MolNFT v1 · #56234 · protein
Structure of an ignar-AMA1 complex
2Z8V · Apical membrane antigen 1: “Structure of an ignar-AMA1 complex”. X-ray diffraction, 11 pockets (best druggability 0.77). MolNFT v1 #56234 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2Z8V
- Type
- protein
- Length
- 902 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Apical membrane antigen 1; New antigen receptor variable domain
- UniProt
- Q7KQK5, Q6X1E6
- Pockets
- 11 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 13% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Apical membrane antigen 1 | protein | 335 | 17% helix, 25% strand | Q7KQK5 |
| C, D | New antigen receptor variable domain | protein | 116 | 3% helix, 59% strand | Q6X1E6 |
Pockets
11 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 744 | 0.77 | 0.81 | 79 | empty |
| 2 | 864 | 0.70 | 0.76 | 72 | empty |
| 3 | 125 | 0.70 | 0.91 | 19 | empty |
| 4 | 339 | 0.60 | 0.77 | 41 | empty |
| 5 | 191 | 0.57 | 0.80 | 22 | empty |
Interfaces
4 interfaces between chains.
- A–B · 1330 Ų buried · 16 hydrogen bonds · protein-protein
- A–D · 1133 Ų buried · 9 hydrogen bonds · protein-protein
- B–C · 1077 Ų buried · 16 hydrogen bonds · protein-protein
- A–C · 89 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 disulfide (disulfide).
Compared structures
- 2Z8V · Structure of an IgNAR-AMA1 complex · 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
- Every structure of UniProt Q6X1E6
- Elsewhere: RCSB PDB 2Z8V · PDBe 2Z8V · UniProt Q7KQK5 · UniProt Q6X1E6
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