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Capsid protein in the staphylococcus aureus phage 80ALPHA mature capsid

Analyse Capsid protein in the staphylococcus aureus phage 80ALPHA mature capsid in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6C21
Type: protein
Length: 1,925 residues
Chains: 7
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Major head protein
UniProt: A4ZFB3
Pockets: 20 · best druggability 0.81

Structure

electron microscopy · 1 distinct chain · 26% helix, 7% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, E, F, G	Major head protein	protein	275	26% helix, 7% strand	A4ZFB3

Pockets

20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1070	0.81	0.82	135	empty
2	811	0.81	0.84	128	empty
3	997	0.80	0.82	140	empty
4	557	0.79	0.85	115	empty
5	814	0.78	0.82	126	empty

Interfaces

7 interfaces between chains.

E–F · 916 Å² buried · 4 hydrogen bonds · protein-protein
C–D · 912 Å² buried · 5 hydrogen bonds · protein-protein
B–G · 900 Å² buried · 3 hydrogen bonds · protein-protein
B–C · 888 Å² buried · 8 hydrogen bonds · protein-protein
F–G · 874 Å² buried · 4 hydrogen bonds · protein-protein

Compared structures

6C21 · Capsid protein in the Staphylococcus aureus phage 80alpha mature capsid · the same entry in another collection · chain F against F, 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 A4ZFB3
Elsewhere: RCSB PDB 6C21 · PDBe 6C21 · UniProt A4ZFB3

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