Research workbench
Bar-headed goose hemoglobin (aquomet form)
Analyse Bar-headed goose hemoglobin (aquomet form) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1C40
- Type
- protein
- Length
- 287 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (hemoglobin (alpha chain)); Protein (hemoglobin (beta chain))
- UniProt
- P01990, P02118
- Ligands
- HEM
- Pockets
- 5 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 79% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein (hemoglobin (alpha chain)) | protein | 141 | 79% helix, 0% strand | P01990 |
| B | Protein (hemoglobin (beta chain)) | protein | 146 | 79% helix, 0% strand | P02118 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 265 | 0.73 | 0.86 | 33 | HEM |
| 2 | 195 | 0.69 | 0.86 | 26 | HEM |
| 3 | 127 | 0.56 | 0.83 | 21 | empty |
| 4 | 91 | 0.35 | 0.75 | 21 | empty |
| 5 | 54 | 0.34 | 0.78 | 11 | empty |
Interfaces
1 interface between chains.
- A–B · 952 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 1C40 · Bar-headed goose hemoglobin (aquomet form) · the same entry in another collection · chain A against A, TM-score 1.00
- P01990 · AlphaFold monomer V2.0 prediction for hemoglobin subunit alpha-a (P01990) · a predicted model of the same protein · chain A against A, TM-score 0.99
- P02118 · AlphaFold monomer V2.0 prediction for hemoglobin subunit beta (P02118) · a predicted model of the same protein · chain B 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 P01990
- Every structure of UniProt P02118
- Elsewhere: RCSB PDB 1C40 · PDBe 1C40 · UniProt P01990 · UniProt P02118
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