MolNFT v1 · #17319 · protein
The crystal structure of the orotate phosphoribosyltransferase complexed with orotate and alpha-D-5-phosphoribosyl-1-pyrophosphate
1OPR: “The crystal structure of the orotate phosphoribosyltransferase complexed with orotate and…”. X-ray diffraction, 3 ligands (ORO, PRP, MG), 1 pocket (best druggability 0.62). MolNFT v1 #17319 on GenesisL1: 3D structure, binding sites…
- PDB
- 1OPR
- Type
- protein
- Length
- 213 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Orotate phosphoribosyltransferase
- EC
- 2.4.2.10
- UniProt
- P08870
- Ligands
- ORO, PRP, MG
- Pockets
- 1 · best druggability 0.62
Structure
x-ray diffraction · 1 distinct chain · 44% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Orotate phosphoribosyltransferase (EC 2.4.2.10) | protein | 213 | 44% helix, 23% strand | P08870 |
Ligands and binding sites
- ORO · Orotic acid · ligand · chains A
- PRP · 1-O-pyrophosphono-5-O-phosphono-alpha-D-ribofuranose · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 276 | 0.62 | 0.80 | 37 | MG, ORO, PRP |
Compared structures
- 1OPR · The crystal structure of the orotate phosphoribosyltransferase complexed with orotate and… · the same entry in another collection · chain A against A, TM-score 1.00
- P08870 · AlphaFold monomer V2.0 prediction for orotate phosphoribosyltransferase (P08870) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 P08870
- Elsewhere: RCSB PDB 1OPR · PDBe 1OPR · UniProt P08870
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