Research workbench

Ubiquitin conjugating enzyme, UBC13

Analyse Ubiquitin conjugating enzyme, UBC13 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1JBB
Type: protein
Length: 295 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ubiquitin conjugating enzyme E2-17.5 kda
EC: 6.3.2.19
UniProt: P52490
Pockets: 1 · best druggability 0.47

Structure

x-ray diffraction · 2 distinct chains · 33% helix, 19% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Ubiquitin conjugating enzyme E2-17.5 kda (EC 6.3.2.19)	protein	148	33% helix, 18% strand	P52490
B	Ubiquitin conjugating enzyme E2-17.5 kda (EC 6.3.2.19)	protein	147	33% helix, 21% strand	P52490

Pockets

1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	156	0.47	0.77	27	empty

Interfaces

1 interface between chains.

A–B · 566 Å² buried · 7 hydrogen bonds · protein-protein

Compared structures

1JBB · Ubiquitin Conjugating Enzyme, Ubc13 · the same entry in another collection · chain A against A, TM-score 1.00
P52490 · AlphaFold monomer V2.0 prediction for ubiquitin-conjugating enzyme E2 13 (P52490) · a predicted model of the same protein · chain B against A, TM-score 0.94

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 P52490
Elsewhere: RCSB PDB 1JBB · PDBe 1JBB · UniProt P52490

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