Research workbench
Development of a monoclonal antibody targeting secreted AP2 to treat diabetes and fatty liver disease
Analyse Development of a monoclonal antibody targeting secreted AP2 to treat diabetes… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5C0N
- Type
- protein
- Length
- 1,124 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Fatty acid-binding protein, adipocyte; Fab CA33 heavy chain; Fab CA33 light chain
- UniProt
- P04117
- Pockets
- 15 · best druggability 0.85
Structure
x-ray diffraction · 4 distinct chains · 7% helix, 52% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Fatty acid-binding protein, adipocyte | protein | 131 | 13% helix, 56% strand | P04117 |
| H | Fab CA33 heavy chain | protein | 214 | 6% helix, 50% strand | — |
| L, D | Fab CA33 light chain | protein | 216 | 6% helix, 53% strand | — |
| C | Fab CA33 heavy chain | protein | 216 | 6% helix, 50% strand | — |
Pockets
15 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 331 | 0.85 | 0.94 | 34 | empty |
| 2 | 366 | 0.84 | 0.93 | 36 | empty |
| 3 | 549 | 0.66 | 0.77 | 73 | empty |
| 4 | 421 | 0.62 | 0.77 | 55 | empty |
| 5 | 424 | 0.61 | 0.76 | 39 | empty |
Interfaces
10 interfaces between chains.
- C–D · 1913 Ų buried · 20 hydrogen bonds · protein-protein
- H–L · 1890 Ų buried · 23 hydrogen bonds · protein-protein
- A–L · 482 Ų buried · 12 hydrogen bonds · protein-protein
- B–D · 480 Ų buried · 9 hydrogen bonds · protein-protein
- L–D · 232 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 10 disulfide (disulfide).
Compared structures
- 5C0N · Development of a monoclonal antibody targeting secreted aP2 to treat diabetes and fatty… · the same entry in another collection · chain D against D, TM-score 1.00
- P04117 · AlphaFold monomer V2.0 prediction for fatty acid-binding protein, adipocyte (P04117) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P04117
- Elsewhere: RCSB PDB 5C0N · PDBe 5C0N · UniProt P04117
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