MolNFT v1 · #1769 · protein

Lysyl-tRNA synthetase (lyss)

1BBW · Protein (lysyl-tRNA synthetase): “Lysyl-tRNA synthetase (lyss)”. X-ray diffraction, 5 pockets (best druggability 0.70). MolNFT v1 #1769 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1BBW
Type: protein
Length: 469 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Protein (lysyl-tRNA synthetase)
EC: 6.1.1.6
UniProt: P0A8N3
Pockets: 5 · best druggability 0.70

Structure

x-ray diffraction · 1 distinct chain · 37% helix, 27% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Protein (lysyl-tRNA synthetase) (EC 6.1.1.6)	protein	469	37% helix, 27% strand	P0A8N3

Pockets

5 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	750	0.70	0.77	68	empty
2	89	0.59	0.88	24	empty
3	95	0.41	0.77	17	empty
4	58	0.33	0.77	12	empty
5	60	0.29	0.75	16	empty

Compared structures

1BBW · Lysyl-tRNA synthetase (lyss) · the same entry in another collection · chain A against A, TM-score 1.00
P0A8N3 · AlphaFold monomer V2.0 prediction for lysine--tRNA ligase (P0A8N3) · a predicted model of the same protein · chain A 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 P0A8N3
Elsewhere: RCSB PDB 1BBW · PDBe 1BBW · UniProt P0A8N3

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