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- EMDB-69908: Cryo-EM structure of TRP melastatin channel in the desensitized s... -

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Basic information

Entry
Database: EMDB / ID: EMD-69908
TitleCryo-EM structure of TRP melastatin channel in the desensitized state, with icilin (10min)
Map data
Sample
  • Complex: Transient receptor potential cation channel subfamily M member 8
    • Protein or peptide: Transient receptor potential cation channel subfamily M member 8
KeywordsTRP / MEMBRANE PROTEIN
Biological speciesMus musculus (house mouse)
Methodsingle particle reconstruction / cryo EM / Resolution: 3.46 Å
AuthorsKim S-H / Park H / Lee HH
Funding support Korea, Republic Of, 1 items
OrganizationGrant numberCountry
Samsung Science and Technology FoundationSSTF-BA2101-13 Korea, Republic Of
CitationJournal: Nat Commun / Year: 2026
Title: Symmetry-driven gating of TRPM8 by PIP2 and menthol
Authors: Kim SH / Hong C / Park H / Ju Y / Hwang Y / Kim J / Ji S / Yu W / So I / Lee HH
History
DepositionMar 24, 2026-
Header (metadata) releaseJul 29, 2026-
Map releaseJul 29, 2026-
UpdateJul 29, 2026-
Current statusJul 29, 2026Processing site: PDBj / Status: Released

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Structure visualization

Supplemental images

emd_69908.png

Downloads & links

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Map

FileDownload / File: emd_69908.map.gz / Format: CCP4 / Size: 103 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
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Others
AxesZ (Sec.)Y (Row.)X (Col.)
1.05 Å/pix.
x 300 pix.
= 315. Å		1.05 Å/pix.
x 300 pix.
= 315. Å		1.05 Å/pix.
x 300 pix.
= 315. Å

Surface

Projections

Slices (1/3)

Slices (1/2)

Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 1.05 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 1.74
Minimum - Maximum-3.5728917 - 6.8235707
Average (Standard dev.)0.0017438405 (±0.30254182)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions300300300
Spacing300300300
CellA=B=C: 315.0 Å
α=β=γ: 90.0 °

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Supplemental data

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Half map: #1

Fileemd_69908_half_map_1.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_69908_half_map_2.map
Projections & Slices
AxesZYX

Projections

Slices (1/2)
Density Histograms

Histogram

Histogram (log scale)

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Sample components

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Entire : Transient receptor potential cation channel subfamily M member 8

EntireName: Transient receptor potential cation channel subfamily M member 8
Components
  • Complex: Transient receptor potential cation channel subfamily M member 8
    • Protein or peptide: Transient receptor potential cation channel subfamily M member 8

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Supramolecule #1: Transient receptor potential cation channel subfamily M member 8

SupramoleculeName: Transient receptor potential cation channel subfamily M member 8
type: complex / ID: 1 / Parent: 0 / Macromolecule list: all
Source (natural)Organism: Mus musculus (house mouse)

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Macromolecule #1: Transient receptor potential cation channel subfamily M member 8

MacromoleculeName: Transient receptor potential cation channel subfamily M member 8
type: protein_or_peptide / ID: 1 / Enantiomer: LEVO
Source (natural)Organism: Mus musculus (house mouse)
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: GPARGIQSFE GARLSMRSRR NGTMGSTRTL YSSVSRSTDV SYSDSDLVNF IQANFKKREC VFFTRDSKAM ENICKCGYAQ SQHIEGTQIN QNEKWNYKKH TKEFPTDAFG DIQFETLGKK GKYLRLSCDT DSETLYELLT QHWHLKTPNL VISVTGGAKN FALKPRMRKI ...String:
GPARGIQSFE GARLSMRSRR NGTMGSTRTL YSSVSRSTDV SYSDSDLVNF IQANFKKREC VFFTRDSKAM ENICKCGYAQ SQHIEGTQIN QNEKWNYKKH TKEFPTDAFG DIQFETLGKK GKYLRLSCDT DSETLYELLT QHWHLKTPNL VISVTGGAKN FALKPRMRKI FSRLIYIAQS KGAWILTGGT HYGLMKYIGE VVRDNTISRN SEENIVAIGI AAWGMVSNRD TLIRSCDDEG HFSAQYIMDD FTRDPLYILD NNHTHLLLVD NGCHGHPTVE AKLRNQLEKY ISERTSQDSN YGGKIPIVCF AQGGGRETLK AINTSVKSKI PCVVVEGSGQ IADVIASLVE VEDVLTSSMV KEKLVRFLPR TVSRLPEEEI ESWIKWLKEI LESSHLLTVI KMEEAGDEIV SNAISYALYK AFSTNEQDKD NWNGQLKLLL EWNQLDLASD EIFTNDRRWE SADLQEVMFT ALIKDRPKFV RLFLENGLNL QKFLTNEVLT ELFSTHFSTL VYRNLQIAKN SYNDALLTFV WKLVANFRRS FWKEDRSSRE DLDVELHDAS LTTRHPLQAL FIWAILQNKK ELSKVIWEQT KGCTLAALGA SKLLKTLAKV KNDINAAGES EELANEYETR AVELFTECYS NDEDLAEQLL VYSCEAWGGS NCLELAVEAT DQHFIAQPGV QNFLSKQWYG EISRDTKNWK IILCLFIIPL VGCGLVSFRK KPIDKHKKLL WYYVAFFTSP FVVFSWNVVF YIAFLLLFAY VLLMDFHSVP HTPELILYAL VFVLFCDEVR QWYMNGVNYF TDLWNVMDTL GLFYFIAGIV FRLHSSNKSS LYSGRVIFCL DYIIFTLRLI HIFTVSRNLG PKIIMLQRML IDVFFFLFLF AVWMVAFGVA RQGILRQNEQ RWRWIFRSVI YEPYLAMFGQ VPSDVDSTTY DFSHCTFSGN ESKPLCVELD EHNLPRFPEW ITIPLVCIYM LSTNILLVNL LVAMFGYTVG IVQENNDQVW KFQRYFLVQE YCNRLNIPFP FVVFAYFYMV VKKCFKCCCK EKNMESNACC FRNEDNETLA WEGVMKENYL VKINTKANDN SEEMRHRFRQ LDSKLNDLKS LLKEIANNIK DYKDDDDK

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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: TFS FALCON 4i (4k x 4k) / Average electron dose: 50.0 e/Å2
Electron beamAcceleration voltage: 300 kV / Electron source: FIELD EMISSION GUN
Electron opticsIllumination mode: OTHER / Imaging mode: BRIGHT FIELD / Nominal defocus max: 2.0 µm / Nominal defocus min: 1.0 µm
Experimental equipment
Model: Titan Krios / Image courtesy: FEI Company

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Image processing

CTF correctionType: NONE
Startup modelType of model: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 3.46 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC / Number images used: 48308
Initial angle assignmentType: OTHER
Final angle assignmentType: OTHER

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