Research workbench
Crystal structure of DH270.6 (unliganded) from the DH270 broadly neutralizing N332-glycan dependent lineage
Analyse Crystal structure of DH270.6 (unliganded) from the DH270 broadly neutralizing… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5TQA
- Type
- protein
- Length
- 882 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DH270.6 Fab heavy chain; DH270.6 Fab light chain
- Pockets
- 10 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 7% helix, 51% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H, A | DH270.6 Fab heavy chain | protein | 230 | 5% helix, 50% strand | — |
| L, B | DH270.6 Fab light chain | protein | 211 | 9% helix, 51% strand | — |
Pockets
10 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 963 | 0.72 | 0.76 | 85 | empty |
| 2 | 531 | 0.60 | 0.74 | 49 | empty |
| 3 | 469 | 0.56 | 0.73 | 55 | empty |
| 4 | 197 | 0.46 | 0.74 | 28 | empty |
| 5 | 105 | 0.42 | 0.77 | 22 | empty |
Interfaces
5 interfaces between chains.
- H–L · 1851 Ų buried · 20 hydrogen bonds · protein-protein
- B–A · 1812 Ų buried · 21 hydrogen bonds · protein-protein
- H–A · 644 Ų buried · 8 hydrogen bonds · protein-protein
- H–B · 106 Ų buried · 0 hydrogen bonds · protein-protein
- L–A · 92 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 9 disulfide (disulfide).
Compared structures
- 5TQA · Crystal Structure of DH270.6 (unliganded) from the DH270 Broadly Neutralizing N332-Glycan… · the same entry in another collection · chain H against H, 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 5TQA · PDBe 5TQA
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