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- PDB-6yeg: Hybrid structure of the SPP1 tail tube by solid-state NMR and cry... -
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Basic information
Entry | Database: PDB / ID: 6yeg | ||||||||||||||||||||||||||||
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Title | Hybrid structure of the SPP1 tail tube by solid-state NMR and cryo EM - Final EM Refinement | ||||||||||||||||||||||||||||
![]() | Tail tube protein gp17.1*![]() VIRAL PROTEIN / complex / tail tube / scaffolding / DNA transport | Function / homology | ![]() viral head-tail joining / virus tail, tube / symbiont genome ejection through host cell envelope, long flexible tail mechanism Similarity search - Function Biological species | ![]() Method | ELECTRON MICROSCOPY / SOLID-STATE NMR / helical reconstruction / na / cryo EM / Resolution: 4 Å | ![]() Zinke, M. / Sachowsky, K.A.A. / Zinn-Justin, S. / Ravelli, R. / Schroder, G.F. / Habeck, M. / Lange, A. | Funding support | European Union, 1items |
![]() ![]() Title: Architecture of the flexible tail tube of bacteriophage SPP1. Authors: Maximilian Zinke / Katrin A A Sachowsky / Carl Öster / Sophie Zinn-Justin / Raimond Ravelli / Gunnar F Schröder / Michael Habeck / Adam Lange / ![]() ![]() ![]() Abstract: Bacteriophage SPP1 is a double-stranded DNA virus of the Siphoviridae family that infects the bacterium Bacillus subtilis. This family of phages features a long, flexible, non-contractile tail that ...Bacteriophage SPP1 is a double-stranded DNA virus of the Siphoviridae family that infects the bacterium Bacillus subtilis. This family of phages features a long, flexible, non-contractile tail that has been difficult to characterize structurally. Here, we present the atomic structure of the tail tube of phage SPP1. Our hybrid structure is based on the integration of structural restraints from solid-state nuclear magnetic resonance (NMR) and a density map from cryo-EM. We show that the tail tube protein gp17.1 organizes into hexameric rings that are stacked by flexible linker domains and, thus, form a hollow flexible tube with a negatively charged lumen suitable for the transport of DNA. Additionally, we assess the dynamics of the system by combining relaxation measurements with variances in density maps. #1: ![]() Title: Spinal Column Architecture of the Flexible SPP1 Bacteriophage Tail Tube Authors: Zinke, M. / Sachowsky, K.A.A. / Oster, C. / Zinn-Justin, S. / Ravelli, R. / Schroder, G.F. / Habeck, M. / Lange, A. History |
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Structure visualization
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Structure viewer | Molecule: ![]() ![]() |
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PDBx/mmCIF format | ![]() | 343.5 KB | Display | ![]() |
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PDB format | ![]() | 283.6 KB | Display | ![]() |
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-Validation report
Summary document | ![]() | 602 KB | Display | ![]() |
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Full document | ![]() | 858 KB | Display | |
Data in XML | ![]() | 107.8 KB | Display | |
Data in CIF | ![]() | 92.5 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Related structure data | ![]() 10792MC ![]() 6yq5C M: map data used to model this data C: citing same article ( |
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Assembly
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NMR ensembles |
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Components
#1: Protein | Mass: 19674.451 Da / Num. of mol.: 12 Source method: isolated from a genetically manipulated source Source: (gene. exp.) ![]() ![]() ![]() |
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-Experimental details
-Experiment
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EM experiment | Aggregation state: HELICAL ARRAY / 3D reconstruction method: helical reconstruction | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
NMR experiment |
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Sample preparation
Component | Name: SPP1 tail tube / Type: COMPLEX / Entity ID: all / Source: RECOMBINANT | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Source (natural) | Organism: ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Source (recombinant) | Organism: ![]() ![]() | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Buffer solution | pH: 7.4 | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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Specimen | Embedding applied: NO / Shadowing applied: NO / Staining applied: NO / Vitrification applied: YES | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Vitrification | Cryogen name: ETHANE | ||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
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