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Structure of the catalytic domain of 23S rRNA pseudouridine synthase rlud

Analyse Structure of the catalytic domain of 23S rRNA pseudouridine synthase rlud in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB: 1QYU
Type: protein
Length: 250 residues
Chains: 1
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Ribosomal large subunit pseudouridine synthase D
EC: 4.2.1.70
UniProt: P33643
Pockets: 2 · best druggability 0.67

Structure

x-ray diffraction · 1 distinct chain · 25% helix, 29% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Ribosomal large subunit pseudouridine synthase D (EC 4.2.1.70)	protein	250	25% helix, 29% strand	P33643

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	458	0.67	0.79	43	empty
2	58	0.40	0.80	16	empty

Modifications

Observed in the structure: 9 modified (engineered).

Compared structures

1QYU · Structure of the catalytic domain of 23S rRNA pseudouridine synthase RluD · the same entry in another collection · chain A against A, TM-score 1.00
P33643 · AlphaFold monomer V2.0 prediction for ribosomal large subunit pseudouridine synthase D… · 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 P33643
Elsewhere: RCSB PDB 1QYU · PDBe 1QYU · UniProt P33643

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