Research workbench
Crystal structure of anti- MERS-CoV human neutralizing LCA60 antibody Fab fragment
Analyse Crystal structure of anti- MERS-CoV human neutralizing LCA60 antibody Fab… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6NB5
- Type
- protein
- Length
- 862 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3
- Source
- Homo sapiens
- Molecule
- LCA60 antigen-binding (Fab) fragment, heavy chain; LCA60 antigen-binding (Fab) fragment…
- Pockets
- 13 · best druggability 0.73
Structure
x-ray diffraction · resolution 3 · 4 distinct chains · 8% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | LCA60 antigen-binding (Fab) fragment, heavy chain | protein | 220 | 7% helix, 51% strand | — |
| L | LCA60 antigen-binding (Fab) fragment, light chain | protein | 210 | 9% helix, 45% strand | — |
| I | LCA60 antigen-binding (Fab) fragment, heavy chain | protein | 223 | 8% helix, 50% strand | — |
| M | LCA60 antigen-binding (Fab) fragment, light chain | protein | 209 | 7% helix, 47% strand | — |
Pockets
13 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 597 | 0.73 | 0.81 | 66 | empty |
| 2 | 710 | 0.70 | 0.77 | 56 | empty |
| 3 | 298 | 0.66 | 0.82 | 46 | empty |
| 4 | 151 | 0.57 | 0.82 | 24 | empty |
| 5 | 175 | 0.53 | 0.79 | 39 | empty |
Interfaces
5 interfaces between chains.
- I–M · 1907 Ų buried · 24 hydrogen bonds · protein-protein
- H–L · 1879 Ų buried · 17 hydrogen bonds · protein-protein
- H–M · 220 Ų buried · 1 hydrogen bond · protein-protein
- L–I · 167 Ų buried · 1 hydrogen bond · protein-protein
- H–I · 129 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 6NB5 · Crystal structure of anti- MERS-cov human neutralizing LCA60 antibody Fab fragment · the same entry in another collection · chain H against H, 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 6NB5 · PDBe 6NB5
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