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Crystal structure of plasmodium vivax orotidine-monophosphate- decarboxyl ump bound
Analyse Crystal structure of plasmodium vivax orotidine-monophosphate- decarboxyl ump… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2FFC
- Type
- protein
- Length
- 318 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Orotidine 5-monophosphate decarboxylase
- EC
- 4.1.3.23
- Ligands
- U5P
- Pockets
- 4 · best druggability 0.51
Structure
x-ray diffraction · 1 distinct chain · 53% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Orotidine 5-monophosphate decarboxylase (EC 4.1.3.23) | protein | 318 | 53% helix, 15% strand | — |
Ligands and binding sites
- U5P · Uridine-5'-monophosphate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 168 | 0.51 | 0.78 | 31 | U5P |
| 2 | 81 | 0.37 | 0.77 | 20 | empty |
| 3 | 99 | 0.37 | 0.75 | 20 | empty |
| 4 | 56 | 0.28 | 0.74 | 16 | empty |
Compared structures
- 2FFC · Crystal Structure of Plasmodium Vivax Orotidine-Monophosphate-Decarboxyl UMP Bound · the same entry in another collection · chain A against A, 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
- Elsewhere: RCSB PDB 2FFC · PDBe 2FFC
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