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Crystal structure of eed in complex with a trimethylated JARID2 peptide

Analyse Crystal structure of eed in complex with a trimethylated JARID2 peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4X3E
Type: protein
Length: 367 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Polycomb protein eed; Ala-gln-arg-M3L-phe-ala-gln-ser
UniProt: O75530
Pockets: 2 · best druggability 0.75

Structure

x-ray diffraction · 2 distinct chains · 5% helix, 45% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Polycomb protein eed	protein	359	5% helix, 46% strand	O75530
B	Ala-gln-arg-M3L-phe-ala-gln-ser	protein	8	0% helix, 0% strand	—

Pockets

2 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	442	0.75	0.84	42	empty
2	83	0.39	0.77	15	empty

Interfaces

1 interface between chains.

A–B · 517 Å² buried · 8 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 1 modified (methylation).

Compared structures

4X3E · Crystal structure of EED in complex with a trimethylated Jarid2 peptide · the same entry in another collection · chain A against A, TM-score 1.00
O75530 · AlphaFold monomer V2.0 prediction for polycomb protein eed (O75530) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 O75530
Elsewhere: RCSB PDB 4X3E · PDBe 4X3E · UniProt O75530

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