Research workbench
Crystal structure of apct transporter bound to 7F11 monoclonal Fab fragment
Analyse Crystal structure of apct transporter bound to 7F11 monoclonal Fab fragment in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3GI9
- Type
- protein
- Length
- 873 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 7F11 anti-apct monoclonal Fab light chain; 7F11 anti-apct monoclonal Fab heavy chain…
- UniProt
- Q58026
- Pockets
- 11 · best druggability 0.64
Structure
x-ray diffraction · 3 distinct chains · 42% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | 7F11 anti-apct monoclonal Fab light chain | protein | 219 | 5% helix, 55% strand | — |
| H | 7F11 anti-apct monoclonal Fab heavy chain | protein | 217 | 7% helix, 54% strand | — |
| C | Uncharacterized protein MJ0609 | protein | 437 | 78% helix, 1% strand | Q58026 |
Pockets
11 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 639 | 0.64 | 0.74 | 66 | empty |
| 2 | 211 | 0.57 | 0.80 | 36 | empty |
| 3 | 166 | 0.56 | 0.81 | 25 | empty |
| 4 | 146 | 0.47 | 0.76 | 20 | empty |
| 5 | 126 | 0.43 | 0.76 | 23 | empty |
Interfaces
3 interfaces between chains.
- L–H · 1844 Ų buried · 16 hydrogen bonds · protein-protein
- H–C · 893 Ų buried · 14 hydrogen bonds · protein-protein
- L–C · 106 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 3GI9 · Crystal Structure of ApcT Transporter Bound to 7F11 Monoclonal Fab Fragment · the same entry in another collection · chain L against L, TM-score 1.00
- Q58026 · AlphaFold monomer V2.0 prediction for uncharacterized protein MJ0609 (Q58026) · a predicted model of the same protein · chain C against A, TM-score 0.92
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 Q58026
- Elsewhere: RCSB PDB 3GI9 · PDBe 3GI9 · UniProt Q58026
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