Research workbench
Crystal structure of pfcsp peptide 21 with vaccine-elicited human anti-malaria antibody M43.138
Analyse Crystal structure of pfcsp peptide 21 with vaccine-elicited human anti-malaria… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7RDA
- Type
- protein
- Length
- 452 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Circumsporozoite protein; Antibody M43.138 heavy chain; Antibody M43.138 light chain
- UniProt
- P02893
- Pockets
- 3 · best druggability 0.64
Structure
x-ray diffraction · 3 distinct chains · 8% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C | Circumsporozoite protein | protein | 14 | 0% helix, 7% strand | P02893 |
| H | Antibody M43.138 heavy chain | protein | 220 | 10% helix, 53% strand | — |
| L | Antibody M43.138 light chain | protein | 218 | 7% helix, 52% strand | — |
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 | 611 | 0.64 | 0.75 | 62 | empty |
| 2 | 50 | 0.54 | 0.89 | 18 | empty |
| 3 | 74 | 0.39 | 0.78 | 15 | empty |
Interfaces
3 interfaces between chains.
- H–L · 1897 Ų buried · 16 hydrogen bonds · protein-protein
- C–L · 494 Ų buried · 6 hydrogen bonds · protein-protein
- C–H · 489 Ų buried · 13 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 7RDA · Crystal structure of PfCSP peptide 21 with vaccine-elicited human anti-malaria antibody… · the same entry in another collection · chain C against C, TM-score 1.00
- P02893 · AlphaFold monomer V2.0 prediction for circumsporozoite protein (P02893) · a predicted model of the same protein · chain C against A, TM-score 0.26
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 P02893
- Elsewhere: RCSB PDB 7RDA · PDBe 7RDA · UniProt P02893
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