+Open data
-Basic information
Entry | Database: PDB / ID: 7t4f | ||||||
---|---|---|---|---|---|---|---|
Title | Structure of bacteriophage lambda tube protein V in C3 | ||||||
Components | Tail tube protein | ||||||
Keywords | VIRUS / Phage / Lambda / Siphoviridae / Tail / Tube | ||||||
Function / homology | Function and homology information virus tail, tube / symbiont genome ejection through host cell envelope, long flexible tail mechanism / viral tail assembly / host cell cytoplasm Similarity search - Function | ||||||
Biological species | Escherichia virus Lambda | ||||||
Method | ELECTRON MICROSCOPY / single particle reconstruction / cryo EM / Resolution: 2.7 Å | ||||||
Authors | Prokhorov, N.S. / Yang, Q. / Catalano, C.E. / Morais, M.C. | ||||||
Funding support | United States, 1items
| ||||||
Citation | Journal: To Be Published Title: Structure of bacteriophage lambda tube protein V in C6 Authors: Prokhorov, N.S. / Yang, Q. / Catalano, C.E. / Morais, M.C. | ||||||
History |
|
-Structure visualization
Structure viewer | Molecule: MolmilJmol/JSmol |
---|
-Downloads & links
-Download
PDBx/mmCIF format | 7t4f.cif.gz | 174.8 KB | Display | PDBx/mmCIF format |
---|---|---|---|---|
PDB format | pdb7t4f.ent.gz | 142.2 KB | Display | PDB format |
PDBx/mmJSON format | 7t4f.json.gz | Tree view | PDBx/mmJSON format | |
Others | Other downloads |
-Validation report
Arichive directory | https://data.pdbj.org/pub/pdb/validation_reports/t4/7t4f ftp://data.pdbj.org/pub/pdb/validation_reports/t4/7t4f | HTTPS FTP |
---|
-Related structure data
Related structure data | 25675MC 7t2eC C: citing same article (ref.) M: map data used to model this data |
---|---|
Similar structure data | Similarity search - Function & homologyF&H Search |
-Links
-Assembly
Deposited unit |
|
---|---|
1 |
|
-Components
#1: Protein | Mass: 25700.582 Da / Num. of mol.: 4 Source method: isolated from a genetically manipulated source Source: (gene. exp.) Escherichia virus Lambda / Gene: V, lambdap13 / Production host: Escherichia coli (E. coli) / References: UniProt: P03733 |
---|
-Experimental details
-Experiment
Experiment | Method: ELECTRON MICROSCOPY |
---|---|
EM experiment | Aggregation state: PARTICLE / 3D reconstruction method: single particle reconstruction |
-Sample preparation
Component | Name: Escherichia virus Lambda / Type: VIRUS / Entity ID: all / Source: RECOMBINANT |
---|---|
Molecular weight | Experimental value: NO |
Source (natural) | Organism: Escherichia virus Lambda |
Source (recombinant) | Organism: Escherichia coli (E. coli) |
Details of virus | Empty: NO / Enveloped: NO / Isolate: STRAIN / Type: VIRION |
Buffer solution | pH: 7.5 |
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 |
---|---|
Microscopy | Model: FEI TITAN KRIOS |
Electron gun | Electron source: FIELD EMISSION GUN / Accelerating voltage: 300 kV / Illumination mode: FLOOD BEAM |
Electron lens | Mode: BRIGHT FIELDBright-field microscopy / Nominal defocus max: 3000 nm / Nominal defocus min: 1000 nm |
Image recording | Electron dose: 35.6 e/Å2 / Film or detector model: GATAN K3 BIOQUANTUM (6k x 4k) |
-Processing
Software |
| ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|
CTF correction | Type: PHASE FLIPPING AND AMPLITUDE CORRECTION | ||||||||||||
Symmetry | Point symmetry: C3 (3 fold cyclic) | ||||||||||||
3D reconstruction | Resolution: 2.7 Å / Resolution method: FSC 3 SIGMA CUT-OFF / Num. of particles: 653608 / Symmetry type: POINT | ||||||||||||
Refinement | Cross valid method: NONE |