Research workbench
Binding mode of azide to ferric aplysia limacina myoglobin. crystallographic analysis at 1.9 ångströms resolution
Analyse Binding mode of azide to ferric aplysia limacina myoglobin. crystallographic… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5MBA
- Type
- protein
- Length
- 146 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Myoglobin
- UniProt
- P02210
- Ligands
- ACE, HEM, AZI
- Pockets
- 1 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 76% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Myoglobin | protein | 146 | 76% helix, 0% strand | P02210 |
Ligands and binding sites
- ACE · Acetyl group · ligand · chains A
- HEM · Protoporphyrin IX containing Fe · ligand · chains A
- AZI · Azide ion · 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 | 239 | 0.73 | 0.87 | 29 | AZI, HEM |
Modifications
Observed in the structure: 1 covalent (covalent ligand).
Compared structures
- 5MBA · Binding mode of azide to ferric aplysia limacina myoglobin. crystallographic analysis at… · the same entry in another collection · chain A against A, TM-score 1.00
- P02210 · AlphaFold monomer V2.0 prediction for globin (P02210) · 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 P02210
- Elsewhere: RCSB PDB 5MBA · PDBe 5MBA · UniProt P02210
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