Research workbench
Monoclinic form of IGG1 Fab fragment (apo form) sharing same fv as IgA
Analyse Monoclinic form of IGG1 Fab fragment (apo form) sharing same fv as IgA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3QO1
- Type
- protein
- Length
- 438 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fab fragment of immunoglobulin G1 light chain; Fab fragment of immunoglobulin G1 heavy…
- Pockets
- 3 · best druggability 0.65
Structure
x-ray diffraction · 2 distinct chains · 8% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Fab fragment of immunoglobulin G1 light chain | protein | 219 | 6% helix, 50% strand | — |
| B | Fab fragment of immunoglobulin G1 heavy chain | protein | 219 | 10% helix, 51% strand | — |
Ligands and binding sites
- GOL · Glycerol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 708 | 0.65 | 0.75 | 67 | empty |
| 2 | 134 | 0.44 | 0.77 | 23 | empty |
| 3 | 88 | 0.34 | 0.75 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 1791 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 3QO1 · Monoclinic form of IgG1 Fab fragment (apo form) sharing same Fv as IgA · 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 3QO1 · PDBe 3QO1
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