Research workbench
PFRH5 bound to monoclonal antibodies R5.011 and R5.016
Analyse PFRH5 bound to monoclonal antibodies R5.011 and R5.016 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6RCV
- Type
- protein
- Length
- 2,342 residues
- Chains
- 10
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Reticulocyte binding protein homologue 5; R5.011 light chain; R5.011 heavy chain; R5.016…
- UniProt
- Q8IFM5
- Pockets
- 20 · best druggability 0.60
Structure
x-ray diffraction · 9 distinct chains · 27% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Reticulocyte binding protein homologue 5 | protein | 299 | 78% helix, 3% strand | Q8IFM5 |
| B | R5.011 light chain | protein | 211 | 8% helix, 48% strand | — |
| C | R5.011 heavy chain | protein | 224 | 7% helix, 49% strand | — |
| D, I | R5.016 light chain | protein | 210 | 6% helix, 54% strand | — |
| E | R5.016 heavy chain | protein | 232 | 6% helix, 46% strand | — |
| F | Reticulocyte binding protein homologue 5 | protein | 299 | 79% helix, 4% strand | Q8IFM5 |
| G | R5.011 light chain | protein | 210 | 8% helix, 50% strand | — |
| H | R5.011 heavy chain | protein | 223 | 9% helix, 51% strand | — |
| J | R5.016 heavy chain | protein | 224 | 6% helix, 46% strand | — |
Pockets
20 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 471 | 0.60 | 0.75 | 38 | empty |
| 2 | 474 | 0.60 | 0.75 | 55 | empty |
| 3 | 302 | 0.52 | 0.74 | 41 | empty |
| 4 | 174 | 0.52 | 0.78 | 26 | empty |
| 5 | 279 | 0.50 | 0.74 | 41 | empty |
Interfaces
15 interfaces between chains.
- D–E · 2097 Ų buried · 10 hydrogen bonds · protein-protein
- B–C · 2005 Ų buried · 32 hydrogen bonds · protein-protein
- I–J · 1969 Ų buried · 11 hydrogen bonds · protein-protein
- G–H · 1949 Ų buried · 26 hydrogen bonds · protein-protein
- F–H · 1050 Ų buried · 22 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 19 disulfide (disulfide).
Compared structures
- 6RCV · PfRH5 bound to monoclonal antibodies R5.011 and R5.016 · the same entry in another collection · chain J against J, TM-score 1.00
- Q8IFM5 · AlphaFold monomer V2.0 prediction for reticulocyte-binding protein homolog 5 (Q8IFM5) · a predicted model of the same protein · chain F 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 Q8IFM5
- Elsewhere: RCSB PDB 6RCV · PDBe 6RCV · UniProt Q8IFM5
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