MolNFT v1 · #4846 · protein

Chromo shadow domain from fission yeast SWI6 protein.

1E0B: “Chromo shadow domain from fission yeast SWI6 protein.”. X-ray diffraction, 1 ligand (1PG), 2 pockets (best druggability 0.37). MolNFT v1 #4846 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1E0B
Type: protein
Length: 120 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: SWI6 protein
UniProt: P40381
Ligands: 1PG
Pockets: 2 · best druggability 0.37

Structure

x-ray diffraction · 2 distinct chains · 28% helix, 35% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	SWI6 protein	protein	61	26% helix, 34% strand	P40381
B	SWI6 protein	protein	59	29% helix, 36% strand	P40381

Ligands and binding sites

1PG · 2-(2-{2-[2-(2-methoxy-ethoxy)-ethoxy]-ethoxy}-ethoxy)-ethanol · ligand · 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, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	88	0.37	0.75	16	empty
2	58	0.27	0.73	16	empty

Interfaces

1 interface between chains.

A–B · 701 Å² buried · 5 hydrogen bonds · protein-protein

Compared structures

1E0B · Chromo shadow domain from fission yeast swi6 protein. · the same entry in another collection · chain A against A, TM-score 1.00
P40381 · AlphaFold monomer V2.0 prediction for chromatin-associated protein SWI6 (P40381) · a predicted model of the same protein · chain B against A, TM-score 0.95

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 P40381
Elsewhere: RCSB PDB 1E0B · PDBe 1E0B · UniProt P40381

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