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The crystal structures of three complexes between chitooligosaccharides and lysozyme from the rainbow trout

Analyse The crystal structures of three complexes between chitooligosaccharides and… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.

PDB
1LMP
Type
protein
Length
129 residues
Chains
1
Method
x-ray diffraction
Collection
MolNFT v1 / PDB
Contract
0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
Owner
0x3396CDB397284571d12822B4ae1189a8E22AAAAA
Molecule
Lysozyme
EC
3.2.1.17
UniProt
P11941
Ligands
NAG, NDG
Pockets
1 · best druggability 0.35

Structure

x-ray diffraction · 1 distinct chain · 38% helix, 11% strand (DSSP).

ChainMoleculeTypeResiduesSecondary structureUniProt
ALysozyme (EC 3.2.1.17)protein12938% helix, 11% strandP11941

Ligands and binding sites

  • NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A
  • NDG · 2-acetamido-2-deoxy-alpha-D-glucopyranose · sugar · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.

PocketVolume (ų)DruggabilityBuriednessLining residuesInside
1820.350.7516NDG, NAG

Modifications

Observed in the structure: 4 disulfide (disulfide).

Compared structures

  • 1LMP · The crystal structures of three complexes between chitooligosaccharides and lysozyme from… · the same entry in another collection · chain A against A, TM-score 1.00
  • P11941 · AlphaFold monomer V2.0 prediction for lysozyme C II (P11941) · a predicted model of the same protein · chain A against A, TM-score 0.99

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