Research workbench

TRNA-processing enzyme (apo form I)

Analyse TRNA-processing enzyme (apo form I) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 4WBY
Type: protein
Length: 372 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Poly a polymerase
UniProt: O66728
Ligands: SO4
Pockets: 3 · best druggability 0.49

Structure

x-ray diffraction · 1 distinct chain · 56% helix, 11% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Poly a polymerase	protein	372	56% helix, 11% strand	O66728

Ligands and binding sites

SO4 · Sulfate ion · ion · 5 copies · chains A
GOL · Glycerol · additive · chains A

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

Pockets

3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	264	0.49	0.74	35	SO4
2	54	0.36	0.79	13	empty
3	77	0.35	0.76	16	empty

Compared structures

4WBY · tRNA-processing enzyme (apo form I) · the same entry in another collection · chain A against A, TM-score 1.00
O66728 · AlphaFold monomer V2.0 prediction for a-adding tRNA nucleotidyltransferase (O66728) · a predicted model of the same protein · 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 O66728
Elsewhere: RCSB PDB 4WBY · PDBe 4WBY · UniProt O66728

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