MolNFT v1 · #94006 · protein

Crystal structure of F2YRS

4HJR · Tyrosine-tRNA ligase: “Crystal structure of F2YRS”. X-ray diffraction, 3 pockets (best druggability 0.76). MolNFT v1 #94006 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 4HJR
Type: protein
Length: 615 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Tyrosine-tRNA ligase
EC: 6.1.1.1
UniProt: Q57834
Pockets: 3 · best druggability 0.76

Structure

x-ray diffraction · 2 distinct chains · 50% helix, 14% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Tyrosine-tRNA ligase (EC 6.1.1.1)	protein	309	49% helix, 14% strand	Q57834
B	Tyrosine-tRNA ligase (EC 6.1.1.1)	protein	306	50% helix, 14% strand	Q57834

Pockets

3 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	389	0.76	0.86	51	empty
2	404	0.76	0.85	50	empty
3	117	0.41	0.75	21	empty

Interfaces

1 interface between chains.

A–B · 1415 Å² buried · 8 hydrogen bonds · protein-protein

Compared structures

4HJR · Crystal structure of F2YRS · 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 B 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 Q57834
Elsewhere: RCSB PDB 4HJR · PDBe 4HJR · UniProt Q57834

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