6TUI image
Entry Detail
PDB ID:
6TUI
EMDB ID:
Keywords:
Title:
Virion of empty GTA particle
Biological Source:
PDB Version:
Deposition Date:
2020-01-07
Release Date:
2020-10-14
Method Details:
Experimental Method:
Resolution:
10.47 Å
Aggregation State:
PARTICLE
Reconstruction Method:
SINGLE PARTICLE
Macromolecular Entities
Polymer Type:polypeptide(L)
Description:Portal protein Rcc01684
Chain IDs:UA (auth: A), VA (auth: B)
Chain Length:396
Number of Molecules:2
Biological Source:Rhodobacter capsulatus SB 1003
Polymer Type:polypeptide(L)
Description:Adaptor protein Rcc01688
Chain IDs:TA (auth: C), WA (auth: D)
Chain Length:197
Number of Molecules:2
Biological Source:Rhodobacter capsulatus SB 1003
Polymer Type:polypeptide(L)
Description:Phage major capsid protein, HK97 family
Chain IDs:A (auth: C5), B (auth: X4), C (auth: Y4), D (auth: Z4), E (auth: A5), F (auth: B5), G (auth: N4), H (auth: R4), I (auth: M4), J (auth: Q4), K (auth: O4), L (auth: P4), M (auth: W4), N (auth: U4), O (auth: T4), P (auth: S4), Q (auth: K4), R (auth: J4), S (auth: V4), T (auth: L4), U (auth: H4), V (auth: I4), W (auth: A4), X (auth: D4), Y (auth: E4), Z (auth: F4), AA (auth: G4), BA (auth: B4), CA (auth: C4)
Chain Length:385
Number of Molecules:29
Biological Source:Rhodobacter capsulatus SB 1003
Polymer Type:polypeptide(L)
Description:Uncharacterized protein
Chain IDs:DA (auth: D2), FA (auth: A2), GA (auth: C2), HA (auth: B2), IA (auth: E2), JA (auth: E3), LA (auth: B3), MA (auth: D3), NA (auth: C3), OA (auth: A3), PA (auth: A1)
Chain Length:84
Number of Molecules:11
Biological Source:Rhodobacter capsulatus SB 1003
Polymer Type:polypeptide(L)
Description:Stopper protein Rcc01689
Chain IDs:YA (auth: E)
Chain Length:112
Number of Molecules:1
Biological Source:Rhodobacter capsulatus SB 1003
Polymer Type:polypeptide(L)
Description:Tail terminator protein Rcc01690
Chain IDs:XA (auth: F)
Chain Length:135
Number of Molecules:1
Biological Source:Rhodobacter capsulatus SB 1003
Polymer Type:polypeptide(L)
Description:Uncharacterized protein
Chain IDs:EA (auth: F2), KA (auth: F3)
Chain Length:325
Number of Molecules:2
Biological Source:Rhodobacter capsulatus SB 1003
Polymer Type:polypeptide(L)
Description:Tail tube protein Rcc01691
Chain IDs:QA (auth: H), RA (auth: I), SA (auth: J), ZA (auth: G)
Chain Length:137
Number of Molecules:4
Biological Source:Rhodobacter capsulatus SB 1003
Ligand Molecules
Primary Citation
Virion of empty GTA particle
Nat Commun 11 3034 ? (2020)
PMID: 32541663 DOI: 10.1038/s41467-020-16669-9

Abstact

Alphaproteobacteria, which are the most abundant microorganisms of temperate oceans, produce phage-like particles called gene transfer agents (GTAs) that mediate lateral gene exchange. However, the mechanism by which GTAs deliver DNA into cells is unknown. Here we present the structure of the GTA of Rhodobacter capsulatus (RcGTA) and describe the conformational changes required for its DNA ejection. The structure of RcGTA resembles that of a tailed phage, but it has an oblate head shortened in the direction of the tail axis, which limits its packaging capacity to less than 4,500 base pairs of linear double-stranded DNA. The tail channel of RcGTA contains a trimer of proteins that possess features of both tape measure proteins of long-tailed phages from the family Siphoviridae and tail needle proteins of short-tailed phages from the family Podoviridae. The opening of a constriction within the RcGTA baseplate enables the ejection of DNA into bacterial periplasm.

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Primary Citation of related structures