MolNFT v1 · #18530 · protein

Crystal structure of pseudouridine synthase rlud catalytic module

1PRZ · Ribosomal large subunit pseudouridine synthase D: “Crystal structure of pseudouridine synthase rlud catalytic module”. X-ray diffraction, 3 pockets (best druggability 0.56). MolNFT v1 #18530 on GenesisL1: 3D structure, binding sites…

PDB: 1PRZ
Type: protein
Length: 252 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: Q8X9F0
Pockets: 3 · best druggability 0.56

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	252	25% helix, 29% strand	Q8X9F0

Pockets

3 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	138	0.56	0.82	29	empty
2	51	0.38	0.81	19	empty
3	77	0.30	0.73	18	empty

Modifications

Observed in the structure: 10 modified (engineered).

Compared structures

1PRZ · Crystal structure of pseudouridine synthase RluD catalytic module · the same entry in another collection · chain A against A, TM-score 1.00
Q8X9F0 · 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 Q8X9F0
Elsewhere: RCSB PDB 1PRZ · PDBe 1PRZ · UniProt Q8X9F0

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