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Crystal structure of gephyrin E-domain

Analyse Crystal structure of gephyrin E-domain in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2FU3
Type: protein
Length: 824 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Gephyrin
UniProt: Q03555
Pockets: 5 · best druggability 0.83

Structure

x-ray diffraction · 2 distinct chains · 19% helix, 31% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Gephyrin	protein	405	20% helix, 31% strand	Q03555
B	Gephyrin	protein	419	18% helix, 31% strand	Q03555

Pockets

5 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	1083	0.83	0.84	109	empty
2	1061	0.83	0.84	115	empty
3	965	0.81	0.82	89	empty
4	71	0.58	0.89	22	empty
5	93	0.38	0.75	15	empty

Interfaces

1 interface between chains.

A–B · 3732 Å² buried · 35 hydrogen bonds · protein-protein

Compared structures

2FU3 · Crystal structure of gephyrin E-domain · the same entry in another collection · chain A against A, TM-score 1.00
Q03555 · AlphaFold monomer V2.0 prediction for gephyrin (Q03555) · a predicted model of the same protein · chain B against A, TM-score 0.97

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 Q03555
Elsewhere: RCSB PDB 2FU3 · PDBe 2FU3 · UniProt Q03555

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