Research workbench

Human spastin aaa domain

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

PDB: 3VFD
Type: protein
Length: 266 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Spastin
EC: 3.6.4.3
UniProt: Q9UBP0
Ligands: SO4
Pockets: 4 · best druggability 0.64

Structure

x-ray diffraction · 1 distinct chain · 51% helix, 11% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Spastin (EC 3.6.4.3)	protein	266	51% helix, 11% strand	Q9UBP0

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, 4 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	57	0.64	0.92	14	empty
2	160	0.58	0.81	19	empty
3	195	0.52	0.77	25	empty
4	92	0.51	0.83	17	empty

Compared structures

3VFD · Human spastin AAA domain · the same entry in another collection · chain A against A, TM-score 1.00
Q9UBP0 · AlphaFold monomer V2.0 prediction for spastin (Q9UBP0) · a predicted model of the same protein · chain A against A, TM-score 0.98

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 Q9UBP0
Elsewhere: RCSB PDB 3VFD · PDBe 3VFD · UniProt Q9UBP0

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