1yq4

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[[Image:1yq4.gif|left|200px]]<br /><applet load="1yq4" size="350" color="white" frame="true" align="right" spinBox="true"
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[[Image:1yq4.gif|left|200px]]
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caption="1yq4, resolution 2.33&Aring;" />
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'''Avian respiratory complex ii with 3-nitropropionate and ubiquinone'''<br />
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{{Structure
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|PDB= 1yq4 |SIZE=350|CAPTION= <scene name='initialview01'>1yq4</scene>, resolution 2.33&Aring;
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|SITE=
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|LIGAND= <scene name='pdbligand=BHG:2-HEXYLOXY-6-HYDROXYMETHYL-TETRAHYDRO-PYRAN-3,4,5-TRIOL'>BHG</scene>, <scene name='pdbligand=FAD:FLAVIN-ADENINE+DINUCLEOTIDE'>FAD</scene>, <scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene>, <scene name='pdbligand=F3S:FE3-S4+CLUSTER'>F3S</scene>, <scene name='pdbligand=HEM:PROTOPORPHYRIN+IX+CONTAINING+FE'>HEM</scene>, <scene name='pdbligand=3NP:3-NITROPROPANOIC+ACID'>3NP</scene>, <scene name='pdbligand=UQ:UBIQUINONE-10'>UQ</scene>, <scene name='pdbligand=PEE:PHOSPHATIDYLETHANOLAMINE'>PEE</scene> and <scene name='pdbligand=GOL:GLYCEROL'>GOL</scene>
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|ACTIVITY= [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]
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|GENE=
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}}
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'''Avian respiratory complex ii with 3-nitropropionate and ubiquinone'''
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==Overview==
==Overview==
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==About this Structure==
==About this Structure==
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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].
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1YQ4 is a [[Protein complex]] structure of sequences from [http://en.wikipedia.org/wiki/Gallus_gallus Gallus gallus]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=1YQ4 OCA].
==Reference==
==Reference==
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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:[http://ispc.weizmann.ac.il//pmbin/getpm?pmid=16371358 16371358]
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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:[http://www.ncbi.nlm.nih.gov/pubmed/16371358 16371358]
[[Category: Gallus gallus]]
[[Category: Gallus gallus]]
[[Category: Protein complex]]
[[Category: Protein complex]]
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[[Category: respiratory chain]]
[[Category: respiratory chain]]
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Feb 21 16:07:55 2008''
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''Page seeded by [http://oca.weizmann.ac.il/oca OCA ] on Thu Mar 20 15:26:02 2008''

Revision as of 13:26, 20 March 2008

Image:1yq4.gif


PDB ID 1yq4

Drag the structure with the mouse to rotate
, resolution 2.33Å
Ligands: , , , , , , , , and
Activity: Succinate dehydrogenase (ubiquinone), with EC number 1.3.5.1
Coordinates: save as pdb, mmCIF, xml



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. 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 Mar 20 15:26:02 2008

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