MolNFT v2 · #11145 · protein
1JDO: Sperm whale myoglobin (ferrous, nitric oxide bound)
1JDO: “Sperm whale myoglobin (ferrous, nitric oxide bound)”. X-ray diffraction at 1.9, 3 ligands (HEM, SO4, NO), 1 pocket (best druggability 0.71). MolNFT v2 #11145 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1JDO
- Type
- protein
- Length
- 154 residues
- Chains
- 1
- Method
- x-ray diffraction
- Authors
- Brucker, E.A., Phillips Jr., G.N.
- Deposited
- 02/10/98
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.9
- Source
- Physeter catodon
- Molecule
- Myoglobin
- UniProt
- P02185
- Ligands
- HEM, SO4, NO
- Pockets
- 1 · best druggability 0.71
Structure
x-ray diffraction · resolution 1.9 · 1 distinct chain · 80% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Myoglobin | protein | 154 | 80% helix, 0% strand | P02185 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · chains A
- SO4 · Sulfate ion · ion · chains A
- NO · Nitric oxide · ion · 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 | 244 | 0.71 | 0.86 | 32 | HEM, NO |
Compared structures
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 P02185
- Elsewhere: RCSB PDB 1JDO · PDBe 1JDO · UniProt P02185
Other records of 1JDO
- 1JDO-2 · MolNFT v1 / PDB · Sperm whale myoglobin (ferrous, nitric oxide bound)
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