Research workbench

NMR based structural model of the UBCH8-ubiquitin complex

Analyse NMR based structural model of the UBCH8-ubiquitin complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 2KJH
Type: protein
Length: 226 residues
Chains: 2
Method: solution nmr
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: UBIQUITIN/ISG15-conjugating enzyme E2 L6; Ubiquitin
EC: 6.3.2.19
UniProt: O14933, P62988
Pockets: 3 · best druggability 0.50

Structure

solution nmr · 2 distinct chains · 28% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	UBIQUITIN/ISG15-conjugating enzyme E2 L6 (EC 6.3.2.19)	protein	150	33% helix, 21% strand	O14933
B	Ubiquitin	protein	76	18% helix, 34% strand	P62988

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	212	0.50	0.76	30	empty
2	54	0.31	0.76	15	empty
3	60	0.30	0.75	12	empty

Interfaces

1 interface between chains.

A–B · 374 Å² buried · 5 hydrogen bonds · protein-protein

Compared structures

2KJH · NMR based structural model of the UBCH8-UBIQUITIN complex · the same entry in another collection · chain A against A, TM-score 1.00
O14933 · AlphaFold monomer V2.0 prediction for UBIQUITIN/ISG15-conjugating enzyme E2 L6 (O14933) · 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 O14933
Every structure of UniProt P62988
Elsewhere: RCSB PDB 2KJH · PDBe 2KJH · UniProt O14933 · UniProt P62988

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