MolNFT v1 · #61580 · protein

X-ray structure of the unliganded uridine phosphorylase from salmonella typhimurium in homodimeric form at 1.8A

3DPS: “X-ray structure of the unliganded uridine phosphorylase from salmonella typhimurium in homodimeric form at…”. X-ray diffraction, 3 pockets (best druggability 0.70). MolNFT v1 #61580 on GenesisL1: 3D structure, binding sites and…

PDB: 3DPS
Type: protein
Length: 476 residues
Chains: 2
Method: x-ray diffraction
Collection: MolNFT v1 / PDB
Contract: 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner: 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule: Uridine phosphorylase
EC: 2.4.2.3
UniProt: P0A1F6
Pockets: 3 · best druggability 0.70

Structure

x-ray diffraction · 2 distinct chains · 33% helix, 30% strand (DSSP).

Chain	Molecule	Type	Residues	Secondary structure	UniProt
A	Uridine phosphorylase (EC 2.4.2.3)	protein	250	33% helix, 29% strand	P0A1F6
F	Uridine phosphorylase (EC 2.4.2.3)	protein	226	33% helix, 31% strand	P0A1F6

Ligands and binding sites

GOL · Glycerol · additive · chains A, F

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

Pockets

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

Pocket	Volume (Å³)	Druggability	Buriedness	Lining residues	Inside
1	480	0.70	0.81	44	empty
2	330	0.57	0.76	38	empty
3	54	0.30	0.76	24	empty

Interfaces

1 interface between chains.

A–F · 1658 Å² buried · 20 hydrogen bonds · protein-protein

Compared structures

3DPS · X-ray structure of the unliganded uridine phosphorylase from salmonella typhimurium in… · the same entry in another collection · chain F against F, 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 P0A1F6
Elsewhere: RCSB PDB 3DPS · PDBe 3DPS · UniProt P0A1F6

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