Research workbench
Monoclonal antibody Fab D44.1 raised against chicken egg-white lysozyme
Analyse Monoclonal antibody Fab D44.1 raised against chicken egg-white lysozyme in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1MLB
- Type
- protein
- Length
- 432 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- IGG1-kappa D44.1 Fab (light chain); IGG1-kappa D44.1 Fab (heavy chain)
- UniProt
- P01837
- Pockets
- 4 · best druggability 0.53
Structure
x-ray diffraction · 2 distinct chains · 5% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | IGG1-kappa D44.1 Fab (light chain) | protein | 214 | 6% helix, 51% strand | P01837 |
| B | IGG1-kappa D44.1 Fab (heavy chain) | protein | 218 | 4% helix, 48% strand | — |
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 301 | 0.53 | 0.75 | 44 | empty |
| 2 | 73 | 0.45 | 0.82 | 18 | empty |
| 3 | 110 | 0.43 | 0.77 | 22 | empty |
| 4 | 67 | 0.32 | 0.75 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 1904 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 1MLB · Monoclonal antibody Fab D44.1 raised against chicken egg-white lysozyme · the same entry in another collection · chain A against A, TM-score 1.00
- P01837 · AlphaFold monomer V2.0 prediction for immunoglobulin kappa constant (P01837) · a predicted model of the same protein · chain A against A, TM-score 0.49
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 P01837
- Elsewhere: RCSB PDB 1MLB · PDBe 1MLB · UniProt P01837
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