MolNFT v1 · #164864 · protein

Structure of drosophila melanogaster dispatched

6TBU · Protein dispatched: “Structure of drosophila melanogaster dispatched”. Electron microscopy, 2 ligands (Y01, NAG), 11 pockets (best druggability 0.60). MolNFT v1 #164864 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 6TBU
Type: protein
Length: 842 residues
Chains: 1
Method: electron microscopy
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protein dispatched
UniProt: Q9VNJ5
Ligands: Y01, NAG
Pockets: 11 · best druggability 0.60

Structure

electron microscopy · 1 distinct chain · 61% helix, 7% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Protein dispatched	protein	842	61% helix, 7% strand	Q9VNJ5

Ligands and binding sites

Y01 · Cholesterol hemisuccinate · ligand · 9 copies · chains A
NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 3 copies · chains A

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

Pockets

11 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	165	0.60	0.83	28	empty
2	197	0.54	0.78	25	empty
3	235	0.53	0.76	26	empty
4	247	0.51	0.74	30	Y01
5	129	0.43	0.76	20	empty

Modifications

Observed in the structure: 5 disulfide, 2 glycan, 1 covalent (disulfide, N-glycosylation, covalent ligand).

Compared structures

6TBU · Structure of Drosophila melanogaster Dispatched · the same entry in another collection · chain A against A, TM-score 1.00
Q9VNJ5 · AlphaFold monomer V2.0 prediction for protein dispatched (Q9VNJ5) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 Q9VNJ5
Elsewhere: RCSB PDB 6TBU · PDBe 6TBU · UniProt Q9VNJ5

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