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Crystal structure of the ubr-box domain from UBR2 in complex with rlws N-degron

Analyse Crystal structure of the ubr-box domain from UBR2 in complex with rlws N-degron in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 5TDA
Type: protein
Length: 75 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: E3 ubiquitin-protein ligase UBR2; Arg-leu-TRP-ser peptide
EC: 6.3.2.-
UniProt: Q8IWV8
Ligands: ZN

Structure

x-ray diffraction · 2 distinct chains · 12% helix, 21% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	E3 ubiquitin-protein ligase UBR2 (EC 6.3.2.-)	protein	71	13% helix, 23% strand	Q8IWV8
B	Arg-leu-TRP-ser peptide	protein	4	0% helix, 0% strand	—

Ligands and binding sites

ZN · Zinc ion · metal · 3 copies · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Interfaces

1 interface between chains.

A–B · 322 Å² buried · 8 hydrogen bonds · protein-protein

Compared structures

5TDA · Crystal structure of the UBR-box domain from UBR2 in complex with RLWS N-degron · the same entry in another collection · chain A against A, TM-score 1.00
Q8IWV8 · AlphaFold monomer V2.0 prediction for E3 ubiquitin-protein ligase UBR2 (Q8IWV8) · a predicted model of the same protein · chain A 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 Q8IWV8
Elsewhere: RCSB PDB 5TDA · PDBe 5TDA · UniProt Q8IWV8

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