MolNFT v1 · #107132 · protein
Plasmodium falciparum reticulocyte-binding protein homologue 5 (PFRH5) bound to basigin
4U0Q · Reticulocyte binding protein 5: “Plasmodium falciparum reticulocyte-binding protein homologue 5 (PFRH5) bound to basigin”. X-ray diffraction, 10 pockets (best druggability 0.56). MolNFT v1 #107132 on GenesisL1: 3D structure, binding…
- PDB
- 4U0Q
- Type
- protein
- Length
- 933 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Reticulocyte binding protein 5; Basigin
- UniProt
- B2L3N7, P35613
- Pockets
- 10 · best druggability 0.56
Structure
x-ray diffraction · 3 distinct chains · 62% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Reticulocyte binding protein 5 | protein | 286 | 80% helix, 4% strand | B2L3N7 |
| B, D | Basigin | protein | 181 | 2% helix, 54% strand | P35613 |
| C | Reticulocyte binding protein 5 | protein | 285 | 81% helix, 4% strand | B2L3N7 |
Pockets
10 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 260 | 0.56 | 0.77 | 35 | empty |
| 2 | 157 | 0.54 | 0.79 | 17 | empty |
| 3 | 191 | 0.53 | 0.78 | 29 | empty |
| 4 | 148 | 0.52 | 0.79 | 19 | empty |
| 5 | 165 | 0.48 | 0.77 | 18 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1008 Ų buried · 17 hydrogen bonds · protein-protein
- C–D · 990 Ų buried · 18 hydrogen bonds · protein-protein
- B–D · 491 Ų buried · 13 hydrogen bonds · protein-protein
- A–D · 407 Ų buried · 3 hydrogen bonds · protein-protein
- B–C · 291 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 4U0Q · Plasmodium falciparum reticulocyte-binding protein homologue 5 (PfRH5) bound to basigin · the same entry in another collection · chain A against A, TM-score 1.00
- P35613 · AlphaFold monomer V2.0 prediction for basigin (P35613) · a predicted model of the same protein · chain D against A, TM-score 0.76
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 B2L3N7
- Every structure of UniProt P35613
- Elsewhere: RCSB PDB 4U0Q · PDBe 4U0Q · UniProt B2L3N7 · UniProt P35613
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