MolNFT v1 · #36425 · protein
Crystal structure of Fab' from the HIV-1 neutralizing antibody 2F5
2F5A · Protein (antibody 2F5 (light chain)): “Crystal structure of Fab' from the HIV-1 neutralizing antibody 2F5”. X-ray diffraction, 3 pockets (best druggability 0.61). MolNFT v1 #36425 on GenesisL1: 3D structure, binding sites and…
- PDB
- 2F5A
- Type
- protein
- Length
- 441 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein (antibody 2F5 (light chain)); Protein (antibody 2F5 (heavy chain))
- Pockets
- 3 · best druggability 0.61
Structure
x-ray diffraction · 2 distinct chains · 8% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | Protein (antibody 2F5 (light chain)) | protein | 213 | 6% helix, 50% strand | — |
| H | Protein (antibody 2F5 (heavy chain)) | protein | 228 | 11% helix, 48% strand | — |
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 | 527 | 0.61 | 0.75 | 56 | empty |
| 2 | 82 | 0.30 | 0.73 | 19 | empty |
| 3 | 70 | 0.29 | 0.73 | 20 | empty |
Interfaces
1 interface between chains.
- L–H · 1800 Ų buried · 19 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 2F5A · Crystal structure of Fab' from the HIV-1 neutralizing antibody 2F5 · the same entry in another collection · chain L against L, 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 2F5A · PDBe 2F5A
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