MolNFT v1 · #121050 · protein

Crystal structure of the tbc domain of SKYWALKER/TBC1D24 from drosophila melanogaster

5HJN · LD10117P: “Crystal structure of the tbc domain of SKYWALKER/TBC1D24 from drosophila melanogaster”. X-ray diffraction, 1 ligand (SO4), 4 pockets (best druggability 0.51). MolNFT v1 #121050 on GenesisL1: 3D structure, binding sites…

PDB: 5HJN
Type: protein
Length: 308 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: LD10117P
UniProt: Q9VIH7
Ligands: SO4
Pockets: 4 · best druggability 0.51

Structure

x-ray diffraction · 1 distinct chain · 62% helix, 1% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	LD10117P	protein	308	62% helix, 1% strand	Q9VIH7

Ligands and binding sites

SO4 · Sulfate ion · ion · chains A

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

Pockets

4 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	167	0.51	0.78	23	empty
2	119	0.39	0.74	20	empty
3	55	0.28	0.74	16	empty
4	52	0.26	0.73	14	empty

Compared structures

5HJN · Crystal structure of the TBC domain of Skywalker/TBC1D24 from Drosophila melanogaster · the same entry in another collection · chain A against A, TM-score 1.00
Q9VIH7 · AlphaFold monomer V2.0 prediction for GTPase-activating protein skywalker (Q9VIH7) · 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 Q9VIH7
Elsewhere: RCSB PDB 5HJN · PDBe 5HJN · UniProt Q9VIH7

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