MolNFT v1 · #63924 · protein

Tryptophanyl-tRNA synthetase from giardia lamblia

3FOC: “Tryptophanyl-tRNA synthetase from giardia lamblia”. X-ray diffraction, 1 ligand (SO4), 11 pockets (best druggability 0.73). MolNFT v1 #63924 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 3FOC
Type: protein
Length: 803 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Tryptophanyl-tRNA synthetase
EC: 6.1.1.2
UniProt: A8B8N3
Ligands: SO4
Pockets: 11 · best druggability 0.73

Structure

x-ray diffraction · 2 distinct chains · 53% helix, 10% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Tryptophanyl-tRNA synthetase (EC 6.1.1.2)	protein	404	54% helix, 10% strand	A8B8N3
B	Tryptophanyl-tRNA synthetase (EC 6.1.1.2)	protein	399	52% helix, 10% strand	A8B8N3

Ligands and binding sites

SO4 · Sulfate ion · ion · 2 copies · chains A, B
GOL · Glycerol · additive · chains A

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

Pockets

11 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	593	0.73	0.81	45	empty
2	551	0.71	0.80	52	empty
3	171	0.56	0.80	36	empty
4	187	0.55	0.79	24	empty
5	175	0.54	0.79	22	empty

Interfaces

1 interface between chains.

A–B · 1646 Å² buried · 5 hydrogen bonds · protein-protein

Compared structures

3FOC · Tryptophanyl-tRNA synthetase from Giardia lamblia · 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 A8B8N3
Elsewhere: RCSB PDB 3FOC · PDBe 3FOC · UniProt A8B8N3

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