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- EMDB-63737: The structure of THIK1 complexed with halothane -

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Basic information

Entry
Database: EMDB / ID: EMD-63737
TitleThe structure of THIK1 complexed with halothane
Map data
Sample
  • Complex: THIK1 complexed with halothane
    • Protein or peptide: Potassium channel subfamily K member 13
  • Ligand: 2-BROMO-2-CHLORO-1,1,1-TRIFLUOROETHANE
KeywordsComplex / Ion channel / MEMBRANE PROTEIN
Function / homology
Function and homology information


regulation of excitatory synapse pruning / Tandem pore domain halothane-inhibited K+ channel (THIK) / regulation of NLRP3 inflammasome complex assembly / Phase 4 - resting membrane potential / potassium ion leak channel activity / regulation of resting membrane potential / outward rectifier potassium channel activity / monoatomic ion channel complex / potassium channel activity / potassium ion transmembrane transport ...regulation of excitatory synapse pruning / Tandem pore domain halothane-inhibited K+ channel (THIK) / regulation of NLRP3 inflammasome complex assembly / Phase 4 - resting membrane potential / potassium ion leak channel activity / regulation of resting membrane potential / outward rectifier potassium channel activity / monoatomic ion channel complex / potassium channel activity / potassium ion transmembrane transport / protein heterodimerization activity / metal ion binding / identical protein binding / plasma membrane
Similarity search - Function
Two pore domain potassium channel, THIK / Two pore domain potassium channel / Potassium channel domain / Ion channel
Similarity search - Domain/homology
Potassium channel subfamily K member 13
Similarity search - Component
Biological speciesHomo sapiens (human)
Methodsingle particle reconstruction / cryo EM / Resolution: 2.92 Å
AuthorsDai Z / Yin YX
Funding support China, 1 items
OrganizationGrant numberCountry
National Natural Science Foundation of China (NSFC)82030081, 81874235 China
CitationJournal: To Be Published
Title: The structure of THIK1 complexed with halothane
Authors: Dai Z / Yin YX
History
DepositionMar 13, 2025-
Header (metadata) releaseMar 18, 2026-
Map releaseMar 18, 2026-
UpdateMar 18, 2026-
Current statusMar 18, 2026Processing site: PDBc / Status: Released

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Structure visualization

Supplemental images

emd_63737.png

Downloads & links

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Map

FileDownload / File: emd_63737.map.gz / Format: CCP4 / Size: 64 MB / Type: IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)
Projections & slices

Image control

Size
Brightness
Contrast
Others
AxesZ (Sec.)Y (Row.)X (Col.)
0.81 Å/pix.
x 256 pix.
= 206.848 Å		0.81 Å/pix.
x 256 pix.
= 206.848 Å		0.81 Å/pix.
x 256 pix.
= 206.848 Å

Surface

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Slices (2/3)

Images are generated by Spider.

Voxel sizeX=Y=Z: 0.808 Å
Density

Histogram

Histogram (log scale)
Contour LevelBy AUTHOR: 0.1
Minimum - Maximum-0.026580172 - 1.9204807
Average (Standard dev.)0.0013243768 (±0.021915348)
SymmetrySpace group: 1
Details

EMDB XML:

Map geometry
Axis orderXYZ
Origin000
Dimensions256256256
Spacing256256256
CellA=B=C: 206.848 Å
α=β=γ: 90.0 °

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Supplemental data

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Additional map: #1

Fileemd_63737_additional_1.map
Projections & Slices
AxesZYX

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Density Histograms

Histogram

Histogram (log scale)

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Half map: #2

Fileemd_63737_half_map_1.map
Projections & Slices
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Histogram

Histogram (log scale)

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Half map: #1

Fileemd_63737_half_map_2.map
Projections & Slices
AxesZYX

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Sample components

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Entire : THIK1 complexed with halothane

