MolNFT v1 · #105345 · protein
Crystal structure of human Fab PGT124, a broadly neutralizing and potent HIV-1 neutralizing antibody
4R26 · PGR124-light chain: “Crystal structure of human Fab PGT124, a broadly neutralizing and potent HIV-1 neutralizing antibody”. X-ray diffraction, 1 pocket (best druggability 0.60). MolNFT v1 #105345 on GenesisL1: 3D structure, binding…
- PDB
- 4R26
- Type
- protein
- Length
- 436 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- PGR124-light chain; PGT124-heavy chain
- UniProt
- P0DOY3, P0DOX5
- Pockets
- 1 · best druggability 0.60
Structure
x-ray diffraction · 2 distinct chains · 6% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | PGR124-light chain | protein | 210 | 6% helix, 48% strand | P0DOY3 |
| H | PGT124-heavy chain | protein | 226 | 7% helix, 52% strand | P0DOX5 |
Ligands and binding sites
- GOL · Glycerol · additive · 3 copies · chains L
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 533 | 0.60 | 0.74 | 63 | empty |
Interfaces
1 interface between chains.
- L–H · 1926 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 4R26 · Crystal structure of human Fab PGT124, a broadly neutralizing and potent HIV-1… · the same entry in another collection · chain L against L, TM-score 1.00
- P0DOY3 · AlphaFold monomer V2.0 prediction for immunoglobulin lambda constant 3 (P0DOY3) · a predicted model of the same protein · chain L against A, TM-score 0.49
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 P0DOY3
- Every structure of UniProt P0DOX5
- Elsewhere: RCSB PDB 4R26 · PDBe 4R26 · UniProt P0DOY3 · UniProt P0DOX5
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