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| | <SX load='5vrf' size='340' side='right' viewer='molstar' caption='[[5vrf]], [[Resolution|resolution]] 4.10Å' scene=''> | | <SX load='5vrf' size='340' side='right' viewer='molstar' caption='[[5vrf]], [[Resolution|resolution]] 4.10Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5vrf]] is a 2 chain structure with sequence from [http://en.wikipedia.org/wiki/Sheon Sheon]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VRF OCA]. For a <b>guided tour on the structure components</b> use [http://proteopedia.org/fgij/fg.htm?mol=5VRF FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5vrf]] is a 2 chain structure with sequence from [https://en.wikipedia.org/wiki/Shewanella_oneidensis_MR-1 Shewanella oneidensis MR-1]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5VRF OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5VRF FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> | + | </td></tr><tr id='method'><td class="sblockLbl"><b>[[Empirical_models|Method:]]</b></td><td class="sblockDat" id="methodDat">Electron Microscopy, [[Resolution|Resolution]] 4.1Å</td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">fieF, SO_4475 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=211586 SHEON])</td></tr> | + | <tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=ZN:ZINC+ION'>ZN</scene></td></tr> |
| - | <tr id='resources'><td class="sblockLbl"><b>Resources:</b></td><td class="sblockDat"><span class='plainlinks'>[http://proteopedia.org/fgij/fg.htm?mol=5vrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vrf OCA], [http://pdbe.org/5vrf PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5vrf RCSB], [http://www.ebi.ac.uk/pdbsum/5vrf PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5vrf ProSAT]</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=5vrf FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5vrf OCA], [https://pdbe.org/5vrf PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5vrf RCSB], [https://www.ebi.ac.uk/pdbsum/5vrf PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5vrf ProSAT]</span></td></tr> |
| | </table> | | </table> |
| - | <div style="background-color:#fffaf0;">
| + | == Function == |
| - | == Publication Abstract from PubMed == | + | [https://www.uniprot.org/uniprot/Q8E919_SHEON Q8E919_SHEON] |
| - | YiiP is a dimeric antiporter from the cation diffusion facilitator family that uses the proton motive force to transport Zn(2+) across bacterial membranes. Previous work defined the atomic structure of an outward-facing conformation, the location of several Zn(2+) binding sites, and hydrophobic residues that appear to control access to the transport sites from the cytoplasm. A low-resolution cryo-EM structure revealed changes within the membrane domain that were associated with the alternating access mechanism for transport. In the current work, the resolution of this cryo-EM structure has been extended to 4.1 A. Comparison with the X-ray structure defines the differences between inward-facing and outward-facing conformations at an atomic level. These differences include rocking and twisting of a four-helix bundle that harbors the Zn(2+) transport site and controls its accessibility within each monomer. As previously noted, membrane domains are closely associated in the dimeric structure from cryo-EM but dramatically splayed apart in the X-ray structure. Cysteine crosslinking was used to constrain these membrane domains and to show that this large-scale splaying was not necessary for transport activity. Furthermore, dimer stability was not compromised by mutagenesis of elements in the cytoplasmic domain, suggesting that the extensive interface between membrane domains is a strong determinant of dimerization. As with other secondary transporters, this interface could provide a stable scaffold for movements of the four-helix bundle that confers alternating access of these ions to opposite sides of the membrane.
| + | |
| - | | + | |
| - | Structural basis for the alternating access mechanism of the cation diffusion facilitator YiiP.,Lopez-Redondo ML, Coudray N, Zhang Z, Alexopoulos J, Stokes DL Proc Natl Acad Sci U S A. 2018 Mar 5. pii: 1715051115. doi:, 10.1073/pnas.1715051115. PMID:29507252<ref>PMID:29507252</ref>
| + | |
| - | | + | |
| - | From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.<br>
| + | |
| - | </div>
| + | |
| - | <div class="pdbe-citations 5vrf" style="background-color:#fffaf0;"></div>
| + | |
| - | == References ==
| + | |
| - | <references/>
| + | |
| | __TOC__ | | __TOC__ |
| | </SX> | | </SX> |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Sheon]] | + | [[Category: Shewanella oneidensis MR-1]] |
| - | [[Category: Alexopoulos, J]] | + | [[Category: Alexopoulos J]] |
| - | [[Category: Coudray, N]] | + | [[Category: Coudray N]] |
| - | [[Category: Lopez-Redondo, M]] | + | [[Category: Lopez-Redondo M]] |
| - | [[Category: Stokes, D L]] | + | [[Category: Stokes DL]] |
| - | [[Category: TEMIMPS, Transcontinental EM Initiative for Membrane Protein Structure]]
| + | [[Category: Zhang Z]] |
| - | [[Category: Zhang, Z]] | + | |
| - | [[Category: Cation diffusion facilitator]]
| + | |
| - | [[Category: Helical crystal]]
| + | |
| - | [[Category: Membrane protein]]
| + | |
| - | [[Category: Metal transport]]
| + | |
| - | [[Category: Psi-biology]]
| + | |
| - | [[Category: Structural genomic]]
| + | |
| - | [[Category: Temimp]]
| + | |
| - | [[Category: Transcontinental em initiative for membrane protein structure]]
| + | |
| - | [[Category: Zinc antiporter]]
| + | |
