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Crystal structure of an antigen-binding fragment of monoclonal antibody against sulfonamides
Analyse Crystal structure of an antigen-binding fragment of monoclonal antibody against… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5CP7
- Type
- protein
- Length
- 1,709 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Light chain of antigen-binding fragment of monoclonal antibody of 4C7; Heavy chain of…
- Pockets
- 20 · best druggability 0.86
Structure
x-ray diffraction · 5 distinct chains · 4% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G | Light chain of antigen-binding fragment of monoclonal antibody of 4C7 | protein | 218 | 6% helix, 49% strand | — |
| B | Heavy chain of antigen-binding fragment of monoclonal antibody of 4C7 | protein | 214 | 4% helix, 52% strand | — |
| D | Heavy chain of antigen-binding fragment of monoclonal antibody of 4C7 | protein | 204 | 4% helix, 52% strand | — |
| F | Heavy chain of antigen-binding fragment of monoclonal antibody of 4C7 | protein | 207 | 1% helix, 44% strand | — |
| H | Heavy chain of antigen-binding fragment of monoclonal antibody of 4C7 | protein | 212 | 6% helix, 50% strand | — |
Pockets
20 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1166 | 0.86 | 0.86 | 145 | empty |
| 2 | 68 | 0.71 | 0.97 | 16 | empty |
| 3 | 59 | 0.70 | 0.96 | 15 | empty |
| 4 | 305 | 0.57 | 0.77 | 50 | empty |
| 5 | 253 | 0.56 | 0.77 | 37 | empty |
Interfaces
17 interfaces between chains.
- B–C · 1800 Ų buried · 16 hydrogen bonds · protein-protein
- F–G · 1761 Ų buried · 12 hydrogen bonds · protein-protein
- A–H · 1685 Ų buried · 15 hydrogen bonds · protein-protein
- D–E · 1647 Ų buried · 13 hydrogen bonds · protein-protein
- A–G · 276 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide (disulfide).
Compared structures
- 5CP7 · Crystal Structure of an Antigen-Binding Fragment of Monoclonal Antibody against… · 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 5CP7 · PDBe 5CP7
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