MolNFT v1 · #13090 · protein

Aspartyl-tRNA synthetase-1 from space-grown crystals

1L0W: “Aspartyl-tRNA synthetase-1 from space-grown crystals”. X-ray diffraction, 12 pockets (best druggability 0.79). MolNFT v1 #13090 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 1L0W
Type: protein
Length: 1,160 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Aspartyl-tRNA synthetase
EC: 6.1.1.12
UniProt: P36419
Pockets: 12 · best druggability 0.79

Structure

x-ray diffraction · 1 distinct chain · 32% helix, 26% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A, B	Aspartyl-tRNA synthetase (EC 6.1.1.12)	protein	580	32% helix, 26% strand	P36419

Pockets

12 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	125	0.79	0.97	19	empty
2	938	0.77	0.79	71	empty
3	794	0.75	0.80	79	empty
4	57	0.69	0.97	22	empty
5	54	0.68	0.97	23	empty

Interfaces

1 interface between chains.

A–B · 5819 Å² buried · 85 hydrogen bonds · protein-protein

Compared structures

1L0W · Aspartyl-tRNA synthetase-1 from space-grown crystals · the same entry in another collection · chain A against A, TM-score 1.00
P36419 · AlphaFold monomer V2.0 prediction for aspartate--TRNA(ASP) ligase (P36419) · a predicted model of the same protein · chain A against A, TM-score 0.97

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 P36419
Elsewhere: RCSB PDB 1L0W · PDBe 1L0W · UniProt P36419

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