MolNFT v1 · #123043 · protein

Faustovirus major capsid protein

5J7U: “Faustovirus major capsid protein”. X-ray diffraction, 20 pockets (best druggability 0.89). MolNFT v1 #123043 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5J7U
Type: protein
Length: 7,600 residues
Chains: 24
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Major capsid protein; Unknown
Pockets: 20 · best druggability 0.89

Structure

x-ray diffraction · 10 distinct chains · 17% helix, 42% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, D	Major capsid protein	protein	609	16% helix, 43% strand	—
B	Major capsid protein	protein	616	17% helix, 41% strand	—
C, I	Major capsid protein	protein	616	18% helix, 42% strand	—
E	Major capsid protein	protein	616	17% helix, 42% strand	—
F, J, L	Major capsid protein	protein	610	16% helix, 42% strand	—
M, N, O, P, Q, S, T, U, V, W	Unknown	protein	21	48% helix, 0% strand	—
R, X	Unknown	protein	19	47% helix, 0% strand	—
G	Major capsid protein	protein	611	16% helix, 42% strand	—
H	Major capsid protein	protein	615	16% helix, 42% strand	—
K	Major capsid protein	protein	614	17% helix, 42% strand	—

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	895	0.89	0.92	98	empty
2	914	0.89	0.91	106	empty
3	1175	0.87	0.89	136	empty
4	683	0.87	0.91	80	empty
5	785	0.85	0.88	76	empty

Interfaces

59 interfaces between chains.

H–I · 6542 Å² buried · 86 hydrogen bonds · protein-protein
B–C · 6524 Å² buried · 87 hydrogen bonds · protein-protein
E–F · 6434 Å² buried · 79 hydrogen bonds · protein-protein
G–I · 6419 Å² buried · 74 hydrogen bonds · protein-protein
A–C · 6409 Å² buried · 77 hydrogen bonds · protein-protein

Compared structures

5J7U · Faustovirus major capsid protein · 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
Elsewhere: RCSB PDB 5J7U · PDBe 5J7U

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