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Crystal structure of fungal RNA kinase

Analyse Crystal structure of fungal RNA kinase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 6TZM
Type: protein
Length: 211 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: TRNA ligase
EC: 6.5.1.3
UniProt: P43075
Ligands: GDP, MG
Pockets: 1 · best druggability 0.47

Structure

x-ray diffraction · 1 distinct chain · 46% helix, 16% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	TRNA ligase (EC 6.5.1.3)	protein	211	46% helix, 16% strand	P43075

Ligands and binding sites

GDP · Guanosine-5'-diphosphate · ligand · chains A
MG · Magnesium ion · metal · chains A

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	206	0.47	0.75	30	GDP, MG

Compared structures

6TZM · Crystal Structure of Fungal RNA Kinase · the same entry in another collection · chain A against A, TM-score 1.00
P43075 · AlphaFold monomer V2.0 prediction for tRNA ligase (P43075) · 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 P43075
Elsewhere: RCSB PDB 6TZM · PDBe 6TZM · UniProt P43075

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