MolNFT v1 · #173209 · protein

HIV-1 gag immature lattice. GAGDELTAMASP1T8I

7ASH · Gag protein: “HIV-1 gag immature lattice. GAGDELTAMASP1T8I”. Electron microscopy, 20 pockets (best druggability 0.85). MolNFT v1 #173209 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 7ASH
Type: protein
Length: 4,194 residues
Chains: 18
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Gag protein
UniProt: C9DXR6
Pockets: 20 · best druggability 0.85

Structure

electron microscopy · 1 distinct chain · 62% helix, 0% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B, C, D, I, N, E, J, O, F, K, P, G, L, Q, H, M, R	Gag protein	protein	233	62% helix, 0% strand	C9DXR6

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	964	0.85	0.86	97	empty
2	1095	0.84	0.85	105	empty
3	1134	0.84	0.84	96	empty
4	830	0.83	0.86	86	empty
5	924	0.83	0.85	87	empty

Interfaces

36 interfaces between chains.

E–F · 1241 Å² buried · 11 hydrogen bonds · protein-protein
A–H · 1241 Å² buried · 6 hydrogen bonds · protein-protein
A–D · 1236 Å² buried · 8 hydrogen bonds · protein-protein
K–P · 1225 Å² buried · 9 hydrogen bonds · protein-protein
D–E · 1222 Å² buried · 7 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 18 disulfide (disulfide).

Compared structures

7ASH · HIV-1 Gag immature lattice. GagdeltaMASP1T8I · 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 C9DXR6
Elsewhere: RCSB PDB 7ASH · PDBe 7ASH · UniProt C9DXR6

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