Research workbench
Crystal structure of the azotobacter vinelandii globin- coupled oxygen sensor in the aquo-met form
Analyse Crystal structure of the azotobacter vinelandii globin- coupled oxygen sensor… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4UII
- Type
- protein
- Length
- 258 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Ggdef domain protein
- EC
- 2.7.7.65
- UniProt
- M9YE33
- Ligands
- HEM
- Pockets
- 3 · best druggability 0.63
Structure
x-ray diffraction · 2 distinct chains · 71% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Ggdef domain protein (EC 2.7.7.65) | protein | 132 | 73% helix, 0% strand | M9YE33 |
| B | Ggdef domain protein (EC 2.7.7.65) | protein | 126 | 69% helix, 0% strand | M9YE33 |
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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 412 | 0.63 | 0.77 | 52 | HEM |
| 2 | 272 | 0.56 | 0.76 | 23 | HEM |
| 3 | 81 | 0.39 | 0.78 | 23 | empty |
Interfaces
1 interface between chains.
- A–B · 1368 Ų buried · 22 hydrogen bonds · protein-protein
Compared structures
- 4UII · Crystal structure of the Azotobacter vinelandii globin-coupled oxygen sensor in the… · 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 M9YE33
- Elsewhere: RCSB PDB 4UII · PDBe 4UII · UniProt M9YE33
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