Research workbench
CO Form Hemoglobin from Dasyatis Akajei
Analyse CO Form Hemoglobin from Dasyatis Akajei in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1CG8
- Type
- protein
- Length
- 282 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.9
- Source
- Dasyatis akajei
- Molecule
- Protein (hemoglobin)
- UniProt
- P56691, P56692
- Ligands
- HEM, CMO
- Pockets
- 3 · best druggability 0.75
Structure
x-ray diffraction · resolution 1.9 · 2 distinct chains · 77% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein (hemoglobin) | protein | 141 | 77% helix, 0% strand | P56691 |
| B | Protein (hemoglobin) | protein | 141 | 77% helix, 0% strand | P56692 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains A, B
- CMO · Carbon monoxide · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 328 | 0.75 | 0.86 | 38 | HEM, CMO |
| 2 | 304 | 0.73 | 0.85 | 29 | HEM, CMO |
| 3 | 188 | 0.53 | 0.78 | 30 | empty |
Interfaces
1 interface between chains.
- A–B · 959 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 1CG8 · Co form hemoglobin from dasyatis akajei · the same entry in another collection · chain A against A, TM-score 1.00
- P56692 · AlphaFold monomer V2.0 prediction for hemoglobin subunit beta (P56692) · a predicted model of the same protein · chain B against A, TM-score 0.99
- P56691 · AlphaFold monomer V2.0 prediction for hemoglobin subunit alpha (P56691) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 P56691
- Every structure of UniProt P56692
- Elsewhere: RCSB PDB 1CG8 · PDBe 1CG8 · UniProt P56691 · UniProt P56692
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