Research workbench
Crystal structure of monoclonal anti-CD4 antibody Q425 in complex with calcium
Analyse Crystal structure of monoclonal anti-CD4 antibody Q425 in complex with calcium in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2ADJ
- Type
- protein
- Length
- 425 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Q425 Fab light chain; Q425 Fab heavy chain
- UniProt
- Q58EU4
- Ligands
- CA
- Pockets
- 5 · best druggability 0.44
Structure
x-ray diffraction · 2 distinct chains · 5% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Q425 Fab light chain | protein | 211 | 4% helix, 47% strand | Q58EU4 |
| B | Q425 Fab heavy chain | protein | 214 | 6% helix, 48% strand | — |
Ligands and binding sites
- CA · Calcium ion · metal · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 198 | 0.44 | 0.73 | 36 | empty |
| 2 | 135 | 0.41 | 0.74 | 25 | empty |
| 3 | 112 | 0.40 | 0.76 | 24 | empty |
| 4 | 105 | 0.38 | 0.75 | 20 | empty |
| 5 | 65 | 0.25 | 0.71 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 1769 Ų buried · 14 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 2ADJ · Crystal structure of monoclonal anti-CD4 antibody Q425 in complex with Calcium · 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 Q58EU4
- Elsewhere: RCSB PDB 2ADJ · PDBe 2ADJ · UniProt Q58EU4
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