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- EMDB-65271: The structure of DmOR67d-DmOrco in the apo state -

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Basic information

Entry
Database: EMDB / ID: EMD-65271
TitleThe structure of DmOR67d-DmOrco in the apo state
Map data
Sample
  • Complex: The structure of DmOR67d-DmOrco in the apo state
    • Protein or peptide: Odorant receptor 67d
    • Protein or peptide: Odorant receptor coreceptor
KeywordsOdorant Receptor / Complex / channel / MEMBRANE PROTEIN
Function / homology
Function and homology information


detection of pheromone / ionotropic olfactory receptor activity / sensory dendrite / olfactory receptor activity / response to pheromone / courtship behavior / detection of chemical stimulus involved in sensory perception of smell / olfactory behavior / odorant binding / cation channel complex ...detection of pheromone / ionotropic olfactory receptor activity / sensory dendrite / olfactory receptor activity / response to pheromone / courtship behavior / detection of chemical stimulus involved in sensory perception of smell / olfactory behavior / odorant binding / cation channel complex / behavioral response to ethanol / intracellularly gated calcium channel activity / coreceptor activity / dendrite membrane / sensory perception of smell / regulation of protein localization / calmodulin binding / cilium / dendrite / signal transduction / protein homodimerization activity / plasma membrane
Similarity search - Function
Olfactory receptor, insect / 7tm Odorant receptor
Similarity search - Domain/homology
Odorant receptor coreceptor / Odorant receptor 67d
Similarity search - Component
Biological speciesDrosophila melanogaster (fruit fly)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.9 Å
AuthorsWang J / Guo J
Funding support China, 1 items
OrganizationGrant numberCountry
Ministry of Science and Technology (MoST, China)2020YFA0908501 China
CitationJournal: Cell Res / Year: 2026
Title: Cryo-EM structures of Drosophila OR67d-Orco complexes reveal insect pheromone sensing mechanism.
Authors: Jiangqin Wang / Chuanyan Yang / Shenghai Chang / Dian Jiao / Jiahao Lin / Xiaotong Yang / Weijie Cai / Demin Ma / Zhong Jie Ding / Jia Huang / Jianhua Huang / Minrui Fan / Meiqin Hu / Yong ...Authors: Jiangqin Wang / Chuanyan Yang / Shenghai Chang / Dian Jiao / Jiahao Lin / Xiaotong Yang / Weijie Cai / Demin Ma / Zhong Jie Ding / Jia Huang / Jianhua Huang / Minrui Fan / Meiqin Hu / Yong Wang / Haoxing Xu / Nannan Su / Jiangtao Guo /
Abstract: Pheromones mediate intraspecific communication to regulate the physiology and behavior of animals, particularly insects. The detection of pheromones is initiated by the binding of pheromone ...Pheromones mediate intraspecific communication to regulate the physiology and behavior of animals, particularly insects. The detection of pheromones is initiated by the binding of pheromone molecules, e.g., 11-cis-vaccenyl acetate (cVA) in Drosophila, to specific receptor proteins in chemosensory neurons, but the underlying molecular mechanisms remain unclear. Here, we report structures of Drosophila pheromone receptor OR67d-Orco complexes in apo closed, pheromone-bound open, and synthetic agonist VUAA1-bound open conformations. OR67d and Orco assemble into a hetero-tetrameric channel with a 1:3 stoichiometry. In OR67d, the inverted L-shaped cVA or its analog binds into a deep and bent hydrophobic pocket, inducing both local and global conformational changes that lead to an asymmetrical opening of the channel gate. By comparison, VUAA1 binds to Orco instead of OR67d to cause a similar asymmetrical opening. Together, our studies reveal the structural basis for pheromone activation of hetero-tetrameric pheromone receptors.
History
DepositionJul 5, 2025-
Header (metadata) releaseJul 1, 2026-
Map releaseJul 1, 2026-
UpdateJul 1, 2026-
Current statusJul 1, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_65271.png

Downloads & links

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Map

FileDownload / File: emd_65271.map.gz / Format: CCP4 / Size: 52.7 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
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AxesZ (Sec.)Y (Row.)X (Col.)
0.93 Å/pix.
x 240 pix.
= 223.2 Å		0.93 Å/pix.
x 240 pix.
= 223.2 Å		0.93 Å/pix.
x 240 pix.
= 223.2 Å

Surface

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Images are generated by Spider.

