Research workbench
Complex of influenza M2E and antibody
Analyse Complex of influenza M2E and antibody in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5DLM
- Type
- protein
- Length
- 882 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Heavy chain of monoclonal antibody; Light chain of monoclonal antibody; Matrix protein 2
- UniProt
- A4U6V3
- Ligands
- SO4
- Pockets
- 11 · best druggability 0.77
Structure
x-ray diffraction · 4 distinct chains · 6% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | Heavy chain of monoclonal antibody | protein | 216 | 7% helix, 53% strand | — |
| L, M | Light chain of monoclonal antibody | protein | 217 | 6% helix, 53% strand | — |
| I | Heavy chain of monoclonal antibody | protein | 214 | 6% helix, 52% strand | — |
| X, Y | Matrix protein 2 | protein | 9 | 0% helix, 0% strand | A4U6V3 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains L, M
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1143 | 0.77 | 0.79 | 87 | SO4 |
| 2 | 649 | 0.66 | 0.75 | 59 | empty |
| 3 | 249 | 0.54 | 0.77 | 26 | empty |
| 4 | 199 | 0.52 | 0.77 | 35 | empty |
| 5 | 145 | 0.45 | 0.76 | 26 | empty |
Interfaces
9 interfaces between chains.
- I–M · 1737 Ų buried · 16 hydrogen bonds · protein-protein
- H–L · 1685 Ų buried · 14 hydrogen bonds · protein-protein
- L–M · 533 Ų buried · 3 hydrogen bonds · protein-protein
- H–X · 465 Ų buried · 13 hydrogen bonds · protein-protein
- I–Y · 449 Ų buried · 10 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 5DLM · Complex of Influenza M2e and Antibody · the same entry in another collection · chain H against H, 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 A4U6V3
- Elsewhere: RCSB PDB 5DLM · PDBe 5DLM · UniProt A4U6V3
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