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- EMDB-0093: Structure of human HCN4 hyperpolarization-activated cyclic nucleo... -
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Open data
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Basic information
Entry | Database: EMDB / ID: EMD-0093 | |||||||||
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Title | Structure of human HCN4 hyperpolarization-activated cyclic nucleotide-gated ion channel | |||||||||
![]() | Cryosparc sharpened map | |||||||||
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Function / homology | ![]() voltage-gated potassium channel activity involved in SA node cell action potential depolarization / sinoatrial node development / ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() ![]() Similarity search - Function | |||||||||
Biological species | ![]() ![]() | |||||||||
Method | ![]() ![]() | |||||||||
![]() | Shintre CA / Pike ACW | |||||||||
Funding support | ![]()
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![]() | ![]() Title: Structure of human HCN4 hyperpolarization-activated cyclic nucleotide-gated ion channel Authors: Shintre CA / Pike ACW / Tessitore A / Young M / Bushell SR / Strain-Damerell C / Mukhopadhyay S / Burgess-Brown NA / Huiskonen JT / Arrowsmith CH / Edwards AM / Bountra C / Carpenter EP | |||||||||
History |
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Structure visualization
Movie |
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Structure viewer | EM map: ![]() ![]() ![]() |
Supplemental images |
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Downloads & links
-EMDB archive
Map data | ![]() | 38 MB | ![]() | |
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Header (meta data) | ![]() ![]() | 21.6 KB 21.6 KB | Display Display | ![]() |
FSC (resolution estimation) | ![]() | 7.8 KB | Display | ![]() |
Images | ![]() | 189.4 KB | ||
Masks | ![]() | 40.6 MB | ![]() | |
Filedesc metadata | ![]() | 6.5 KB | ||
Others | ![]() ![]() ![]() | 20.3 MB 37.2 MB 37.2 MB | ||
Archive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 6gynMC ![]() 0094C ![]() 6gyoC M: atomic model generated by this map C: citing same article ( |
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Similar structure data |
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Links
EMDB pages | ![]() ![]() |
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Related items in Molecule of the Month |
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Map
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Annotation | Cryosparc sharpened map | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Voxel size | X=Y=Z: 1.34 Å | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Density |
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Symmetry | Space group: 1 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Details | EMDB XML:
CCP4 map header:
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-Supplemental data
-Mask #1
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Projections & Slices |
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Density Histograms |
-Additional map: Cryosparc unsharpened map
File | emd_0093_additional.map | ||||||||||||
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Annotation | Cryosparc unsharpened map | ||||||||||||
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Density Histograms |
-Half map: Half map1
File | emd_0093_half_map_1.map | ||||||||||||
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Annotation | Half map1 | ||||||||||||
Projections & Slices |
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Density Histograms |
-Half map: Half map2
File | emd_0093_half_map_2.map | ||||||||||||
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Annotation | Half map2 | ||||||||||||
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Density Histograms |
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Sample components
-Entire : Potassium/Sodium hyperpolarization-activated cyclic nucleotide-ga...
Entire | Name: Potassium/Sodium hyperpolarization-activated cyclic nucleotide-gated ion channel 4 |
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Components |
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-Supramolecule #1: Potassium/Sodium hyperpolarization-activated cyclic nucleotide-ga...
Supramolecule | Name: Potassium/Sodium hyperpolarization-activated cyclic nucleotide-gated ion channel 4 type: organelle_or_cellular_component / ID: 1 / Parent: 0 / Macromolecule list: #1 |
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Source (natural) | Organism: ![]() ![]() |
-Macromolecule #1: Potassium/sodium hyperpolarization-activated cyclic nucleotide-ga...
