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Cryo-EM structure of the anti-feeding prophage (afp) helical sheath in contracted state

Analyse Cryo-EM structure of the anti-feeding prophage (afp) helical sheath in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6RC8
Type: protein
Length: 703 residues
Chains: 2
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: AFP2; AFP3
UniProt: Q6HAD7, Q6HAD6
Pockets: 11 · best druggability 0.73

Structure

electron microscopy · 2 distinct chains · 26% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	AFP2	protein	348	26% helix, 11% strand	Q6HAD7
B	AFP3	protein	355	26% helix, 14% strand	Q6HAD6

Pockets

11 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	73	0.73	0.97	24	empty
2	435	0.59	0.75	47	empty
3	169	0.53	0.80	25	empty
4	247	0.53	0.76	29	empty
5	192	0.53	0.77	31	empty

Interfaces

1 interface between chains.

A–B · 1631 Å² buried · 21 hydrogen bonds · protein-protein

Compared structures

6RC8 · Cryo-EM structure of the anti-feeding prophage (AFP) helical sheath in contracted state · the same entry in another collection · chain A against A, TM-score 1.00

Analyse

Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
Every structure of UniProt Q6HAD7
Every structure of UniProt Q6HAD6
Elsewhere: RCSB PDB 6RC8 · PDBe 6RC8 · UniProt Q6HAD7 · UniProt Q6HAD6

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