Research workbench
Foot and mouth disease virus O/TIBET/99-bound the single chain fragmen antibody C4
Analyse Foot and mouth disease virus O/TIBET/99-bound the single chain fragmen antibody… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7EO0
- Type
- protein
- Length
- 887 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- O/TIBET/99 VP1; O/TIBET/99 VP2; O/TIBET/99 VP3; O/TIBET/99 VP4; Ig heavy chain variable…
- UniProt
- A0A6B9SE04, A0A6B9SCH7
- Pockets
- 5 · best druggability 0.74
Structure
electron microscopy · 6 distinct chains · 6% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| 1 | O/TIBET/99 VP1 | protein | 182 | 7% helix, 24% strand | — |
| 2 | O/TIBET/99 VP2 | protein | 205 | 4% helix, 37% strand | — |
| 3 | O/TIBET/99 VP3 | protein | 219 | 6% helix, 27% strand | — |
| 4 | O/TIBET/99 VP4 | protein | 44 | 20% helix, 0% strand | — |
| H | Ig heavy chain variable region | protein | 129 | 5% helix, 37% strand | A0A6B9SE04 |
| L | Ig lamda chain variable region | protein | 108 | 3% helix, 40% strand | A0A6B9SCH7 |
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1196 | 0.74 | 0.77 | 111 | empty |
| 2 | 465 | 0.71 | 0.81 | 57 | empty |
| 3 | 251 | 0.59 | 0.79 | 27 | empty |
| 4 | 143 | 0.44 | 0.76 | 17 | empty |
| 5 | 70 | 0.34 | 0.76 | 16 | empty |
Interfaces
9 interfaces between chains.
- 1–2 · 1274 Ų buried · 16 hydrogen bonds · protein-protein
- H–L · 1108 Ų buried · 12 hydrogen bonds · protein-protein
- 1–3 · 1071 Ų buried · 12 hydrogen bonds · protein-protein
- 2–3 · 900 Ų buried · 10 hydrogen bonds · protein-protein
- 1–4 · 812 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 7EO0 · Foot and mouth disease virus O/TIBET/99-bound the single chain fragmen antibody C4 · the same entry in another collection · chain 1 against 1, 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 A0A6B9SE04
- Every structure of UniProt A0A6B9SCH7
- Elsewhere: RCSB PDB 7EO0 · PDBe 7EO0 · UniProt A0A6B9SE04 · UniProt A0A6B9SCH7
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