MolNFT v1 · #46738 · protein
Putative prevent-host-death protein from nitrosomonas europaea
2ODK · Hypothetical protein: “Putative prevent-host-death protein from nitrosomonas europaea”. X-ray diffraction, 1 ligand (SO4), 2 pockets (best druggability 0.42). MolNFT v1 #46738 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 2ODK
- Type
- protein
- Length
- 204 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein
- UniProt
- Q82T22
- Ligands
- SO4
- Pockets
- 2 · best druggability 0.42
Structure
x-ray diffraction · 3 distinct chains · 52% helix, 31% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Hypothetical protein | protein | 51 | 51% helix, 31% strand | Q82T22 |
| B | Hypothetical protein | protein | 50 | 54% helix, 32% strand | Q82T22 |
| D | Hypothetical protein | protein | 52 | 50% helix, 31% strand | Q82T22 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 168 | 0.42 | 0.73 | 21 | SO4 |
| 2 | 151 | 0.40 | 0.73 | 19 | empty |
Interfaces
3 interfaces between chains.
- C–D · 1337 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 1291 Ų buried · 14 hydrogen bonds · protein-protein
- A–C · 310 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 modified (engineered).
Compared structures
- 2ODK · Putative prevent-host-death protein from Nitrosomonas europaea · 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 Q82T22
- Elsewhere: RCSB PDB 2ODK · PDBe 2ODK · UniProt Q82T22
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