MolNFT v1 · #103274 · protein

Crystal structure of the M. jannaschii F9 tRNA synthetase variant bound to 4-(2-bromoisobutyramido)-phenylalanine (bibaf)

4PBS · Tyrosine--tRNA ligase: “Crystal structure of the M. jannaschii F9 tRNA synthetase variant bound to…”. X-ray diffraction, 1 ligand (2L7), 1 pocket (best druggability 0.79). MolNFT v1 #103274 on GenesisL1: 3D structure, binding sites…

PDB: 4PBS
Type: protein
Length: 310 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Tyrosine--tRNA ligase
EC: 6.1.1.1
UniProt: Q57834
Ligands: 2L7
Pockets: 1 · best druggability 0.79

Structure

x-ray diffraction · 1 distinct chain · 51% helix, 13% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Tyrosine--tRNA ligase (EC 6.1.1.1)	protein	310	51% helix, 13% strand	Q57834

Ligands and binding sites

2L7 · 4-[(2-bromo-2-methylpropanoyl)amino]-L-phenylalanine · ligand · chains A

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

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	530	0.79	0.86	54	2L7

Compared structures

4PBS · Crystal structure of the M. jannaschii F9 tRNA synthetase variant bound to… · the same entry in another collection · chain A against A, TM-score 1.00
Q57834 · AlphaFold monomer V2.0 prediction for tyrosine--tRNA ligase (Q57834) · 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 Q57834
Elsewhere: RCSB PDB 4PBS · PDBe 4PBS · UniProt Q57834

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