Structure of PDB 8p1d Chain A Binding Site BS01

Receptor Information

>8p1d Chain A (length=129) Species: 9031 (Gallus gallus)

KVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQATNRNTDGS
TDYGILQINSRWWCNDGRTPGSRNLCNIPCSALLSSDITASVNCAKKIVS
DGNGMNAWVAWRNRCKGTDVQAWIRGCRL

Ligand information

• Ligand ID: NA
• InChI: InChI=1S/Na/q+1
• InChIKey: FKNQFGJONOIPTF-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  CACTVS 3.341
  OpenEye OEToolkits 1.5.0: [Na+]
• Formula: Na
• Name: SODIUM ION
• DrugBank: DB14516
• PDB chain: 8p1d Chain A Residue 204

Receptor-Ligand Complex Structure

Structure summary

• PDB: 8p1d Kilohertz serial crystallography with the JUNGFRAU detector at a fourth-generation synchrotron source.
• Resolution: 1.6 Å
• Binding residue (original residue number in PDB): S60 C64 N65 S72 R73 N74
• Binding residue (residue number reindexed from 1): S60 C64 N65 S72 R73 N74
• Annotation score: 3

Enzymatic activity

• Enzyme Commision number: 3.2.1.17: lysozyme.

Gene Ontology

Molecular Function

• GO:0003796 lysozyme activity
• GO:0005515 protein binding
• GO:0016231 beta-N-acetylglucosaminidase activity
• GO:0016798 hydrolase activity, acting on glycosyl bonds
• GO:0042802 identical protein binding

Biological Process

• GO:0016998 cell wall macromolecule catabolic process
• GO:0031640 killing of cells of another organism
• GO:0042742 defense response to bacterium
• GO:0050829 defense response to Gram-negative bacterium
• GO:0050830 defense response to Gram-positive bacterium

Cellular Component

• GO:0005576 extracellular region
• GO:0005615 extracellular space
• GO:0005737 cytoplasm
• GO:0005783 endoplasmic reticulum

External links

• PDB: RCSB:8p1d, PDBe:8p1d, PDBj:8p1d
• PDBsum: 8p1d
• PubMed: 37830774
• UniProt: P00698|LYSC_CHICK Lysozyme C (Gene Name=LYZ)