Research workbench
Anti-P24 (HIV-1) Fab fragment CB41 complexed with an epitope-unrelated D-peptide
Analyse Anti-P24 (HIV-1) Fab fragment CB41 complexed with an epitope-unrelated D-peptide in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1CFT
- Type
- protein
- Length
- 432 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (IGG2A kappa antibody CB41 (light chain) ); Protein (IGG2A kappa antibody CB41…
- Pockets
- 7 · best druggability 0.48
Structure
x-ray diffraction · 3 distinct chains · 5% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein (IGG2A kappa antibody CB41 (light chain) ) | protein | 214 | 6% helix, 50% strand | — |
| B | Protein (IGG2A kappa antibody CB41 (heavy chain) ) | protein | 213 | 4% helix, 51% strand | — |
| C | Protein (antigen bound peptide) | protein | 5 | 0% helix, 0% strand | — |
Pockets
7 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 177 | 0.48 | 0.76 | 30 | empty |
| 2 | 113 | 0.41 | 0.76 | 24 | empty |
| 3 | 88 | 0.35 | 0.75 | 17 | empty |
| 4 | 50 | 0.29 | 0.76 | 12 | empty |
| 5 | 54 | 0.28 | 0.74 | 13 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1793 Ų buried · 12 hydrogen bonds · protein-protein
- A–C · 230 Ų buried · 2 hydrogen bonds · protein-protein
- B–C · 221 Ų buried · 4 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 1CFT · Anti-P24 (HIV-1) Fab fragment CB41 complexed with an epitope-unrelated D-peptide · the same entry in another collection · chain B against B, 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 1CFT · PDBe 1CFT
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