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VIP3AA protoxin structure

Analyse VIP3AA protoxin structure in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6TFJ
Type: protein
Length: 3,058 residues
Chains: 4
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Vegetative insecticidal protein
UniProt: Q58XI2
Pockets: 20 · best druggability 0.88

Structure

electron microscopy · 2 distinct chains · 33% helix, 29% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, C	Vegetative insecticidal protein	protein	764	33% helix, 29% strand	Q58XI2
B, D	Vegetative insecticidal protein	protein	765	32% helix, 29% strand	Q58XI2

Pockets

20 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1022	0.88	0.89	125	empty
2	1146	0.77	0.79	92	empty
3	593	0.77	0.83	71	empty
4	363	0.76	0.86	41	empty
5	384	0.71	0.82	46	empty

Interfaces

6 interfaces between chains.

C–D · 2370 Å² buried · 14 hydrogen bonds · protein-protein
A–B · 2362 Å² buried · 14 hydrogen bonds · protein-protein
B–C · 1513 Å² buried · 23 hydrogen bonds · protein-protein
A–D · 1476 Å² buried · 21 hydrogen bonds · protein-protein
B–D · 671 Å² buried · 8 hydrogen bonds · protein-protein

Compared structures

6TFJ · Vip3Aa protoxin structure · 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 Q58XI2
Elsewhere: RCSB PDB 6TFJ · PDBe 6TFJ · UniProt Q58XI2

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