Research workbench
Crystal structure ornithine decarboxylase from mouse, truncated 37 residues from the C-terminus, to 1.6 ångström resolution
Analyse Crystal structure ornithine decarboxylase from mouse, truncated 37 residues… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7ODC
- Type
- protein
- Length
- 387 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (ornithine decarboxylase)
- EC
- 4.1.1.17
- UniProt
- P00860
- Ligands
- PLP
- Pockets
- 3 · best druggability 0.65
Structure
x-ray diffraction · 1 distinct chain · 37% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein (ornithine decarboxylase) (EC 4.1.1.17) | protein | 387 | 37% helix, 26% strand | P00860 |
Ligands and binding sites
- PLP · Pyridoxal-5'-phosphate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 260 | 0.65 | 0.82 | 33 | empty |
| 2 | 133 | 0.45 | 0.77 | 24 | PLP |
| 3 | 148 | 0.44 | 0.76 | 32 | empty |
Modifications
Observed in the structure: 1 cofactor (pyridoxal phosphate Schiff base).
Compared structures
- 7ODC · Crystal structure ornithine decarboxylase from mouse, truncated 37 residues from the… · the same entry in another collection · chain A against A, TM-score 1.00
- P00860 · AlphaFold monomer V2.0 prediction for ornithine decarboxylase (P00860) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P00860
- Elsewhere: RCSB PDB 7ODC · PDBe 7ODC · UniProt P00860
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