikipedia.org/wiki/ligands ligands]. Active as [http://en.wikipedia.org/wiki/Succinate_dehydrogenase_(ubiquinone) Succinate dehydrogenase (ubiquinone)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=1.3.5.1 1.3.5.1] Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YQ4 OCA]. |
==Reference== | ==Reference== | ||
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[[Category: Protein complex]] | [[Category: Protein complex]] | ||
[[Category: Succinate dehydrogenase (ubiquinone)]] | [[Category: Succinate dehydrogenase (ubiquinone)]] | ||
| - | [[Category: Anderson, V | + | [[Category: Anderson, V E.]] |
| - | [[Category: Berry, E | + | [[Category: Berry, E A.]] |
[[Category: Cobessi, D.]] | [[Category: Cobessi, D.]] | ||
[[Category: Huang, L.]] | [[Category: Huang, L.]] | ||
| - | [[Category: Shen, J | + | [[Category: Shen, J T.]] |
[[Category: Sun, G.]] | [[Category: Sun, G.]] | ||
| - | [[Category: Tung, E | + | [[Category: Tung, E Y.]] |
[[Category: Wang, A.]] | [[Category: Wang, A.]] | ||
[[Category: 3NP]] | [[Category: 3NP]] | ||
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[[Category: respiratory chain]] | [[Category: respiratory chain]] | ||
| - | ''Page seeded by [http:// | + | ''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:07:55 2008'' |
Revision as of 14:08, 21 February 2008
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Avian respiratory complex ii with 3-nitropropionate and ubiquinone
Overview
We report three new structures of mitochondrial respiratory Complex II (succinate ubiquinone oxidoreductase, E.C. 1.3.5.1) at up to 2.1 A resolution, with various inhibitors. The structures define the conformation of the bound inhibitors and suggest the residues involved in substrate binding and catalysis at the dicarboxylate site. In particular they support the role of Arg(297) as a general base catalyst accepting a proton in the dehydrogenation of succinate. The dicarboxylate ligand in oxaloacetate-containing crystals appears to be the same as that reported for Shewanella flavocytochrome c treated with fumarate. The plant and fungal toxin 3-nitropropionic acid, an irreversible inactivator of succinate dehydrogenase, forms a covalent adduct with the side chain of Arg(297). The modification eliminates a trypsin cleavage site in the flavoprotein, and tandem mass spectroscopic analysis of the new fragment shows the mass of Arg(297) to be increased by 83 Da and to have the potential of losing 44 Da, consistent with decarboxylation, during fragmentation.
About this Structure
1YQ4 is a Protein complex structure of sequences from Gallus gallus with , , , , , , , , and as ligands. Active as Succinate dehydrogenase (ubiquinone), with EC number 1.3.5.1 Full crystallographic information is available from OCA.
Reference
3-nitropropionic acid is a suicide inhibitor of mitochondrial respiration that, upon oxidation by complex II, forms a covalent adduct with a catalytic base arginine in the active site of the enzyme., Huang LS, Sun G, Cobessi D, Wang AC, Shen JT, Tung EY, Anderson VE, Berry EA, J Biol Chem. 2006 Mar 3;281(9):5965-72. Epub 2005 Dec 21. PMID:16371358
Page seeded by OCA on Thu Feb 21 16:07:55 2008
Categories: Gallus gallus | Protein complex | Succinate dehydrogenase (ubiquinone) | Anderson, V E. | Berry, E A. | Cobessi, D. | Huang, L. | Shen, J T. | Sun, G. | Tung, E Y. | Wang, A. | 3NP | BHG | F3S | FAD | FES | GOL | HEM | PEE | SF4 | UQ | Complex ii | Cytochrome b | Heme protein | Iron sulfur protein | Membrane protein | Oxaloacetate nitropropionate ubiquinone | Oxidoreductase | Redox enzyme | Respiratory chain
