MolNFT v1 · #178300 · protein
Cryo-EM structure of EBV gb in complex with nabs 3A3 and 3A5
7FBI · 3A3 heavy chain: “Cryo-EM structure of EBV gb in complex with nabs 3A3 and 3A5”. Electron microscopy, 16 pockets (best druggability 0.78). MolNFT v1 #178300 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7FBI
- Type
- protein
- Length
- 1,005 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 3A3 heavy chain; 3A3 light chain; Envelope glycoprotein B; 3A5 light chain; 3A5 heavy…
- UniProt
- R4R670
- Pockets
- 16 · best druggability 0.78
Structure
electron microscopy · 5 distinct chains · 7% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | 3A3 heavy chain | protein | 107 | 3% helix, 29% strand | — |
| L | 3A3 light chain | protein | 112 | 0% helix, 29% strand | — |
| A | Envelope glycoprotein B | protein | 557 | 13% helix, 24% strand | R4R670 |
| M | 3A5 light chain | protein | 110 | 0% helix, 27% strand | — |
| N | 3A5 heavy chain | protein | 119 | 0% helix, 28% strand | — |
Pockets
16 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 514 | 0.78 | 0.85 | 82 | empty |
| 2 | 78 | 0.71 | 0.95 | 28 | empty |
| 3 | 486 | 0.69 | 0.79 | 48 | empty |
| 4 | 218 | 0.67 | 0.85 | 35 | empty |
| 5 | 101 | 0.60 | 0.86 | 20 | empty |
Interfaces
6 interfaces between chains.
- M–N · 1014 Ų buried · 6 hydrogen bonds · protein-protein
- H–L · 816 Ų buried · 5 hydrogen bonds · protein-protein
- H–A · 460 Ų buried · 0 hydrogen bonds · protein-protein
- L–A · 387 Ų buried · 4 hydrogen bonds · protein-protein
- A–M · 309 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 7FBI · Cryo-EM structure of EBV gB in complex with nAbs 3A3 and 3A5 · 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 R4R670
- Elsewhere: RCSB PDB 7FBI · PDBe 7FBI · UniProt R4R670
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