Research workbench
The structure of an antitumor CH2-domain-deleted humanized antibody
Analyse The structure of an antitumor CH2-domain-deleted humanized antibody in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1ZA6
- Type
- protein
- Length
- 2,176 residues
- Chains
- 8
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.8
- Source
- Homo sapiens
- Molecule
- IGG Light chain; IGG Heavy chain
- UniProt
- Q6GMV9, Q6GMX6
- Pockets
- 20 · best druggability 0.72
Structure
x-ray diffraction · resolution 2.8 · 2 distinct chains · 6% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C, E, G | IGG Light chain | protein | 220 | 7% helix, 50% strand | Q6GMV9 |
| B, D, F, H | IGG Heavy chain | protein | 324 | 6% helix, 50% strand | Q6GMX6 |
Pockets
20 pockets found on a 1 Å grid, 14 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1122 | 0.72 | 0.76 | 138 | empty |
| 2 | 696 | 0.70 | 0.78 | 77 | empty |
| 3 | 375 | 0.70 | 0.82 | 39 | empty |
| 4 | 333 | 0.69 | 0.83 | 31 | empty |
| 5 | 272 | 0.61 | 0.80 | 36 | empty |
Interfaces
16 interfaces between chains.
- E–F · 1809 Ų buried · 14 hydrogen bonds · protein-protein
- G–H · 1746 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 1728 Ų buried · 10 hydrogen bonds · protein-protein
- C–D · 1706 Ų buried · 10 hydrogen bonds · protein-protein
- F–H · 1372 Ų buried · 22 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 24 disulfide (disulfide).
Compared structures
- 1ZA6 · The structure of an antitumor CH2-domain-deleted humanized antibody · 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
- Every structure of UniProt Q6GMV9
- Every structure of UniProt Q6GMX6
- Elsewhere: RCSB PDB 1ZA6 · PDBe 1ZA6 · UniProt Q6GMV9 · UniProt Q6GMX6
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.