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Crystal structure of cyld usp domain (C596S) in complex with MET1- linked diubiquitin

Analyse Crystal structure of cyld usp domain (C596S) in complex with MET1- linked… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 3WXE
Type: protein
Length: 449 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Uncharacterized protein; Ubiquitin
UniProt: E7FEV5, P0CG48
Pockets: 4 · best druggability 0.66

Structure

x-ray diffraction · 2 distinct chains · 29% helix, 27% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Uncharacterized protein	protein	301	31% helix, 25% strand	E7FEV5
B	Ubiquitin	protein	148	24% helix, 33% strand	P0CG48

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	331	0.66	0.81	42	empty
2	137	0.42	0.75	20	empty
3	114	0.40	0.75	15	empty
4	50	0.24	0.73	15	empty

Interfaces

1 interface between chains.

A–B · 1923 Å² buried · 30 hydrogen bonds · protein-protein

Compared structures

3WXE · Crystal structure of CYLD USP domain (C596S) in complex with Met1-linked diubiquitin · 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 E7FEV5
Every structure of UniProt P0CG48
Elsewhere: RCSB PDB 3WXE · PDBe 3WXE · UniProt E7FEV5 · UniProt P0CG48

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