Research workbench

Vibrio parahaemolyticus VTRA/VTRC complex

Analyse Vibrio parahaemolyticus VTRA/VTRC complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5KEV
Type: protein
Length: 216 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Vtra protein; Vtrc protein
UniProt: Q87GI4, Q87GI3
Ligands: SO4
Pockets: 3 · best druggability 0.79

Structure

x-ray diffraction · 2 distinct chains · 17% helix, 51% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Vtra protein	protein	90	33% helix, 31% strand	Q87GI4
B	Vtrc protein	protein	126	6% helix, 66% strand	Q87GI3

Ligands and binding sites

SO4 · Sulfate ion · ion · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	327	0.79	0.88	52	empty
2	59	0.41	0.81	18	empty
3	79	0.30	0.73	22	empty

Interfaces

1 interface between chains.

A–B · 1227 Å² buried · 20 hydrogen bonds · protein-protein

Compared structures

5KEV · Vibrio parahaemolyticus VtrA/VtrC complex · 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 Q87GI4
Every structure of UniProt Q87GI3
Elsewhere: RCSB PDB 5KEV · PDBe 5KEV · UniProt Q87GI4 · UniProt Q87GI3

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