Research workbench
Crystal structure and characterization of human heavy-chain only antibodies reveals a novel, stable dimeric structure similar to monoclonal antibodies
Analyse Crystal structure and characterization of human heavy-chain only antibodies… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7KQY
- Type
- protein
- Length
- 1,245 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Heavy-chain only human antibodies
- Pockets
- 12 · best druggability 0.67
Structure
x-ray diffraction · 6 distinct chains · 4% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Heavy-chain only human antibodies | protein | 213 | 3% helix, 54% strand | — |
| B | Heavy-chain only human antibodies | protein | 203 | 3% helix, 52% strand | — |
| C | Heavy-chain only human antibodies | protein | 202 | 1% helix, 48% strand | — |
| D | Heavy-chain only human antibodies | protein | 207 | 6% helix, 48% strand | — |
| E | Heavy-chain only human antibodies | protein | 216 | 3% helix, 51% strand | — |
| F | Heavy-chain only human antibodies | protein | 204 | 6% helix, 47% strand | — |
Pockets
12 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 50 | 0.67 | 0.96 | 15 | empty |
| 2 | 751 | 0.65 | 0.74 | 74 | empty |
| 3 | 599 | 0.64 | 0.75 | 77 | empty |
| 4 | 149 | 0.63 | 0.85 | 25 | empty |
| 5 | 319 | 0.56 | 0.76 | 42 | empty |
Interfaces
8 interfaces between chains.
- E–F · 1875 Ų buried · 22 hydrogen bonds · protein-protein
- A–B · 1764 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 1627 Ų buried · 11 hydrogen bonds · protein-protein
- A–D · 789 Ų buried · 9 hydrogen bonds · protein-protein
- C–E · 646 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 7 disulfide, 1 isopeptide (disulfide, isopeptide).
Compared structures
- 7KQY · Crystal Structure and Characterization of Human Heavy-Chain only Antibodies reveals a… · 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 7KQY · PDBe 7KQY
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