Macromolecule | Name: Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 type: protein_or_peptide / ID: 1 / Number of copies: 4 / Enantiomer: LEVO |
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Source (natural) | Organism: ![]() ![]() |
Molecular weight | Theoretical: 60.836754 KDa |
Recombinant expression | Organism: ![]() ![]() ![]() |
Sequence | String: SMLPEAEVRL GQAGFMQRQF GAMLQPGVNK FSLRMFGSQK AVEREQERVK SAGFWIIHPY SDFRFYWDLT MLLLMVGNLI IIPVGITFF KDENTTPWIV FNVVSDTFFL IDLVLNFRTG IVVEDNTEII LDPQRIKMKY LKSWFMVDFI SSIPVDYIFL I VETRIDSE ...String: SMLPEAEVRL GQAGFMQRQF GAMLQPGVNK FSLRMFGSQK AVEREQERVK SAGFWIIHPY SDFRFYWDLT MLLLMVGNLI IIPVGITFF KDENTTPWIV FNVVSDTFFL IDLVLNFRTG IVVEDNTEII LDPQRIKMKY LKSWFMVDFI SSIPVDYIFL I VETRIDSE VYKTARALRI VRFTKILSLL RLLRLSRLIR YIHQWEEIFH MTYDLASAVV RIVNLIGMML LLCHWDGCLQ FL VPMLQDF PDDCWVSINN MVNNSWGKQY SYALFKAMSH MLCIGYGRQA PVGMSDVWLT MLSMIVGATC YAMFIGHATA LIQ SLDSSR RQYQEKYKQV EQYMSFHKLP PDTRQRIHDY YEHRYQGKMF DEESILGELS EPLREEIINF NCRKLVASMP LFAN ADPNF VTSMLTKLRF EVFQPGDYII REGTIGKKMY FIQHGVVSVL TKGNKETKLA DGSYFGEICL LTRGRRTASV RADTY CRLY SLSVDNFNEV LEEYPMMRRA FETVALDRLD RIGKKNS UniProtKB: Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 4 |
-Macromolecule #2: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE
Macromolecule | Name: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE / type: ligand / ID: 2 / Number of copies: 28 / Formula: PC1 |
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Molecular weight | Theoretical: 790.145 Da |
Chemical component information | ![]() ChemComp-PC1: |
-Macromolecule #3: 1,2-Distearoyl-sn-glycerophosphoethanolamine
Macromolecule | Name: 1,2-Distearoyl-sn-glycerophosphoethanolamine / type: ligand / ID: 3 / Number of copies: 8 / Formula: 3PE |
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Molecular weight | Theoretical: 748.065 Da |
Chemical component information | ![]() ChemComp-3PE: |
-Experimental details
-Structure determination
Method | ![]() |
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Aggregation state | particle |
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Sample preparation
Concentration | 5 mg/mL | |||||||||||||||
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Buffer | pH: 7.5 Component:
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Grid | Model: Quantifoil R1.2/1.3 / Material: GOLD / Mesh: 400 / Support film - Material: CARBON / Support film - topology: HOLEY / Pretreatment - Type: GLOW DISCHARGE / Pretreatment - Time: 60 sec. / Pretreatment - Atmosphere: AIR | |||||||||||||||
Vitrification | Cryogen name: ETHANE / Chamber humidity: 100 % / Chamber temperature: 278 K / Instrument: FEI VITROBOT MARK IV / Details: blotted for 5.5s before plunge. |
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Electron microscopy
Microscope | FEI TITAN KRIOS |
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Electron beam | Acceleration voltage: 300 kV / Electron source: ![]() |
Electron optics | Illumination mode: FLOOD BEAM / Imaging mode: BRIGHT FIELD![]() |
Sample stage | Specimen holder model: FEI TITAN KRIOS AUTOGRID HOLDER / Cooling holder cryogen: NITROGEN |
Details | EBIC TITAN KRIOS M02 |
Image recording | Film or detector model: GATAN K2 SUMMIT (4k x 4k) / Detector mode: COUNTING / Digitization - Frames/image: 1-48 / Number grids imaged: 1 / Number real images: 1294 / Average exposure time: 12.0 sec. / Average electron dose: 48.7 e/Å2 |
Experimental equipment | ![]() Model: Titan Krios / Image courtesy: FEI Company |
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Image processing
-Atomic model buiding 1
Details | Model refined against the cryosparc b-factor sharpened map using default restraints |
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Refinement | Space: REAL / Protocol: AB INITIO MODEL |
Output model | ![]() PDB-6gyn: |