MolNFT v1 · #7389 · protein + RNA

Glutamyl-tRNA synthetase complexed with TRNA(GLU).

1G59: “Glutamyl-tRNA synthetase complexed with TRNA(GLU).”. X-ray diffraction, 9 pockets (best druggability 0.79). MolNFT v1 #7389 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1G59
Type: protein + RNA
Length: 1,086 residues
Chains: 4
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: TRNA(GLU); Glutamyl-tRNA synthetase
EC: 6.1.1.17
UniProt: P27000
Pockets: 9 · best druggability 0.79

Structure

x-ray diffraction · 2 distinct chains · 50% helix, 11% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
B, D	TRNA(GLU)	rna	75	—	—
A, C	Glutamyl-tRNA synthetase (EC 6.1.1.17)	protein	468	50% helix, 11% strand	P27000

Pockets

9 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	1044	0.79	0.81	75	empty
2	882	0.79	0.82	70	empty
3	1047	0.73	0.77	49	empty
4	1007	0.72	0.77	50	empty
5	649	0.65	0.76	44	empty

Interfaces

2 interfaces between chains.

B–A · 2239 Å² buried · 58 hydrogen bonds · protein-nucleic
D–C · 2134 Å² buried · 54 hydrogen bonds · protein-nucleic

Compared structures

1G59 · Glutamyl-tRNA synthetase complexed with TRNA(GLU). · the same entry in another collection · chain B against B, TM-score 1.00
P27000 · AlphaFold monomer V2.0 prediction for glutamate--tRNA ligase (P27000) · a predicted model of the same protein · chain A against A, TM-score 0.99

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 P27000
Elsewhere: RCSB PDB 1G59 · PDBe 1G59 · UniProt P27000

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