Research workbench
Structure of the malaria antigen AMA1 in complex with a growth- inhibitory antibody
Analyse Structure of the malaria antigen AMA1 in complex with a growth- inhibitory… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2Q8A
- Type
- protein
- Length
- 729 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Apical membrane antigen 1; 1F9 light chain; 1F9 heavy chain
- UniProt
- Q7KQK5
- Pockets
- 8 · best druggability 0.71
Structure
x-ray diffraction · 3 distinct chains · 11% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Apical membrane antigen 1 | protein | 316 | 19% helix, 25% strand | Q7KQK5 |
| L | 1F9 light chain | protein | 214 | 5% helix, 51% strand | — |
| H | 1F9 heavy chain | protein | 199 | 5% helix, 57% strand | — |
Pockets
8 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 59 | 0.71 | 0.98 | 18 | empty |
| 2 | 250 | 0.62 | 0.80 | 43 | empty |
| 3 | 427 | 0.59 | 0.75 | 44 | empty |
| 4 | 226 | 0.53 | 0.77 | 27 | empty |
| 5 | 56 | 0.45 | 0.84 | 19 | empty |
Interfaces
3 interfaces between chains.
- L–H · 1565 Ų buried · 13 hydrogen bonds · protein-protein
- A–H · 894 Ų buried · 9 hydrogen bonds · protein-protein
- A–L · 454 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 disulfide (disulfide).
Compared structures
- 2Q8A · Structure of the malaria antigen AMA1 in complex with a growth-inhibitory antibody · 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 Q7KQK5
- Elsewhere: RCSB PDB 2Q8A · PDBe 2Q8A · UniProt Q7KQK5
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