MolNFT v1 · #140682 · protein

Structure of a legionella effector

5YIM · Sdea: “Structure of a legionella effector”. X-ray diffraction, 20 pockets (best druggability 0.82). MolNFT v1 #140682 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 5YIM
Type: protein
Length: 1,829 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Sdea
UniProt: Q6RCR0
Pockets: 20 · best druggability 0.82

Structure

x-ray diffraction · 2 distinct chains · 54% helix, 7% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Sdea	protein	933	54% helix, 8% strand	Q6RCR0
C	Sdea	protein	896	54% helix, 6% strand	Q6RCR0

Pockets

20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1140	0.82	0.83	84	empty
2	458	0.72	0.81	42	empty
3	53	0.72	0.98	17	empty
4	674	0.71	0.78	67	empty
5	261	0.71	0.86	37	empty

Interfaces

1 interface between chains.

A–C · 738 Å² buried · 2 hydrogen bonds · protein-protein

Compared structures

5YIM · Structure of a Legionella effector · 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 Q6RCR0
Elsewhere: RCSB PDB 5YIM · PDBe 5YIM · UniProt Q6RCR0

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