MolNFT v1 · #134132 · protein
Anti-ricin a-chain single domain antibody A3C8
5SV4: “Anti-ricin a-chain single domain antibody A3C8”. X-ray diffraction, 1 ligand (SO4), 1 pocket (best druggability 0.46). MolNFT v1 #134132 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5SV4
- Type
- protein
- Length
- 254 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Single domain antibody A3C8
- Ligands
- SO4
- Pockets
- 1 · best druggability 0.46
Structure
x-ray diffraction · 2 distinct chains · 9% helix, 47% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Single domain antibody A3C8 | protein | 126 | 10% helix, 48% strand | — |
| B | Single domain antibody A3C8 | protein | 128 | 9% helix, 46% strand | — |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 104 | 0.46 | 0.80 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 295 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide (disulfide).
Compared structures
- 5SV4 · Anti-Ricin A-chain Single Domain Antibody A3C8 · 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
- Elsewhere: RCSB PDB 5SV4 · PDBe 5SV4
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