Research workbench
Monoclonal antibody Fab D44.1 raised against chicken egg- white lysozyme complexed with 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
- 1MLC
- Type
- protein
- Length
- 1,122 residues
- Chains
- 6
- 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); Hen egg white…
- UniProt
- P00698
- Pockets
- 11 · best druggability 0.53
Structure
x-ray diffraction · 3 distinct chains · 11% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | IGG1-kappa D44.1 Fab (light chain) | protein | 214 | 4% helix, 50% strand | — |
| B, D | IGG1-kappa D44.1 Fab (heavy chain) | protein | 218 | 4% helix, 51% strand | — |
| E, F | Hen egg white lysozyme | protein | 129 | 36% helix, 11% strand | P00698 |
Pockets
11 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 341 | 0.53 | 0.73 | 47 | empty |
| 2 | 303 | 0.53 | 0.74 | 42 | empty |
| 3 | 234 | 0.50 | 0.75 | 41 | empty |
| 4 | 136 | 0.44 | 0.77 | 25 | empty |
| 5 | 103 | 0.39 | 0.76 | 23 | empty |
Interfaces
8 interfaces between chains.
- A–B · 1705 Ų buried · 15 hydrogen bonds · protein-protein
- C–D · 1698 Ų buried · 17 hydrogen bonds · protein-protein
- B–E · 505 Ų buried · 10 hydrogen bonds · protein-protein
- D–F · 500 Ų buried · 9 hydrogen bonds · protein-protein
- C–F · 302 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 disulfide (disulfide).
Compared structures
- 1MLC · Monoclonal antibody Fab D44.1 raised against chicken egg-white lysozyme complexed with… · 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 P00698
- Elsewhere: RCSB PDB 1MLC · PDBe 1MLC · UniProt P00698
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