EntireName: THIK1 complexed with halothane
Components
  • Complex: THIK1 complexed with halothane
    • Protein or peptide: Potassium channel subfamily K member 13
  • Ligand: 2-BROMO-2-CHLORO-1,1,1-TRIFLUOROETHANE

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Supramolecule #1: THIK1 complexed with halothane

SupramoleculeName: THIK1 complexed with halothane / type: complex / ID: 1 / Parent: 0 / Macromolecule list: #1
Source (natural)Organism: Homo sapiens (human)

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Macromolecule #1: Potassium channel subfamily K member 13

MacromoleculeName: Potassium channel subfamily K member 13 / type: protein_or_peptide / ID: 1 / Number of copies: 2 / Enantiomer: LEVO
Source (natural)Organism: Homo sapiens (human)
Molecular weightTheoretical: 47.161113 KDa
Recombinant expressionOrganism: Homo sapiens (human)
SequenceString: MAGRGFSWGP GHLNEDNARF LLLAALIVLY LLGGAAVFSA LELAHERQAK QRWEERLANF SRGHNLSRDE LRGFLRHYEE ATRAGIRVD NVRPRWDFTG AFYFVGTVVS TIGFGMTTPA TVGGKIFLIF YGLVGCSSTI LFFNLFLERL ITIIAYIMKS C HQRQLRRR ...String:
MAGRGFSWGP GHLNEDNARF LLLAALIVLY LLGGAAVFSA LELAHERQAK QRWEERLANF SRGHNLSRDE LRGFLRHYEE ATRAGIRVD NVRPRWDFTG AFYFVGTVVS TIGFGMTTPA TVGGKIFLIF YGLVGCSSTI LFFNLFLERL ITIIAYIMKS C HQRQLRRR GALPQESLKD AGQCEVDSLA GWKPSVYYVM LILCTASILI SCCASAMYTP IEGWSYFDSL YFCFVAFSTI GF GDLVSSQ NAHYESQGLY RFANFVFILM GVCCIYSLFN VISILIKQSL NWILRKMDSG CCPQCQRGLL RSRRNVVMPG SVR NRCNIS IETDGVAESD TDGRRLSGEM ISMKDLLAAN KASLAILQKQ LSEMANGCPH QTSTLARDNE FSGGVGAFAI MNNR LAETS GDRLEGGVEG GVEENLYFQ

UniProtKB: Potassium channel subfamily K member 13

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Macromolecule #2: 2-BROMO-2-CHLORO-1,1,1-TRIFLUOROETHANE

MacromoleculeName: 2-BROMO-2-CHLORO-1,1,1-TRIFLUOROETHANE / type: ligand / ID: 2 / Number of copies: 2 / Formula: HLT
Molecular weightTheoretical: 197.382 Da
Chemical component information

ChemComp-HLT:
2-BROMO-2-CHLORO-1,1,1-TRIFLUOROETHANE

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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

Concentration2.2 mg/mL
BufferpH: 7.5
GridModel: Quantifoil R1.2/1.3 / Material: GOLD / Support film - Material: CARBON / Support film - topology: HOLEY
VitrificationCryogen name: ETHANE

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Electron microscopy

MicroscopeTFS KRIOS
Image recordingFilm or detector model: FEI FALCON IV (4k x 4k) / Number grids imaged: 1 / 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 / Cs: 2.7 mm / Nominal defocus max: 1.6 µm / Nominal defocus min: 1.0 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: NONE
Final reconstructionResolution.type: BY AUTHOR / Resolution: 2.92 Å / Resolution method: FSC 0.143 CUT-OFF / Software - Name: cryoSPARC (ver. 4.3.1) / Number images used: 61286
Initial angle assignmentType: MAXIMUM LIKELIHOOD
Final angle assignmentType: MAXIMUM LIKELIHOOD / Software - Name: cryoSPARC (ver. 4.3.1)
FSC plot (resolution estimation)

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