Research workbench
Human dihydroorotate dehydrogenase bound to a novel inhibitor
Analyse Human dihydroorotate dehydrogenase bound to a novel inhibitor in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2B0M
- Type
- protein
- Length
- 361 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dihydroorotate dehydrogenase, mitochondrial
- EC
- 1.3.3.1
- UniProt
- Q02127
- Ligands
- 201, FMN, ORO
- Pockets
- 4 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 46% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Dihydroorotate dehydrogenase, mitochondrial (EC 1.3.3.1) | protein | 361 | 46% helix, 16% strand | Q02127 |
Ligands and binding sites
- 201 · 3-amido-5-biphenyl-benzoic acid · ligand · chains A
- FMN · Flavin mononucleotide · ligand · chains A
- ORO · Orotic acid · 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 | 455 | 0.84 | 0.92 | 64 | 201, FMN, ORO |
| 2 | 100 | 0.40 | 0.77 | 19 | empty |
| 3 | 79 | 0.39 | 0.78 | 18 | empty |
| 4 | 88 | 0.36 | 0.75 | 23 | empty |
Compared structures
- 2B0M · Human dihydroorotate dehydrogenase bound to a novel inhibitor · the same entry in another collection · chain A against A, TM-score 1.00
- Q02127 · AlphaFold monomer V2.0 prediction for dihydroorotate dehydrogenase (quinone)… · a predicted model of the same protein · 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
- Every structure of UniProt Q02127
- Elsewhere: RCSB PDB 2B0M · PDBe 2B0M · UniProt Q02127
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