MolNFT v1 · #38796 · protein

WDR5 in complex with trimethylated H3K4 peptide

2H9P · Wd-repeat protein 5: “WDR5 in complex with trimethylated H3K4 peptide”. X-ray diffraction, 1 pocket (best druggability 0.74). MolNFT v1 #38796 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2H9P
Type: protein
Length: 308 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Wd-repeat protein 5; H3 histone
UniProt: P61964, Q6P823
Pockets: 1 · best druggability 0.74

Structure

x-ray diffraction · 2 distinct chains · 0% helix, 51% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Wd-repeat protein 5	protein	304	0% helix, 52% strand	P61964
B	H3 histone	protein	4	0% helix, 0% strand	Q6P823

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	487	0.74	0.83	46	empty

Interfaces

1 interface between chains.

A–B · 379 Å² buried · 6 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 1 modified (methylation).

Compared structures

2H9P · WDR5 in complex with trimethylated H3K4 peptide · the same entry in another collection · chain A against A, TM-score 1.00
Q6P823 · AlphaFold monomer V2.0 prediction for histone H3.3 (Q6P823) · a predicted model of the same protein · chain B 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 P61964
Every structure of UniProt Q6P823
Elsewhere: RCSB PDB 2H9P · PDBe 2H9P · UniProt P61964 · UniProt Q6P823

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