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- EMDB-23375: The structure of the insect olfactory receptor OR5 from Machilis ... -
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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-23375 | |||||||||
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Title | The structure of the insect olfactory receptor OR5 from Machilis hrabei in complex with DEET. | |||||||||
![]() | Odorant receptor OR5 from Machilis hrabei in complex with DEET. | |||||||||
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![]() | olfactory receptor / ion channel / membrane protein / DEET | |||||||||
Biological species | ![]() | |||||||||
Method | single particle reconstruction / cryo EM / Resolution: 2.9 Å | |||||||||
![]() | del Marmol J / Ruta V | |||||||||
Funding support | ![]()
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![]() | ![]() Title: The structural basis of odorant recognition in insect olfactory receptors. Authors: Josefina Del Mármol / Mackenzie A Yedlin / Vanessa Ruta / ![]() Abstract: Olfactory systems must detect and discriminate amongst an enormous variety of odorants. To contend with this challenge, diverse species have converged on a common strategy in which odorant identity ...Olfactory systems must detect and discriminate amongst an enormous variety of odorants. To contend with this challenge, diverse species have converged on a common strategy in which odorant identity is encoded through the combinatorial activation of large families of olfactory receptors, thus allowing a finite number of receptors to detect a vast chemical world. Here we offer structural and mechanistic insight into how an individual olfactory receptor can flexibly recognize diverse odorants. We show that the olfactory receptor MhOR5 from the jumping bristletail Machilis hrabei assembles as a homotetrameric odorant-gated ion channel with broad chemical tuning. Using cryo-electron microscopy, we elucidated the structure of MhOR5 in multiple gating states, alone and in complex with two of its agonists-the odorant eugenol and the insect repellent DEET. Both ligands are recognized through distributed hydrophobic interactions within the same geometrically simple binding pocket located in the transmembrane region of each subunit, suggesting a structural logic for the promiscuous chemical sensitivity of this receptor. Mutation of individual residues lining the binding pocket predictably altered the sensitivity of MhOR5 to eugenol and DEET and broadly reconfigured the receptor's tuning. Together, our data support a model in which diverse odorants share the same structural determinants for binding, shedding light on the molecular recognition mechanisms that ultimately endow the olfactory system with its immense discriminatory capacity. | |||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 94.3 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 9.6 KB 9.6 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 10.4 KB | Display | ![]() |
Images | ![]() | 39.8 KB | ||
Filedesc metadata | ![]() | 5.1 KB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Validation report
Summary document | ![]() | 519.3 KB | Display | ![]() |
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Full document | ![]() | 518.8 KB | Display | |
Data in XML | ![]() | 11.8 KB | Display | |
Data in CIF | ![]() | 15.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 7ligMC ![]() 7licC ![]() 7lidC M: atomic model generated by this map C: citing same article ( |
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Similar structure data |
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Links
EMDB pages | ![]() ![]() |
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Map
File | ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Annotation | Odorant receptor OR5 from Machilis hrabei in complex with DEET. | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.03 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
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Sample components
-Entire : Homotetrameric olfactory receptor MhOR5 in complex with DEET
Entire | Name: Homotetrameric olfactory receptor MhOR5 in complex with DEET |
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Components |
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-Supramolecule #1: Homotetrameric olfactory receptor MhOR5 in complex with DEET
Supramolecule | Name: Homotetrameric olfactory receptor MhOR5 in complex with DEET type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: ![]() |
-Macromolecule #1: MhOR5
Macromolecule | Name: MhOR5 / type: protein_or_peptide / ID: 1 / Number of copies: 4 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() |
Molecular weight | Theoretical: 53.736695 KDa |
Recombinant expression | Organism: ![]() |
Sequence | String: GPGRAKIDVD SVDHTDDYIH LRKWIKRIGI ILRISGHWPF RLPHEKRNQH KSKFRQVYSC LVITLGFITC SCYCIGLCLS ESIAQALNN ITVTSYFLQS CVCYVSFIIN SRKLETLFNY LFENEVVGCP RGYKMSSIKT TLFRCKFVAF SLGILSFFGW L MWTLLPLA ...String: GPGRAKIDVD SVDHTDDYIH LRKWIKRIGI ILRISGHWPF RLPHEKRNQH KSKFRQVYSC LVITLGFITC SCYCIGLCLS ESIAQALNN ITVTSYFLQS CVCYVSFIIN SRKLETLFNY LFENEVVGCP RGYKMSSIKT TLFRCKFVAF SLGILSFFGW L MWTLLPLA VLVVDSGATG GGNQTSLRFV EAWYPFDTTT SPMNEVIAIY EAVAMIFLIT APMSSDIMFC VLMIFIVEHL KC LGMAIEC TLKGISTNQH QNIGFDDSVS DVNVQRRIVI GKESPIQSIH VPIKECSRQS SDAVFREKRH GTHHQIIRSH NYT DATSLC NIVDSHVKIY RTMEIVQSVY SSYFATLFFT SCLAVCALAY FLAATSTSFT RVPGMVLYLM YIFLRIFLLC LLAT EVAEQ GLNLCHAGYS SKLVLASDHV RSTIQAIATR AQIPLSITGA RFFTVNLSFL ASMAGVMLTY FIVLLQVNAK PKP |
-Macromolecule #2: N,N-diethyl-3-methylbenzamide
Macromolecule | Name: N,N-diethyl-3-methylbenzamide / type: ligand / ID: 2 / Number of copies: 4 / Formula: DE3 |
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Molecular weight | Theoretical: 191.269 Da |
Chemical component information | ![]() ChemComp-DE3: |
-Experimental details
-Structure determination
Method | cryo EM |
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![]() | single particle reconstruction |
Aggregation state | particle |
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Sample preparation
Buffer | pH: 7.4 / Component - Concentration: 1.0 mM / Component - Name: DEET |
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Vitrification | Cryogen name: ETHANE |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Average electron dose: 1.51 e/Å2 |
Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |