본문으로 바로가기

이전 사이트 이동 logo

로그인 회원가입 KOR
KOR ENG
KBI 검색
검색폼

Go Back
전자현미경 데이터
MTC-Olfr412-miniGs-nb35 활성 복합체
  • Accession
    KIX10061652
  • Submission date
    2026-09-15
Project Detail
Dataset detail - Accession, 프로젝트의 영문 제목, 프로젝트의 국문 제목, 프로젝트의 영문 설명, 프로젝트의 국문 설명
Accession
 KAP242598
프로젝트의 영문 제목
Structural basis of odorant recognition by a mammalian class II odorant receptor
프로젝트의 국문 제목
포유류 2형 후각 수용체의 후각 물질 인식에 관한 구조 연구
프로젝트의 영문 설명
This study determined the cryo-EM structure of the active complex of Olfr412, a native mammalian class II odorant receptor. Olfr412 is the mouse ortholog of human OR1D2, and the active complex consists of Olfr412, the odorant methyl-trans-cinnamate, the Gs protein, and Nb35. The odorant-binding pocket of Olfr412 is located deeper within the transmembrane domain than that of the previously reported class I odorant receptor OR51E2. This pocket is composed of poorly conserved hydrophobic residues, providing a molecular basis for broad odorant recognition in class II ORs. Structural analysis and molecular dynamics simulations further revealed that the conserved Y6x55 plays a key role in odorant recognition and activation, functionally paralleling R6x59 in class I ORs, while its interaction with the conserved ECL2 residue E45x51 further stabilizes Y6x55. These findings uncover structural mechanisms underlying odorant recognition and activation in class II ORs.
프로젝트의 국문 설명
이 연구는 자연형 포유류 2형 후각 수용체인 Olfr412의 활성 복합체 구조를 Cryo-EM 기법으로 규명하였다. Olfr412는 인간 OR1D2의 쥐 상동 수용체이며, 본 연구에서 규명한 활성 복합체는 Olfr412, 후각 물질 methyl-trans-cinnamate, Gs 단백질 및 Nb35로 구성된다. Olfr412의 후각 물질 결합 주머니는 기존에 보고된 1형 후각 수용체 OR51E2보다 막관통 영역 내 더 깊은 위치에 형성되어 있다. 이 결합 주머니는 서열 보존성이 낮은 소수성 잔기들로 구성되어 있으며, 이는 2형 후각 수용체가 다양한 후각 물질을 인식할 수 있는 분자적 기반을 제시한다. 구조 분석과 분자동역학 시뮬레이션을 통해, 1형 후각 수용체에서 보존된 막관통 나선 6 상단부의 아르기닌에 대응하는 위치의 티로신이 2형 후각 수용체의 후각 물질 인식과 활성화에 핵심적인 역할을 함을 밝혔다. 이 티로신은 세포외 루프 2의 글루타민산과 상호작용하여 수용체의 활성 상태를 안정화한다. 이를 통해 본 연구는 2형 후각 수용체의 후각 물질 인식과 활성화에 관여하는 구조적 기전을 밝혔다.
메타데이터 정보
메타데이터 입력
장비 유형
TEM
Name
최희정
Email address
choihj@snu.ac.kr
Role assignment
Principal investgator
Contributor
Contributor name
Contributor email
Contributor role assignment
Contributor role notation
typeOfInstrument
TEM
Representative image data file
Title - English
MTC-Olfr412-miniGs-nb35 complex
Title - Korean
MTC-Olfr412-miniGs-nb35 활성 복합체
Experimental method
Single particle analysis
Raw Data
Data upload
Pixel size
Pixel size
Pixel units
Accelerating Voltage
Working distance
Emission current
Signal type
Stage temperature
Map data
Map data
Select raw data
Annotated data upload
Light micrograph for CLEM
Light micrograph data upload
Light micrograph - Manufacturer and model
Light source type
Objective Magnification
Optical section (Z)
Optical section (Z) thickness
Timelapse (T)
Timelapse (T) fps
Information for channels and target molecules
Data type
Process information
Image format
Image analysis program
Description of the light micrograph for CLEM
Raw Data
Data upload
Pixel size For Data upload
Pixel size
Pixel units
Stage Tilt
Tilt angle (alpha axis)
Tilt angle (beta axis)
EMPIAR ID
Description of the raw data
Map data
Annotated data
Select raw data
Annotated data upload
Description of the annotated data
Light micrograph for CLEM
Light micrograph data upload
Light micrograph - Manufacturer and model
Light source type
Objective Magnification
Optical section (Z)
Optical section (Z) thickness
Timelapse (T)
Timelapse (T) fps
Information for channels and target molecules
Data type
Process information
Image format
Image analysis program
Description of the light micrograph for CLEM
Raw Data
Data upload
Data upload
Pixel size
Pixel size
0.828
Pixel units
Å
Select the raw data type of SPA
Raw multiframe(raw movies)
Stage Tilt
Tilt angle (alpha axis)
Tilt angle (beta axis)
EMPIAR ID
Web database deposition ID
Enter EMDB ID
EMD-65621
Enter PDB ID
9W45
Description of input data
Map data
Yes
Map data
Upload map data
Pixel size
Pixel size
0.828
Pixel units
Å
Select the map data type
Sharpened map
Recommended contour level
Resolution at 0.143 FSC
Applied symmetry
Software for reconstruction
Other database id
Enter EMDB ID
Enter PDB ID
Description of map data
Raw Data
Other types of raw data
Data upload
Pixel size
Pixel size
Pixel units
Select the raw data type of SPA
Stage Tilt
Tilt angle (alpha axis)
Tilt angle (beta axis)
EMPIAR ID
Web database deposition ID
Enter EMDB ID
Enter PDB ID
Description of input data
Map data
Map data
Upload map data
Pixel size
Pixel size
Pixel units
Select the map data type
Recommended contour level
Resolution at 0.143 FSC
Helical parameter
Rise value of helical parameter
Twist value of helical parameter
Software for refinement
Other database id
Enter EMDB ID
Enter PDB ID
Description of map data
Raw Data
Upload raw tilt series / serial sectioning data
Annotated data
Select raw data
Pixel size
Pixel size
Pixel units
Tilt series
Minimum angle
Maximum angle
Angle imcrement
Excluded views
Or write manually
Tilt axis (image rotation)
Add fiducial markers
Description of tilt series/ serial sectioning data
EMPIAR ID
Web database deposition ID
Enter EMDB ID
Enter PDB ID
Upload tomogram
Pixel size
Pixel size
Pixel units
Software for reconstruction
Description of tomogram data
Upload labeled data
Pixel size
Pixel size
Pixel units
Software for segmentation
Description of labeled data
Light micrograph for CLEM
Light micrograph data upload
Light micrograph - Manufacturer and model
Light source type
Objective Magnification
Optical section (Z)
Optical section (Z) thickness
Timelapse (T)
Timelapse (T) fps
Information for channels and target molecules
Data type
Process information
Image format
Image analysis program
Description of the light micrograph for CLEM
Raw Data
Upload averaged 3D map data
Pixel size
Pixel size
Pixel units
Recommended contour level
Resolution at 0.143 FSC
Applied symmetry
Software for refinement
Upload raw tilt series
Pixel size
Pixel size
Pixel units
EMPIAR ID
Web database deposition ID
Enter EMDB ID
Enter PDB ID
Description of input data
Annotated data
Select raw data
Tilt series
Minimum angle
Maximum angle
Angle imcrement
Excluded views
Or write manually
Tilt axis (image rotation)
Add fiducial markers
Description of tilt series
Upload tomogram
Pixel size
Pixel size
Pixel units
Software for reconstruction
Description of tomogram data
Upload subtomograms
Pixel size
Pixel size
Pixel units
Upload labeled data
Pixel size
Pixel size
Pixel units
Software for segmentation
Description of labeled data
Light micrograph for CLEM
Light micrograph data upload
Light micrograph - Manufacturer and model
Light source type
Objective Magnification
Optical section (Z)
Optical section (Z) thickness
Timelapse (T)
Timelapse (T) fps
Information for channels and target molecules
Data type
Process information
Image format
Image analysis program
Description of the light micrograph for CLEM
typeOfInstrument
TEM
Category
Sample name
Scientific name
Natural source- Taxonomy ID (NCBI)
Sample Description
Category
Select raw data
Sample type
Sample name
Scientific name
Natural source- Taxonomy ID (NCBI)
Strain
Sample Description
Category
Select raw data
FoilHole_24046006_Data_23946408_49_20250225_054857_fractions.tiff,FoilHole_24046006_Data_23946448_49_20250225_054848_fractions.tiff,FoilHole_24046007_Data_23946408_36_20250225_060258_fractions.tiff,FoilHole_24046007_Data_23946448_36_20250225_060249_fractions.tiff,FoilHole_24046008_Data_23946408_20_20250225_060316_fractions.tiff,FoilHole_24046008_Data_23946448_20_20250225_060307_fractions.tiff,FoilHole_24046010_Data_23946408_2_20250225_060335_fractions.tiff,FoilHole_24046010_Data_23946448_2_20250225_060326_fractions.tiff
Sample type
Protein etc.
Protein
1 Protein name
Olfr412
Number of copies
1
Recombinant protein sequence
Recombinant protein sequence
DYKDDDDAMN GTEGPNFYVP FSNATGVVMD GGNQSGDSEF LLLGLSEVPE HQRILFWTFL SMYLVTVVGN VLIILAIGSD SHLHTPMYFFLANLSFTDLF FVTNTIPKML VSLQSQNKAI SYPGCLTQLF FLVSLVALDN LILAVMAYDR YVAICHPLHY TTAMSPKLCI LLLILCWALSILYGLIHTLL MTRVTFCGSR KIHYIFCEMY VLLRLACSNT HINHMMLIAT GCFVFLVPFG FMIMSYICIV RAILKIPSAS NKYKAFSTCASHLAVVALFY GTLCMVYLKP LHTYSMKDSV ATVMYAVVTP MMNPFIYSLR NKDMHGALGR LLRKPLQKLT
Description of recombinant protein sequence
DYKDDDDA(affinity tag) MNGTEGPNFYVPFSNATGVV(expression tag) MDGGNQSGDSEFLLLGLSEVPEHQRILFWTFLSMYLVTVVGNVLIILAIGSDSHLHTPMYFFLANLSFTDLFFVTNTIPKMLVSLQSQNKAISYPGCLTQLFFLVSLVALDNLILAVMAYDRYVAICHPLHYTTAMSPKLCILLLILCWALSILYGLIHTLLMTRVTFCGSRKIHYIFCEMYVLLRLACSNTHINHMMLIATGCFVFLVPFGFMIMSYICIVRAILKIPSASNKYKAFSTCASHLAVVALFYGTLCMVYLKPLHTYSMKDSVATVMYAVVTPMMNPFIYSLRNKDMHGALGRLLRKPLQKLT(Olfr412)
Total molecular weight of all identical protomers
38 kDa
Natural source
Scientific name
Mus musculus
Natural source- Taxonomy ID (NCBI)
10090
Strain
N/A
Expression source
Natural source와 다름
Protein
Organism used for expression
Homo sapiens
NCBI Taxonomy ID of expression source
9606
Cell strain of expression source
HEK293S GnTI-
2 Protein name
Nanobody 35
Number of copies
1
Recombinant protein sequence
Recombinant protein sequence
VQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWVRQAPGKGLEWVSDISQSGASISYTGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCARCPAPFTRDCFDVTSTTYAYRGQGTQVTVHHHHH
Description of recombinant protein sequence
VQLQESGGGLVQPGGSLRLSCAASGFTFSNYKMNWVRQAPGKGLEWVSDISQSGASISYTGSVKGRFTISRDNAKNTLYLQMNSLKPEDTAVYYCARCPAPFTRDCFDVTSTTYAYRGQGTQVTV(nb35) HHHHH(affinity tag)
Total molecular weight of all identical protomers
14.2 kDa
Natural source
Scientific name
Lama glama
Natural source- Taxonomy ID (NCBI)
9844
Strain
N/A
Expression source
Natural source와 다름
Protein
Organism used for expression
Escherichia coli
NCBI Taxonomy ID of expression source
562
Cell strain of expression source
Rosetta
3 Protein name
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1
Number of copies
1
Recombinant protein sequence
Recombinant protein sequence
HHHHHHLEVL FQGPGSSGSE LDQLRQEAEQ LKNQIRDARK ACADATLSQI TNNIDPVGRI QMRTRRTLRG HLAKIYAMHW GTDSRLLVSASQDGKLIIWD SYTTNKVHAI PLRSSWVMTC AYAPSGNYVA CGGLDNICSI YNLKTREGNV RVSRELAGHT GYLSCCRFLD DNQIVTSSGDTTCALWDIET GQQTTTFTGH TGDVMSLSLA PDTRLFVSGA CDASAKLWDV REGMCRQTFT GHESDINAIC FFPNGNAFAT GSDDATCRLFDLRADQELMT YSHDNIICGI TSVSFSKSGR LLLAGYDDFN CNVWDALKAD RAGVLAGHDN RVSCLGVTDD GMAVATGSWD SFLKIWN
Description of recombinant protein sequence
CATCACCATCACCATCAC(affinity tag) LEVLFQGP(cut site) GSSGS(linker) ELDQLRQEAEQLKNQIRDARKACADATLSQITNNIDPVGRIQMRTRRTLRGHLAKIYAMHWGTDSRLLVSASQDGKLIIWDSYTTNKVHAIPLRSSWVMTCAYAPSGNYVACGGLDNICSIYNLKTREGNVRVSRELAGHTGYLSCCRFLDDNQIVTSSGDTTCALWDIETGQQTTTFTGHTGDVMSLSLAPDTRLFVSGACDASAKLWDVREGMCRQTFTGHESDINAICFFPNGNAFATGSDDATCRLFDLRADQELMTYSHDNIICGITSVSFSKSGRLLLAGYDDFNCNVWDALKADRAGVLAGHDNRVSCLGVTDDGMAVATGSWDSFLKIWN(GNBA1 human 3-340)
Total molecular weight of all identical protomers
Natural source
Scientific name
Homo sapiens
Natural source- Taxonomy ID (NCBI)
9606
Strain
N/A
Expression source
Natural source와 다름
Protein
Organism used for expression
Spodoptera frugiperda
NCBI Taxonomy ID of expression source
7108
Cell strain of expression source
sf9
4 Protein name
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2
Number of copies
1
Recombinant protein sequence
Recombinant protein sequence
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFREKKFFCAIL
Description of recombinant protein sequence
MASNNTASIAQARKLVEQLKMEANIDRIKVSKAAADLMAYCEAHAKEDPLLTPVPASENPFREKKFFCAIL
Total molecular weight of all identical protomers
7.8 kDa
Natural source
Scientific name
Homo sapiens
Natural source- Taxonomy ID (NCBI)
9606
Strain
N/A
Expression source
Natural source와 다름
Protein
Organism used for expression
Spodoptera frugiperda
NCBI Taxonomy ID of expression source
7108
Cell strain of expression source
sf9
5 Protein name
miniGs
Number of copies
1
Recombinant protein sequence
Recombinant protein sequence
NSKTEDQRNEEKAQREANKKIEKQLQKDKQVYRATHRLLLLGADNSGKSTIVKQMRILHGGSGGSGGTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVDSSDYNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENARRIFNDCRDIIQRMHLRQYELL
Description of recombinant protein sequence
NSKTEDQRNEEKAQREANKKIEKQLQKDKQVYRATHRLLLLGADNSGKSTIVKQMRILHGGSGGSGGTSGIFETKFQVDKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVDSSDYNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENARRIFNDCRDIIQRMHLRQYELL
Total molecular weight of all identical protomers
28.8 kDa
Natural source
Scientific name
Homo sapiens
Natural source- Taxonomy ID (NCBI)
9606
Strain
N/A
Expression source
Natural source와 같음
Protein
Organism used for expression
NCBI Taxonomy ID of expression source
Cell strain of expression source
Ligand
Name of ligand
Methyl trans-cinnamate
Description of ligand
IUPAC Name: methyl (E)-3-phenylprop-2-enoate
Nucleic acid
Nucleic acid sequence
Description of nucleic acid
Natural source- Sample Description
Name
Scientific Name
Natural source- Taxonomy ID (NCBI)
Sample Description
Type of sample preparation method
Vitrification(for cryo-EM)
Sample preparation method information
Type of fixation
Fixation Infomation
Fixation description
Pre-staining solution formulation
Description of pre-staining procedure
Embedding resin
Resin mixture formulation
Ultra-thin section type
Thickness of section
Depth of serial section
Post-staining solution formulation
Description of post-staining method
Immuno-labeling
Immuno labeling object for fixation
Immuno-labeling method
Experiment condition
Labeling method
1st Antibody
Pimary antibody
Conjugated material of Primary antibody
Diameter of conjugated material
2nd Antibody
Secondary antibody
Conjugated material of Secondary antibody
Diameter of conjugated material
Description of immunostaining procedure
Fixation Infomation
Vitrification method
Equipment model name for Plunge freezing
Description of Plunge freezing
Equipment model name for high pressure freezing
Cryoprotectant for high pressure freezing
Description of high pressure freezing
Ultramicrotome Type
Equipment name for freeze substitution
Description of freeze substitution
Embedding resin
Resin mixture formulation
Ultra-thin section type
Thickness of section
Depth of serial section
Post-staining solution formulation
Description of post-staining method
Immuno-labeling
Immuno labeling
Immuno-labeling method
Experiment condition
Labeling method
1st Antibody
Pimary antibody
Conjugated material of Primary antibody
Diameter of conjugated material
2nd Antibody
Secondary antibody
Conjugated material of Secondary antibody
Diameter of conjugated material
Description of immunostaining procedure
Sample preparation method information
Concentration of sample used
Sample concentration
Unit
Applied sample volume
Staining solution
Description of staining
Grid Manufacturer
Grid type
Glow discharge applied
Surface polarity
Surface charge
Atmosphere
Immuno-labeling
Immuno labeling object for fixation
Immuno-labeling method
Experiment condition
Labeling method
1st Antibody
Pimary antibody
Conjugated material of Primary antibody
Diameter of conjugated material
2nd Antibody
Secondary antibody
Conjugated material of Secondary antibody
Diameter of conjugated material
Description of immunostaining procedure
Sample preparation method information
Vitrification method
Plunge freezing
Vitrification information
Concentration of sample used
Sample concentration
0.2
Unit
mg/mL
Applied sample volume
4 μL
Plunge freezer manufacturer
Plunge freezer model
Grid Manufacturer
Grid type
Glow discharge applied
Yes
Surface polarity
Hydrophillic
Surface charge
Negative
Atmosphere
air
Description of vitrification
Immuno-labeling
No
Immuno labeling object for vitrification
Immuno-labeling method
Experiment condition
Labeling method
1st Antibody
Pimary antibody
Conjugated material of Primary antibody
Diameter of conjugated material
2nd Antibody
Secondary antibody
Conjugated material of Secondary antibody
Diameter of conjugated material
Description of immunostaining procedure
Vitrification information
Method name
Concentration of sample used
Sample concentration
Unit
Applied sample volume
Plunge freezer manufacturer
Plunge freezer model
Grid Manufacturer
Grid type
Glow discharge applied
Surface polarity
Surface charge
Atmosphere
Description of vitrification
Immuno-labeling
Immuno labeling object for vitrification
Immuno-labeling method
Experiment condition
Labeling method
1st Antibody
Pimary antibody
Conjugated material of Primary antibody
Diameter of conjugated material
2nd Antibody
Secondary antibody
Conjugated material of Secondary antibody
Diameter of conjugated material
Description of immunostaining procedure
Sample preparation method information
Method name
Description of method
Immuno Labeling
Immuno-labeling method
Experiment condition
Labeling method
1st Antibody
Pimary antibody
Conjugated material of Primary antibody
Diameter of conjugated material
2nd Antibody
Secondary antibody
Conjugated material of Secondary antibody
Diameter of conjugated material
Description of immunostaining procedure
Sputtering
Coat target
Discharge current
Deposition time
Description of sputtering
typeOfInstrument
TEM
typeOfInstrument
TEM
Site
Site of data collection
Institute of Basic Science (IBS; Korea)
Site Address
Imaging Instrument - Manufacturer
Thermo Fisher Scientific(FEI)
Imaging Instrument - Model
Krios G4
Beam Source - Accelerating Voltage
300 kV
Detector - Manufacturer
GATAN
Instrument - Model
BioQuantum K3
Imaging mode
Bright field
Defocus range
Min
-0.8 μm
Max
-1.7 µm
Gun type
Gun type
Thermonic emission type
Filed emission type
Related data
KBI
  • 전자현미경 데이터
    1

K-BDS 바이오이미지 데이터는 과학적 조사, 교육, 연구 계획을 목적으로 하는 사용자에게 데이터에 대한 액세스를 제공되며, 데이터의 상업적 이용은 불가합니다.
사용자는 데이터의 소유권이 데이터를 제공한 사람에게 있으며, 각 데이터별로 데이터의 재사용 및 가공에 추가적인 제한이 있을 수 있음을 이해하며, 데이터의 재사용 및 가공에 대해서는 데이터 소유권자 (데이터 제공자)와 협의가 필요할 수 있음을 인지합니다.