MolNFT v1 · #24819 · protein
Crystal structure of hemoglobin D from the aldabra giant tortoise (geochelone gigantea) at 2.0 a resolution
1V75 · Hemoglobin D alpha chain: “Crystal structure of hemoglobin D from the aldabra giant tortoise (geochelone gigantea) at 2.0 a resolution”. X-ray diffraction, 1 ligand (HEM), 3 pockets (best druggability 0.73). MolNFT v1 #24819 on…
- PDB
- 1V75
- Type
- protein
- Length
- 283 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hemoglobin D alpha chain; Hemoglobin a and D beta chain
- UniProt
- P83134, P83133
- Ligands
- HEM
- Pockets
- 3 · best druggability 0.73
Structure
x-ray diffraction · 2 distinct chains · 81% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hemoglobin D alpha chain | protein | 141 | 84% helix, 0% strand | P83134 |
| B | Hemoglobin a and D beta chain | protein | 142 | 77% helix, 0% strand | P83133 |
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
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 | 247 | 0.73 | 0.86 | 27 | HEM |
| 2 | 203 | 0.68 | 0.85 | 24 | HEM |
| 3 | 182 | 0.51 | 0.77 | 23 | empty |
Interfaces
1 interface between chains.
- A–B · 886 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 1V75 · Crystal structure of hemoglobin D from the Aldabra giant tortoise (Geochelone gigantea)… · the same entry in another collection · chain A against A, TM-score 1.00
- P83133 · AlphaFold monomer V2.0 prediction for hemoglobin A/D subunit beta (P83133) · a predicted model of the same protein · chain B against A, TM-score 0.99
- P83134 · AlphaFold monomer V2.0 prediction for hemoglobin D subunit alpha (P83134) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P83134
- Every structure of UniProt P83133
- Elsewhere: RCSB PDB 1V75 · PDBe 1V75 · UniProt P83134 · UniProt P83133
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