Database of articles cited by EMDB/PDB/SASBDB data

Keywords
Structure methods	All X-ray diffraction NMR electron microscopy small angle scattering neutron diffraction fiber diffraction powder diffraction infrared spectroscopy EPR fluorescence transfer theoretical model Hybrid
Author
Journal
IF	>30 >20 >10 >5 all

Title	Genome anchoring, retention, and release by neck proteins of Staphylococcus phage 812.
Journal, issue, pages	Commun Biol, Year 2026
Publish date	Jan 8, 2026
Authors	Zuzana Cieniková / Jiří Nováček / Marta Šiborová / Barbora Popelářová / Tibor Füzik / Tibor Botka / Martin Benešík / Pavol Bárdy / Roman Pantůček / Pavel Plevka /
PubMed Abstract	The virion of Staphylococcus phage 812 is formed by a capsid and a contractile tail joined together by neck proteins. The neck proteins are crucial for virion assembly, DNA packaging, and the ...The virion of Staphylococcus phage 812 is formed by a capsid and a contractile tail joined together by neck proteins. The neck proteins are crucial for virion assembly, DNA packaging, and the regulation of genome release, but their functions are not completely understood. Here, we show that the neck of phage 812 consists of portal, adaptor, stopper, tail terminator, and two types of decoration proteins. A dodecameric DNA-binding site at the surface of the portal complex anchors the phage genome inside the capsid. The adaptor complex induces a local B-to-A form transition of the DNA in the neck channel that could slow or pause genome translocation during ejection. The central channel of a stopper complex that is not attached to the tail terminator complex is closed by gating loops. In contrast, in the phage 812 virion, the gating loops are in an open conformation, and the DNA extends into the tail. The structure of neck proteins is not affected by tail sheath contraction. Therefore, the expulsion of tail tape measure proteins triggers the genome release.
External links	Commun Biol / PubMed:41507424
Methods	EM (single particle) / X-ray diffraction
Resolution	2.2 - 8.64 Å
Structure data	18048 8q01 EMDB-18048, PDB-8q01: Neck of phage 812 after tail contraction (C6) Method: EM (single particle) / Resolution: 3.58 Å 18065 8q1i EMDB-18065, PDB-8q1i: Neck-tail junction of phage 812 after tail contraction (C6) Method: EM (single particle) / Resolution: 3.53 Å 18213 8q7d EMDB-18213, PDB-8q7d: Neck of phage 812 after tail contraction (C12) Method: EM (single particle) / Resolution: 3.07 Å 18369 8qek EMDB-18369, PDB-8qek: Neck and tail of phage 812 after tail contraction (composite) Method: EM (single particle) / Resolution: 3.6 Å 18372 8qem EMDB-18372, PDB-8qem: Neck channel of phage 812 after tail contraction (C1) Method: EM (single particle) / Resolution: 3.96 Å EMDB-18385: Consensus density for neck and tail of phage 812 after tail contraction (C6) Method: EM (single particle) / Resolution: 4.23 Å EMDB-18395: Portal and anchor DNA of phage 812 after tail contraction (C1) Method: EM (single particle) / Resolution: 3.94 Å 18445 8qje EMDB-18445, PDB-8qje: Neck of phage 812 virion (C12) Method: EM (single particle) / Resolution: 4.16 Å 18462 8qkh EMDB-18462, PDB-8qkh: Neck of phage 812 virion (C6) Method: EM (single particle) / Resolution: 4.15 Å EMDB-18489: Tail channel of phage 812 virion (C3) Method: EM (single particle) / Resolution: 6.56 Å EMDB-18516: Tail channel of phage 812 virion (C1) Method: EM (single particle) / Resolution: 8.64 Å 18912 8r5g EMDB-18912, PDB-8r5g: Neck-tail junction of phage 812 virion (C6) Method: EM (single particle) / Resolution: 4.28 Å EMDB-18919: Consensus density for neck and tail of phage 812 virion (C6) Method: EM (single particle) / Resolution: 4.64 Å 18949 8r69 EMDB-18949, PDB-8r69: Neck and tail of phage 812 virion (composite) Method: EM (single particle) / Resolution: 4.3 Å PDB-8qgr: Stopper protein of phage 812 in closed conformation Method: X-RAY DIFFRACTION / Resolution: 2.2 Å
Chemicals	ChemComp-ZN: Unknown entry ChemComp-HOH: WATER
Source	staphylococcus phage 812 (virus)
Keywords	VIRUS / phage / neck / connector / tail sheath / portal / tail / A-form DNA