MolNFT v2 · #125778 · protein
AFAMIN ANTIBODY FRAGMENT, N14 FAB, L1- GLYCOSILATED, CRYSTAL FORM I, non-parsimonious model
5L88: “AFAMIN ANTIBODY FRAGMENT, N14 FAB, L1- GLYCOSILATED, CRYSTAL FORM I, non-parsimonious model”. X-ray diffraction at 1.88, 3 ligands (NAG, FUC, K). MolNFT v2 #125778 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5L88
- Type
- protein
- Length
- 432 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.88
- Source
- Mus musculus
- Ligands
- NAG, FUC, K
Structure
x-ray diffraction · resolution 1.88 · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| H | — | protein | 217 | — | — |
| L | — | protein | 215 | — | — |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains L
- FUC · alpha-L-fucopyranose · sugar · chains L
- K · Potassium ion · metal · chains H
- PGE · Triethylene glycol · additive · 5 copies · chains H, L
- PG4 · Tetraethylene glycol · additive · 4 copies · chains H, L
- PEG · Di(hydroxyethyl)ether · additive · 3 copies · chains H, L
- PE8 · 3,6,9,12,15,18,21-heptaoxatricosane-1,23-diol · additive · chains H
- 1PE · Pentaethylene glycol · additive · chains H, L
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 5L88 · Afamin antibody fragment, N14 Fab, L1- glycosilated, crystal form I, non-parsimonious… · 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 5L88 · PDBe 5L88
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