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| | <StructureSection load='5b2n' size='340' side='right'caption='[[5b2n]], [[Resolution|resolution]] 1.58Å' scene=''> | | <StructureSection load='5b2n' size='340' side='right'caption='[[5b2n]], [[Resolution|resolution]] 1.58Å' scene=''> |
| | == Structural highlights == | | == Structural highlights == |
| - | <table><tr><td colspan='2'>[[5b2n]] is a 1 chain structure with sequence from [http://en.wikipedia.org/wiki/Flavobacteria_bacterium_s1-08 Flavobacteria bacterium s1-08]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B2N OCA]. For a <b>guided tour on the structure components</b> use [http://oca.weizmann.ac.il/oca-docs/fgij/fg.htm?mol=5B2N FirstGlance]. <br> | + | <table><tr><td colspan='2'>[[5b2n]] is a 1 chain structure with sequence from [https://en.wikipedia.org/wiki/Nonlabens_marinus_S1-08 Nonlabens marinus S1-08]. Full crystallographic information is available from [http://oca.weizmann.ac.il/oca-bin/ocashort?id=5B2N OCA]. For a <b>guided tour on the structure components</b> use [https://proteopedia.org/fgij/fg.htm?mol=5B2N FirstGlance]. <br> |
| - | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=D10:DECANE'>D10</scene>, <scene name='pdbligand=D12:DODECANE'>D12</scene>, <scene name='pdbligand=HEX:HEXANE'>HEX</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=RET:RETINAL'>RET</scene></td></tr> | + | </td></tr><tr id='ligand'><td class="sblockLbl"><b>[[Ligand|Ligands:]]</b></td><td class="sblockDat" id="ligandDat"><scene name='pdbligand=CL:CHLORIDE+ION'>CL</scene>, <scene name='pdbligand=D10:DECANE'>D10</scene>, <scene name='pdbligand=D12:DODECANE'>D12</scene>, <scene name='pdbligand=HEX:HEXANE'>HEX</scene>, <scene name='pdbligand=OCT:N-OCTANE'>OCT</scene>, <scene name='pdbligand=RET:RETINAL'>RET</scene></td></tr> |
| - | <tr id='gene'><td class="sblockLbl"><b>[[Gene|Gene:]]</b></td><td class="sblockDat">ClR, NMS_1267 ([http://www.ncbi.nlm.nih.gov/Taxonomy/Browser/wwwtax.cgi?mode=Info&srchmode=5&id=1454201 Flavobacteria bacterium S1-08])</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=5b2n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b2n OCA], [https://pdbe.org/5b2n PDBe], [https://www.rcsb.org/pdb/explore.do?structureId=5b2n RCSB], [https://www.ebi.ac.uk/pdbsum/5b2n PDBsum], [https://prosat.h-its.org/prosat/prosatexe?pdbcode=5b2n 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=5b2n FirstGlance], [http://oca.weizmann.ac.il/oca-bin/ocaids?id=5b2n OCA], [http://pdbe.org/5b2n PDBe], [http://www.rcsb.org/pdb/explore.do?structureId=5b2n RCSB], [http://www.ebi.ac.uk/pdbsum/5b2n PDBsum], [http://prosat.h-its.org/prosat/prosatexe?pdbcode=5b2n ProSAT]</span></td></tr> | + | |
| | </table> | | </table> |
| | + | == Function == |
| | + | [https://www.uniprot.org/uniprot/W8VZW3_9FLAO W8VZW3_9FLAO] |
| | <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: Flavobacteria bacterium s1-08]] | |
| | [[Category: Large Structures]] | | [[Category: Large Structures]] |
| - | [[Category: Hosaka, T]] | + | [[Category: Nonlabens marinus S1-08]] |
| - | [[Category: Kimura-Someya, T]] | + | [[Category: Hosaka T]] |
| - | [[Category: Shirouzu, M]] | + | [[Category: Kimura-Someya T]] |
| - | [[Category: Cell-free synthesis]]
| + | [[Category: Shirouzu M]] |
| - | [[Category: Light-driven chloride pump]] | + | |
| - | [[Category: Membrane protein]]
| + | |
| - | [[Category: Retinal]]
| + | |
| - | [[Category: Transport protein]]
| + | |
| Structural highlights
5b2n is a 1 chain structure with sequence from Nonlabens marinus S1-08. Full crystallographic information is available from OCA. For a guided tour on the structure components use FirstGlance.
| | Ligands: | , , , , , |
| Resources: | FirstGlance, OCA, PDBe, RCSB, PDBsum, ProSAT |
Function
W8VZW3_9FLAO
Publication Abstract from PubMed
The light-driven inward chloride ion-pumping rhodopsin Nonlabens marinus rhodopsin-3 (NM-R3), from a marine flavobacterium, belongs to a phylogenetic lineage distinct from the halorhodopsins known as archaeal inward chloride ion-pumping rhodopsins. NM-R3 and halorhodopsin have distinct motif sequences that are important for chloride ion binding and transport. In this study, we present the crystal structure of a new type of light-driven chloride ion pump, NM-R3, at 1.58 A resolution. The structure revealed the chloride ion translocation pathway and showed that a single chloride ion resides near the Schiff base. The overall structure, chloride ion-binding site, and translocation pathway of NM-R3 are different from those of halorhodopsin. Unexpectedly, this NM-R3 structure is similar to the crystal structure of the light-driven outward sodium ion pump, Krokinobacter eikastus rhodopsin 2. Structural and mutational analyses of NM-R3 revealed that most of the important amino acid residues for chloride ion pumping exist in the ion influx region, located on the extracellular side of NM-R3. In contrast, on the opposite side, the cytoplasmic regions of K. eikastus rhodopsin 2 were reportedly important for sodium ion pumping. These results provide new insight into ion selection mechanisms in ion pumping rhodopsins, in which the ion influx regions of both the inward and outward pumps are important for their ion selectivities.
Structural Mechanism for Light-driven Transport by a New Type of Chloride Ion Pump, Nonlabens marinus Rhodopsin-3.,Hosaka T, Yoshizawa S, Nakajima Y, Ohsawa N, Hato M, DeLong EF, Kogure K, Yokoyama S, Kimura-Someya T, Iwasaki W, Shirouzu M J Biol Chem. 2016 Aug 19;291(34):17488-95. doi: 10.1074/jbc.M116.728220. Epub, 2016 Jun 30. PMID:27365396[1]
From MEDLINE®/PubMed®, a database of the U.S. National Library of Medicine.
See Also
References
- ↑ Hosaka T, Yoshizawa S, Nakajima Y, Ohsawa N, Hato M, DeLong EF, Kogure K, Yokoyama S, Kimura-Someya T, Iwasaki W, Shirouzu M. Structural Mechanism for Light-driven Transport by a New Type of Chloride Ion Pump, Nonlabens marinus Rhodopsin-3. J Biol Chem. 2016 Aug 19;291(34):17488-95. doi: 10.1074/jbc.M116.728220. Epub, 2016 Jun 30. PMID:27365396 doi:http://dx.doi.org/10.1074/jbc.M116.728220
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