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NMR structure of branched K11/K48-linked tri-ubiquitin

Analyse NMR structure of branched K11/K48-linked tri-ubiquitin in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6OQ2
Type: protein
Length: 225 residues
Chains: 3
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ubiquitin
UniProt: P0CG47
Pockets: 3 · best druggability 0.65

Structure

solution nmr · 3 distinct chains · 20% helix, 34% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B	Ubiquitin	protein	76	18% helix, 33% strand	P0CG47
D	Ubiquitin	protein	76	18% helix, 33% strand	P0CG47
E	Ubiquitin	protein	73	25% helix, 36% strand	P0CG47

Pockets

3 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	503	0.65	0.77	44	empty
2	65	0.36	0.78	12	empty
3	54	0.36	0.79	14	empty

Interfaces

3 interfaces between chains.

B–D · 661 Å² buried · 7 hydrogen bonds · protein-protein
D–E · 218 Å² buried · 3 hydrogen bonds · protein-protein
B–E · 141 Å² buried · 1 hydrogen bond · protein-protein

Compared structures

6OQ2 · NMR Structure of Branched K11/K48-Linked Tri-Ubiquitin · the same entry in another collection · chain B against B, 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 P0CG47
Elsewhere: RCSB PDB 6OQ2 · PDBe 6OQ2 · UniProt P0CG47

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