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Prohead 2 of the phage T5

Analyse Prohead 2 of the phage T5 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6OKB
Type: protein
Length: 3,757 residues
Chains: 13
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Major capsid protein
UniProt: Q6QGD8
Pockets: 20 · best druggability 0.84

Structure

electron microscopy · 1 distinct chain · 19% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G, H, I, J, K, L, M	Major capsid protein	protein	289	19% helix, 13% strand	Q6QGD8

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	609	0.84	0.88	101	empty
2	1111	0.84	0.84	149	empty
3	778	0.83	0.85	138	empty
4	288	0.81	0.91	57	empty
5	1091	0.79	0.80	123	empty

Interfaces

21 interfaces between chains.

J–K · 1401 Å² buried · 10 hydrogen bonds · protein-protein
E–F · 1364 Å² buried · 14 hydrogen bonds · protein-protein
G–H · 1316 Å² buried · 8 hydrogen bonds · protein-protein
A–F · 1316 Å² buried · 16 hydrogen bonds · protein-protein
A–B · 1261 Å² buried · 8 hydrogen bonds · protein-protein

Compared structures

6OKB · Prohead 2 of the phage T5 · the same entry in another collection · chain C against C, 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 Q6QGD8
Elsewhere: RCSB PDB 6OKB · PDBe 6OKB · UniProt Q6QGD8

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