MolNFT v1 · #135631 · protein
Crystal structure of the broadly neutralizing influenza a antibody vrc 315 53-1A09 Fab.
5U4R · Vrc 315 53-1A09 Fab heavy chain: “Crystal structure of the broadly neutralizing influenza a antibody vrc 315 53-1A09 Fab.”. X-ray diffraction, 8 pockets (best druggability 0.77). MolNFT v1 #135631 on GenesisL1: 3D structure, binding…
- PDB
- 5U4R
- Type
- protein
- Length
- 891 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Vrc 315 53-1A09 Fab heavy chain; Vrc 315 53-1A09 Fab light chain
- Pockets
- 8 · best druggability 0.77
Structure
x-ray diffraction · 4 distinct chains · 7% helix, 49% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Vrc 315 53-1A09 Fab heavy chain | protein | 232 | 9% helix, 48% strand | — |
| B | Vrc 315 53-1A09 Fab light chain | protein | 212 | 6% helix, 50% strand | — |
| H | Vrc 315 53-1A09 Fab heavy chain | protein | 233 | 9% helix, 47% strand | — |
| L | Vrc 315 53-1A09 Fab light chain | protein | 214 | 5% helix, 50% strand | — |
Pockets
8 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 991 | 0.77 | 0.79 | 91 | empty |
| 2 | 523 | 0.66 | 0.77 | 49 | empty |
| 3 | 353 | 0.64 | 0.79 | 43 | empty |
| 4 | 239 | 0.53 | 0.76 | 44 | empty |
| 5 | 226 | 0.51 | 0.76 | 35 | empty |
Interfaces
5 interfaces between chains.
- H–L · 2029 Ų buried · 18 hydrogen bonds · protein-protein
- A–B · 1958 Ų buried · 18 hydrogen bonds · protein-protein
- B–L · 371 Ų buried · 3 hydrogen bonds · protein-protein
- B–H · 126 Ų buried · 0 hydrogen bonds · protein-protein
- A–L · 90 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 9 disulfide (disulfide).
Compared structures
- 5U4R · Crystal structure of the broadly neutralizing Influenza A antibody VRC 315 53-1A09 Fab. · 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 5U4R · PDBe 5U4R
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