Research workbench

WDR5DELTA23 bound to N-(4-(5-(hydroxymethyl)-1H-imidazol-2-YL)BUTYL) acetamide

Analyse WDR5DELTA23 bound to N-(4-(5-(hydroxymethyl)-1H-imidazol-2-YL)BUTYL) acetamide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6PG6
Type: protein
Length: 605 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Wd repeat-containing protein 5
UniProt: P61964
Ligands: OH7, SO4, CL
Pockets: 2 · best druggability 0.76

Structure

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

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Wd repeat-containing protein 5	protein	301	0% helix, 51% strand	P61964
B	Wd repeat-containing protein 5	protein	304	0% helix, 52% strand	P61964

Ligands and binding sites

OH7 · N-{4-[4-(hydroxymethyl)-1H-imidazol-2-yl]butyl}acetamide · ligand · 2 copies · chains A, B
SO4 · Sulfate ion · ion · 2 copies · chains A, B
CL · Chloride ion · ion · chains A

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

Pockets

2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	659	0.76	0.81	64	OH7, CL
2	634	0.74	0.81	62	SO4, OH7

Compared structures

6PG6 · WDR5delta23 bound to N-(4-(5-(hydroxymethyl)-1H-imidazol-2-yl)butyl)acetamide · the same entry in another collection · chain A against A, TM-score 1.00

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
Elsewhere: RCSB PDB 6PG6 · PDBe 6PG6 · UniProt P61964

GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.