MolNFT v1 · #46451 · protein
An arginine ladder in oprp mediates phosphate specific transfer across the outer membrane
2O4V · Porin P: “An arginine ladder in oprp mediates phosphate specific transfer across the outer membrane”. X-ray diffraction, 3 ligands (CA, PO4, CL), 10 pockets (best druggability 0.82). MolNFT v1 #46451 on GenesisL1: 3D structure…
- PDB
- 2O4V
- Type
- protein
- Length
- 1,233 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Porin P
- UniProt
- P05695
- Ligands
- CA, PO4, CL
- Pockets
- 10 · best druggability 0.82
Structure
x-ray diffraction · 1 distinct chain · 5% helix, 56% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Porin P | protein | 411 | 5% helix, 56% strand | P05695 |
Ligands and binding sites
- CA · Calcium ion · metal · 3 copies · chains A, B, C
- PO4 · Phosphate ion · ion · 3 copies · chains A, B, C
- CL · Chloride ion · ion · chains A, B, C
- C8E · (hydroxyethyloxy)tri(ethyloxy)octane · additive · 4 copies · chains A, B, C
- GOL · Glycerol · additive · 2 copies · chains A, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 957 | 0.82 | 0.83 | 94 | PO4 |
| 2 | 1189 | 0.80 | 0.82 | 113 | PO4, GOL |
| 3 | 1196 | 0.79 | 0.81 | 120 | PO4, GOL |
| 4 | 62 | 0.75 | 0.99 | 17 | CL |
| 5 | 221 | 0.56 | 0.78 | 28 | C8E |
Interfaces
3 interfaces between chains.
- A–B · 2076 Ų buried · 40 hydrogen bonds · protein-protein
- A–C · 2067 Ų buried · 39 hydrogen bonds · protein-protein
- B–C · 2060 Ų buried · 38 hydrogen bonds · protein-protein
Compared structures
- 2O4V · An arginine ladder in OprP mediates phosphate specific transfer across the outer membrane · the same entry in another collection · chain B against B, TM-score 1.00
- P05695 · AlphaFold monomer V2.0 prediction for porin P (P05695) · a predicted model of the same protein · 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 P05695
- Elsewhere: RCSB PDB 2O4V · PDBe 2O4V · UniProt P05695
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.