Voxel sizeX=Y=Z: 0.93 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.016
Minimum - Maximum-0.044446114 - 0.0718316
Average (Standard dev.)0.00010858651 (±0.0028738647)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions240240240
Spacing240240240
CellA=B=C: 223.2 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #2

Fileemd_65271_half_map_1.map
Projections & Slices
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Density Histograms

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Histogram (log scale)

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Half map: #1

Fileemd_65271_half_map_2.map
Projections & Slices
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Sample components

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Entire : The structure of DmOR67d-DmOrco in the apo state

EntireName: The structure of DmOR67d-DmOrco in the apo state
Components
  • Complex: The structure of DmOR67d-DmOrco in the apo state
    • Protein or peptide: Odorant receptor 67d
    • Protein or peptide: Odorant receptor coreceptor

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Supramolecule #1: The structure of DmOR67d-DmOrco in the apo state

SupramoleculeName: The structure of DmOR67d-DmOrco in the apo state / type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Drosophila melanogaster (fruit fly)

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Macromolecule #1: Odorant receptor 67d

MacromoleculeName: Odorant receptor 67d / type: protein_or_peptide / ID: 1 / Number of copies: 1 / Enantiomer: LEVO
Source (natural)Organism: Drosophila melanogaster (fruit fly)
Molecular weightTheoretical: 43.936207 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: KVEPVERYCK VIRMIRFCVG FCGNDVADPN FRMWWLTYAV MAAIAFFFAC TGYTIYVGVV INGDLTIILQ ALAMVGSAVQ GLTKLLVTA NNASHMREVQ NTYEDIYREY GSKGDEYAKC LEKRIRITWT LLIGFMLVYI ILLGLVITFP IFYLLILHQK V LVMQFLIP ...String:
KVEPVERYCK VIRMIRFCVG FCGNDVADPN FRMWWLTYAV MAAIAFFFAC TGYTIYVGVV INGDLTIILQ ALAMVGSAVQ GLTKLLVTA NNASHMREVQ NTYEDIYREY GSKGDEYAKC LEKRIRITWT LLIGFMLVYI ILLGLVITFP IFYLLILHQK V LVMQFLIP FLDHTTDGGH LILTAAHVIL ITFGGFGNYG GDMYLFLFVT HVPLIKDIFC VKLTEFNELV MKRNDFPKVR AM LCDLLVW HQLYTRMLQT TKKIYSIVLF VQLSTTCVGL LCTISCIFMK AWPAAPLYLL YAAITLYTFC GLGTLVENSN EDF LSVIYT NCLWYELPVK EEKLIIMMLA KAQNEVVLTA ADMAPLSMNT ALQLTKGIYS FSMMLMNYLG

UniProtKB: Odorant receptor 67d

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Macromolecule #2: Odorant receptor coreceptor

MacromoleculeName: Odorant receptor coreceptor / type: protein_or_peptide / ID: 2 / Number of copies: 3 / Enantiomer: LEVO
Source (natural)Organism: Drosophila melanogaster (fruit fly)
Molecular weightTheoretical: 53.785227 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: PSKYTGLVAD LMPNIRAMKY SGLFMHNFTG GSAFMKKVYS SVHLVFLLMQ FTFILVNMAL NAEEVNELSG NTITTLFFTH CITKFIYLA VNQKNFYRTL NIWNQVNTHP LFAESDARYH SIALAKMRKL FFLVMLTTVA SATAWTTITF FGDSVKMVVD H ETNSSIPV ...String:
PSKYTGLVAD LMPNIRAMKY SGLFMHNFTG GSAFMKKVYS SVHLVFLLMQ FTFILVNMAL NAEEVNELSG NTITTLFFTH CITKFIYLA VNQKNFYRTL NIWNQVNTHP LFAESDARYH SIALAKMRKL FFLVMLTTVA SATAWTTITF FGDSVKMVVD H ETNSSIPV EIPRLPIKSF YPWNASHGMF YMISFAFQIY YVLFSMIHSN LCDVMFCSWL IFACEQLQHL KGIMKPLMEL SA SLDTYRP NSAALFRSLS ANSKSELIHN EEKDPGTDMD MSGIYSSKAD WGAQFRAPST LQSFGGNGGG GNGLVNGANP NGL TKKQEM MVRSAIKYWV ERHKHVVRLV AAIGDTYGAA LLLHMLTSTI KLTLLAYQAT KINGVNVYAF TVVGYLGYAL AQVF HFCIF GNRLIEESSS VMEAAYSCHW YDGSEEAKTF VQIVCQQCQK AMSISGAKFF TVSLDLFASV LGAVVTYFMV LVQLK

UniProtKB: Odorant receptor coreceptor

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Experimental details

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Structure determination

Methodcryo EM
Processingsingle particle reconstruction
Aggregation stateparticle

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Sample preparation

BufferpH: 8
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: GATAN K2 QUANTUM (4k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD / Nominal defocus max: 1.6 µm / Nominal defocus min: 0.8 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: PHASE FLIPPING AND AMPLITUDE CORRECTION
Startup modelType of model: OTHER
Final reconstructionResolution.type: BY AUTHOR / Resolution: 2.9 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: RELION (ver. 3.1) / Number images used: 234510
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD

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