Research workbench
Immunoglobulin lambda variable domain L5(L89S) fluorogen activating protein
Analyse Immunoglobulin lambda variable domain L5(L89S) fluorogen activating protein in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4K3G
- Type
- protein
- Length
- 218 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Immunoglobulin lambda variable domain L5(L89S)
- Ligands
- MAN
- Pockets
- 3 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 4% helix, 53% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Immunoglobulin lambda variable domain L5(L89S) | protein | 109 | 6% helix, 52% strand | — |
| B | Immunoglobulin lambda variable domain L5(L89S) | protein | 109 | 3% helix, 54% strand | — |
Ligands and binding sites
- MAN · alpha-D-mannopyranose · sugar · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 55 | 0.68 | 0.96 | 20 | empty |
| 2 | 55 | 0.38 | 0.81 | 12 | empty |
| 3 | 56 | 0.30 | 0.76 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 784 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 disulfide, 1 glycan (disulfide, O-glycosylation).
Compared structures
- 4K3G · Immunoglobulin lambda variable domain L5(L89S) fluorogen activating protein · 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
- Elsewhere: RCSB PDB 4K3G · PDBe 4K3G
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