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| - | {{Large structure}}
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| | ==Crystal structure of a variant (Q133C in PSST) of Yarrowia lipolytica complex I== | | ==Crystal structure of a variant (Q133C in PSST) of Yarrowia lipolytica complex I== |
| - | <StructureSection load='6h8k' size='340' side='right' caption='[[6h8k]], [[Resolution|resolution]] 3.79Å' scene=''> | + | <StructureSection load='6h8k' size='340' side='right'caption='[[6h8k]], [[Resolution|resolution]] 3.79Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[6h8k]] is a 73 chain structure with sequence from [http://en.wikipedia.org/wiki/Yarrowia_lipolytica Yarrowia lipolytica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6H8K OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6H8K FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[6h8k]] is a 10 chain structure with sequence from [https://en.wikipedia.org/wiki/Yarrowia_lipolytica Yarrowia lipolytica]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=6H8K OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=6H8K FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene>, <scene name='pdbligand=SF4:IRON/SULFUR+CLUSTER'>SF4</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">X-ray diffraction, [[Resolution|Resolution]] 3.79Å</td></tr> |
| - | <tr id='NonStdRes'><td class="sblockLbl"><b>[[Non-Standard_Residue|NonStd Res:]]</b></td><td class="sblockDat"><scene name='pdbligand=UNK:UNKNOWN'>UNK</scene></td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=FES:FE2/S2+(INORGANIC)+CLUSTER'>FES</scene></td></tr> |
| - | <tr id='activity'><td class="sblockLbl"><b>Activity:</b></td><td class="sblockDat"><span class='plainlinks'>[http://en.wikipedia.org/wiki/NADH:ubiquinone_reductase_(H(+)-translocating) NADH:ubiquinone reductase (H(+)-translocating)], with EC number [http://www.brenda-enzymes.info/php/result_flat.php4?ecno=7.1.1.2 7.1.1.2] </span></td></tr>
| + | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[https://proteopedia.org/fgij/fg.htm?mol=6h8k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6h8k OCA], [https://pdbe.org/6h8k PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=6h8k RCSB], [https://www.ebi.ac.uk/pdbsum/6h8k PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=6h8k ProSAT]</span></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=6h8k FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=6h8k OCA], [http://pdbe.org/6h8k PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=6h8k RCSB], [http://www.ebi.ac.uk/pdbsum/6h8k PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=6h8k ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| - | {{Large structure}} | |
| | == Function == | | == Function == |
| - | [[http://www.uniprot.org/uniprot/NU4LM_YARLI NU4LM_YARLI]] Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone. [[http://www.uniprot.org/uniprot/NU2M_YARLI NU2M_YARLI]] Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone. [[http://www.uniprot.org/uniprot/NU1M_YARLI NU1M_YARLI]] Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone. [[http://www.uniprot.org/uniprot/NU3M_YARLI NU3M_YARLI]] Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone. | + | [https://www.uniprot.org/uniprot/NU1M_YARLI NU1M_YARLI] Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone. |
| | <div style="background-color:#fffaf0;"> | | <div style="background-color:#fffaf0;"> |
| | == Publication Abstract from PubMed == | | == Publication Abstract from PubMed == |
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| | __TOC__ | | __TOC__ |
| | </StructureSection> | | </StructureSection> |
| | + | [[Category: Large Structures]] |
| | [[Category: Yarrowia lipolytica]] | | [[Category: Yarrowia lipolytica]] |
| - | [[Category: Hunte, C]] | + | [[Category: Galemou Yoga E]] |
| - | [[Category: Wirth, C]] | + | [[Category: Hunte C]] |
| - | [[Category: Yoga, E Galemou]] | + | [[Category: Wirth C]] |
| - | [[Category: Zickermann, V]] | + | [[Category: Zickermann V]] |
| - | [[Category: Membrane protein]]
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| - | [[Category: Mitochondrial]]
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| - | [[Category: Nadh:ubiquinone oxidoreductase]]
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| - | [[Category: Oxidoreductase]]
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| - | [[Category: Respiratory chain]]
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| Structural highlights
Function
NU1M_YARLI Core subunit of the mitochondrial membrane respiratory chain NADH dehydrogenase (Complex I) that is believed to belong to the minimal assembly required for catalysis. Complex I functions in the transfer of electrons from NADH to the respiratory chain. The immediate electron acceptor for the enzyme is believed to be ubiquinone.
Publication Abstract from PubMed
Complex I (proton-pumping NADH:ubiquinone oxidoreductase) is the largest enzyme of the mitochondrial respiratory chain and a significant source of reactive oxygen species (ROS). We hypothesized that during energy conversion by complex I, electron transfer onto ubiquinone triggers the concerted rearrangement of three protein loops of subunits ND1, ND3, and 49-kDa thereby generating the power-stoke driving proton pumping. Here we show that fixing loop TMH1-2(ND3) to the nearby subunit PSST via a disulfide bridge introduced by site-directed mutagenesis reversibly disengages proton pumping without impairing ubiquinone reduction, inhibitor binding or the Active/Deactive transition. The X-ray structure of mutant complex I indicates that the disulfide bridge immobilizes but does not displace the tip of loop TMH1-2(ND3). We conclude that movement of loop TMH1-2(ND3) located at the ubiquinone-binding pocket is required to drive proton pumping corroborating one of the central predictions of our model for the mechanism of energy conversion by complex I proposed earlier.
Locking loop movement in the ubiquinone pocket of complex I disengages the proton pumps.,Cabrera-Orefice A, Yoga EG, Wirth C, Siegmund K, Zwicker K, Guerrero-Castillo S, Zickermann V, Hunte C, Brandt U Nat Commun. 2018 Oct 29;9(1):4500. doi: 10.1038/s41467-018-06955-y. PMID:30374105[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
References
- ↑ Cabrera-Orefice A, Yoga EG, Wirth C, Siegmund K, Zwicker K, Guerrero-Castillo S, Zickermann V, Hunte C, Brandt U. Locking loop movement in the ubiquinone pocket of complex I disengages the proton pumps. Nat Commun. 2018 Oct 29;9(1):4500. doi: 10.1038/s41467-018-06955-y. PMID:30374105 doi:http://dx.doi.org/10.1038/s41467-018-06955-y
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