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Structure of the bacteriophage C1 tail knob protein, GP12

Analyse Structure of the bacteriophage C1 tail knob protein, GP12 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4EP0
Type: protein
Length: 5,856 residues
Chains: 12
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Major tail protein
UniProt: Q7Y3F0
Pockets: 20 · best druggability 0.78

Structure

x-ray diffraction · 1 distinct chain · 20% helix, 32% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J, K, L	Major tail protein	protein	488	20% helix, 32% strand	Q7Y3F0

Pockets

20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1018	0.78	0.80	89	empty
2	467	0.69	0.80	66	empty
3	491	0.68	0.79	65	empty
4	410	0.68	0.80	53	empty
5	451	0.68	0.79	60	empty

Interfaces

14 interfaces between chains.

A–F · 2841 Å² buried · 41 hydrogen bonds · protein-protein
A–B · 2834 Å² buried · 37 hydrogen bonds · protein-protein
J–K · 2822 Å² buried · 39 hydrogen bonds · protein-protein
D–E · 2817 Å² buried · 35 hydrogen bonds · protein-protein
I–J · 2815 Å² buried · 40 hydrogen bonds · protein-protein

Compared structures

4EP0 · Structure of the bacteriophage C1 tail knob protein, gp12 · 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 Q7Y3F0
Elsewhere: RCSB PDB 4EP0 · PDBe 4EP0 · UniProt Q7Y3F0

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