+Open data
-Basic information
Entry | Database: PDB / ID: 6klq | ||||||
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Title | Tropomyosin of cardiac thin filament in high-calcium state | ||||||
Components | Tropomyosin | ||||||
Keywords | CONTRACTILE PROTEIN / Cardiac thin filament | ||||||
Biological species | Mus musculus (house mouse) | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 7.7 Å | ||||||
Authors | Oda, T. / Yanagisawa, H. / Wakabayashi, T. | ||||||
Citation | Journal: J Struct Biol / Year: 2020 Title: Cryo-EM structures of cardiac thin filaments reveal the 3D architecture of troponin. Authors: Toshiyuki Oda / Haruaki Yanagisawa / Takeyuki Wakabayashi / Abstract: Troponin is an essential component of striated muscle and it regulates the sliding of actomyosin system in a calcium-dependent manner. Despite its importance, the structure of troponin has been ...Troponin is an essential component of striated muscle and it regulates the sliding of actomyosin system in a calcium-dependent manner. Despite its importance, the structure of troponin has been elusive due to its high structural heterogeneity. In this study, we analyzed the 3D structures of murine cardiac thin filaments using a cryo-electron microscope equipped with a Volta phase plate (VPP). Contrast enhancement by a VPP enabled us to reconstruct the entire repeat of the thin filament. We determined the orientation of troponin relative to F-actin and tropomyosin, and characterized the interactions between troponin and tropomyosin. This study provides a structural basis for understanding the molecular mechanism of actomyosin system. | ||||||
History |
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-Structure visualization
Movie |
Movie viewer |
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Structure viewer | Molecule: MolmilJmol/JSmol |
-Downloads & links
-Download
PDBx/mmCIF format | 6klq.cif.gz | 33.9 KB | Display | PDBx/mmCIF format |
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PDB format | pdb6klq.ent.gz | 26.9 KB | Display | PDB format |
PDBx/mmJSON format | 6klq.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Summary document | 6klq_validation.pdf.gz | 599.8 KB | Display | wwPDB validaton report |
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Full document | 6klq_full_validation.pdf.gz | 602.1 KB | Display | |
Data in XML | 6klq_validation.xml.gz | 15.2 KB | Display | |
Data in CIF | 6klq_validation.cif.gz | 22.2 KB | Display | |
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/kl/6klq ftp://data.pdbj.org/pub/pdb/validation_reports/kl/6klq | HTTPS FTP |
-Related structure data
Related structure data | 0715MC 0711C 0712C 0714C 0717C 0718C 0796C 0797C 0798C 0799C 0802C 0804C 0805C 0806C 0807C 0808C 6kllC 6klnC 6klpC 6kltC 6kluC C: citing same article (ref.) M: map data used to model this data |
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Similar structure data |
-Links
-Assembly
Deposited unit |
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-Components
#1: Protein | Mass: 11507.176 Da / Num. of mol.: 2 / Source method: isolated from a natural source / Source: (natural) Mus musculus (house mouse) / Organ: Heart / Strain: ICR Sequence details | Protein used in this study is tropomyosin 1alpha. Sequence details can be found at https://www.ncbi. ...Protein used in this study is tropomyosin 1alpha. Sequence details can be found at https://www.ncbi.nlm.nih.gov/gene/22003. | |
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-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
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EM experiment | Aggregation state: FILAMENT / 3D reconstruction method: single particle reconstruction |
-Sample preparation
Component | Name: Cardiac thin filament / Type: COMPLEX / Entity ID: all / Source: NATURAL |
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Source (natural) | Organism: Mus musculus (house mouse) / Organelle: Heart |
Buffer solution | pH: 7.2 |
Specimen | Conc.: 0.1 mg/ml / Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES |
Specimen support | Grid material: COPPER |
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: FLOOD BEAM |
Electron lens | Mode: BRIGHT FIELD |
Image recording | Average exposure time: 5.5 sec. / Electron dose: 60 e/Å2 / Film or detector model: GATAN K3 (6k x 4k) / Num. of real images: 8460 |
-Processing
EM software |
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CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||||||||||||||||||||||||||||||||||
Symmetry | Point symmetry: C1 (asymmetric) | ||||||||||||||||||||||||||||||||||||
3D reconstruction | Resolution: 7.7 Å / Resolution method: FSC 0.5 CUT-OFF / Num. of particles: 328766 / Symmetry type: POINT | ||||||||||||||||||||||||||||||||||||
Atomic model building | PDB-ID: 3J8A Accession code: 3J8A / Source name: PDB / Type: experimental model |