+Open data
-Basic information
Entry | Database: PDB / ID: 9bc6 | |||||||||
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Title | HCN1 M305L with propofol | |||||||||
Components | Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 1 | |||||||||
Keywords | MEMBRANE PROTEIN / Inhibitor / complex / nanodisc / transport protein | |||||||||
Function / homology | Function and homology information intracellular cAMP-activated cation channel activity involved in regulation of presynaptic membrane potential / HCN channels / general adaptation syndrome, behavioral process / HCN channel complex / retinal cone cell development / regulation of membrane depolarization / intracellularly cAMP-activated cation channel activity / apical protein localization / voltage-gated monoatomic cation channel activity / voltage-gated sodium channel activity ...intracellular cAMP-activated cation channel activity involved in regulation of presynaptic membrane potential / HCN channels / general adaptation syndrome, behavioral process / HCN channel complex / retinal cone cell development / regulation of membrane depolarization / intracellularly cAMP-activated cation channel activity / apical protein localization / voltage-gated monoatomic cation channel activity / voltage-gated sodium channel activity / voltage-gated potassium channel activity / potassium channel activity / sodium ion transmembrane transport / neuronal action potential / cAMP binding / cellular response to cAMP / presynaptic active zone membrane / potassium ion transmembrane transport / regulation of membrane potential / postsynaptic membrane / protein homotetramerization / axon / glutamatergic synapse / dendrite / identical protein binding / plasma membrane Similarity search - Function | |||||||||
Biological species | Homo sapiens (human) | |||||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.5 Å | |||||||||
Authors | Kim, E.D. / Nimigean, C.M. | |||||||||
Funding support | United States, 2items
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Citation | Journal: Nature / Year: 2024 Title: Propofol rescues voltage-dependent gating of HCN1 channel epilepsy mutants Authors: Kim, E.D. / Wu, X. / Lee, S. / Tibbs, G.R. / Cunningham, K.P. / Di Zanni, E. / Perez, M.E. / Goldstein, P.A. / Accardi, A. / Larsson, H.P. / Nimigean, C.M. | |||||||||
History |
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-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
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-Downloads & links
-Download
PDBx/mmCIF format | 9bc6.cif.gz | 384.1 KB | Display | PDBx/mmCIF format |
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PDB format | pdb9bc6.ent.gz | 303.2 KB | Display | PDB format |
PDBx/mmJSON format | 9bc6.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 9bc6_validation.pdf.gz | 1.6 MB | Display | wwPDB validaton report |
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Full document | 9bc6_full_validation.pdf.gz | 1.6 MB | Display | |
Data in XML | 9bc6_validation.xml.gz | 67.4 KB | Display | |
Data in CIF | 9bc6_validation.cif.gz | 100.5 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/bc/9bc6 ftp://data.pdbj.org/pub/pdb/validation_reports/bc/9bc6 | HTTPS FTP |
-Related structure data
Related structure data | 44425MC 8uc7C 8uc8C 9bc7C C: citing same article (ref.) M: map data used to model this data |
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Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
-Assembly
Deposited unit |
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1 |
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-Components
#1: Protein | Mass: 74625.695 Da / Num. of mol.: 4 / Mutation: M305L Source method: isolated from a genetically manipulated source Source: (gene. exp.) Homo sapiens (human) / Gene: HCN1, BCNG1 / Production host: Homo sapiens (human) / References: UniProt: O60741 #2: Chemical | ChemComp-PCW / #3: Chemical | ChemComp-PFL / Has ligand of interest | Y | |
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-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
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EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction |
-Sample preparation
Component | Name: HCN1 / Type: COMPLEX / Entity ID: #1 / Source: RECOMBINANT |
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Source (natural) | Organism: Homo sapiens (human) |
Source (recombinant) | Organism: Homo sapiens (human) |
Buffer solution | pH: 8 |
Specimen | Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES |
Vitrification | Cryogen name: ETHANE |
-Electron microscopy imaging
Experimental equipment | Model: Titan Krios / Image courtesy: FEI Company |
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Microscopy | Model: FEI TITAN KRIOS |
Electron gun | Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: OTHER |
Electron lens | Mode: BRIGHT FIELD / Nominal defocus max: 3200 nm / Nominal defocus min: 600 nm |
Image recording | Electron dose: 48.48 e/Å2 / Film or detector model: GATAN K3 (6k x 4k) |
-Processing
EM software | Name: PHENIX / Version: 1.21rc1_5109: / Category: model refinement | ||||||||||||||||||||||||
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CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||||||||||||||||||||||
3D reconstruction | Resolution: 2.5 Å / Resolution method: FSC 0.143 CUT-OFF / Num. of particles: 217000 / Symmetry type: POINT | ||||||||||||||||||||||||
Refine LS restraints |
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