MolNFT v1 · #56235 · protein
Structure of an ignar-AMA1 complex
2Z8W · Apical membrane antigen 1: “Structure of an ignar-AMA1 complex”. X-ray diffraction, 9 pockets (best druggability 0.81). MolNFT v1 #56235 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2Z8W
- 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
- 9 · best druggability 0.81
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 | 16% helix, 26% strand | Q7KQK5 |
| C, D | New antigen receptor variable domain | protein | 116 | 3% helix, 58% strand | Q6X1E6 |
Pockets
9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1004 | 0.81 | 0.82 | 103 | empty |
| 2 | 961 | 0.70 | 0.75 | 73 | empty |
| 3 | 87 | 0.63 | 0.89 | 17 | empty |
| 4 | 240 | 0.51 | 0.76 | 26 | empty |
| 5 | 96 | 0.43 | 0.79 | 24 | empty |
Interfaces
4 interfaces between chains.
- A–B · 1301 Ų buried · 17 hydrogen bonds · protein-protein
- A–D · 1120 Ų buried · 12 hydrogen bonds · protein-protein
- B–C · 1094 Ų buried · 16 hydrogen bonds · protein-protein
- A–C · 157 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 disulfide (disulfide).
Compared structures
- 2Z8W · 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 2Z8W · PDBe 2Z8W · UniProt Q7KQK5 · UniProt Q6X1E6
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