MolNFT v1 · #57073 · protein

Crystal structure of alanyl-tRNA synthetase without oligomerization domain

2ZZF: “Crystal structure of alanyl-tRNA synthetase without oligomerization domain”. X-ray diffraction, 1 ligand (ZN), 6 pockets (best druggability 0.67). MolNFT v1 #57073 on GenesisL1: 3D structure, binding sites and pockets in GL1X.

PDB: 2ZZF
Type: protein
Length: 728 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Alanyl-tRNA synthetase
EC: 6.1.1.7
UniProt: O58035
Ligands: ZN
Pockets: 6 · best druggability 0.67

Structure

x-ray diffraction · 1 distinct chain · 39% helix, 23% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Alanyl-tRNA synthetase (EC 6.1.1.7)	protein	728	39% helix, 23% strand	O58035

Ligands and binding sites

ZN · Zinc ion · metal · 2 copies · chains A

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

Pockets

6 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	365	0.67	0.81	31	empty
2	425	0.66	0.79	51	empty
3	311	0.65	0.81	29	empty
4	457	0.62	0.76	42	empty
5	230	0.54	0.77	34	ZN

Compared structures

2ZZF · Crystal structure of alanyl-tRNA synthetase without oligomerization domain · the same entry in another collection · chain A against A, TM-score 1.00
O58035 · AlphaFold monomer V2.0 prediction for alanine--tRNA ligase (O58035) · 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 O58035
Elsewhere: RCSB PDB 2ZZF · PDBe 2ZZF · UniProt O58035

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