Research workbench
Cryoem structure of chimeric eastern equine encephalitis virus with Fab of eeev-69 antibody
Analyse Cryoem structure of chimeric eastern equine encephalitis virus with Fab of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6MWX
- Type
- protein
- Length
- 4,616 residues
- Chains
- 16
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- E1; E2; Eeev-69 antibody heavy chain; Eeev-69 antibody light chain
- UniProt
- E9KXM2, E9KXL2, G0YP42
- Pockets
- 20 · best druggability 0.86
Structure
electron microscopy · 4 distinct chains · 4% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, E, I, M | E1 | protein | 400 | 3% helix, 29% strand | E9KXM2 |
| B, F, J, N | E2 | protein | 325 | 1% helix, 37% strand | E9KXL2 |
| C, G, K, O | Eeev-69 antibody heavy chain | protein | 218 | 8% helix, 55% strand | — |
| D, H, L, P | Eeev-69 antibody light chain | protein | 211 | 6% helix, 55% strand | G0YP42 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1053 | 0.86 | 0.87 | 117 | empty |
| 2 | 954 | 0.83 | 0.85 | 85 | empty |
| 3 | 917 | 0.83 | 0.85 | 79 | empty |
| 4 | 378 | 0.75 | 0.86 | 58 | empty |
| 5 | 381 | 0.75 | 0.86 | 63 | empty |
Interfaces
25 interfaces between chains.
- A–B · 2634 Ų buried · 35 hydrogen bonds · protein-protein
- E–F · 2632 Ų buried · 36 hydrogen bonds · protein-protein
- I–J · 2625 Ų buried · 35 hydrogen bonds · protein-protein
- M–N · 2619 Ų buried · 34 hydrogen bonds · protein-protein
- O–P · 1863 Ų buried · 21 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 72 disulfide, 1 isopeptide (disulfide, isopeptide).
Compared structures
- 6MWX · CryoEM structure of Chimeric Eastern Equine Encephalitis Virus with Fab of EEEV-69… · 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 E9KXM2
- Every structure of UniProt E9KXL2
- Every structure of UniProt G0YP42
- Elsewhere: RCSB PDB 6MWX · PDBe 6MWX · UniProt E9KXM2 · UniProt E9KXL2 · UniProt G0YP42
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