MolNFT v1 · #38851 · protein
High resolution X-ray structures of myoglobin-and hemoglobin-alkyl isocyanide complexes
2HBD · Hemoglobin a (methyl isocyanide) (alpha chain): “High resolution X-ray structures of myoglobin-and hemoglobin-alkyl isocyanide complexes”. X-ray diffraction, 2 ligands (HEM, MNC), 4 pockets (best druggability 0.73). MolNFT v1 #38851…
- PDB
- 2HBD
- Type
- protein
- Length
- 287 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hemoglobin a (methyl isocyanide) (alpha chain); Hemoglobin a (methyl isocyanide) (beta…
- UniProt
- P69905, P68871
- Ligands
- HEM, MNC
- Pockets
- 4 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 80% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hemoglobin a (methyl isocyanide) (alpha chain) | protein | 141 | 77% helix, 0% strand | P69905 |
| B | Hemoglobin a (methyl isocyanide) (beta chain) | protein | 146 | 82% helix, 0% strand | P68871 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains A, B
- MNC · Methyl isocyanide · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 203 | 0.73 | 0.88 | 26 | HEM, MNC |
| 2 | 200 | 0.69 | 0.86 | 24 | HEM, MNC |
| 3 | 209 | 0.57 | 0.80 | 33 | empty |
| 4 | 51 | 0.26 | 0.74 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 850 Ų buried · 9 hydrogen bonds · protein-protein
Compared structures
- 2HBD · High resolution X-ray structures of myoglobin-and hemoglobin-alkyl isocyanide complexes · 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
- Every structure of UniProt P69905
- Every structure of UniProt P68871
- Elsewhere: RCSB PDB 2HBD · PDBe 2HBD · UniProt P69905 · UniProt P68871
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