Structure of PDB 3sb5 Chain D Binding Site BS01

Receptor Information

>3sb5 Chain D (length=163) Species: 10665 (Tequatrovirus T4)

PMNIFEMLRIDEGLRLKIYKDTEGYYTIGIGHLLTKSPSLNAAKSELDKA
IGRNTNGVITKDEAEKLFNQDVDAAVRGILRNAKLKPVYDSLDAVRRAAL
INMVFQMGETGVAGFTNSLRMLQQKCWDCAAVNLAKSRWYNQTPNRAKRV
ITTFRTGTWDAYK

Ligand information

• Ligand ID: MG
• InChI: InChI=1S/Mg/q+2
• InChIKey: JLVVSXFLKOJNIY-UHFFFAOYSA-N
• SMILES:
  ACDLabs 10.04
  OpenEye OEToolkits 1.5.0: [Mg+2]
  CACTVS 3.341: [Mg++]
• Formula: Mg
• Name: MAGNESIUM ION
• DrugBank: DB01378
• PDB chain: 3sb5 Chain D Residue 166

Receptor-Ligand Complex Structure

Structure summary

• PDB: 3sb5 An approach to crystallizing proteins by metal-mediated synthetic symmetrization.
• Resolution: 2.46 Å
• Binding residue (original residue number in PDB): T142 N144
• Binding residue (residue number reindexed from 1): T143 N145
• Annotation score: 4

Enzymatic activity

• Catalytic site (original residue number in PDB): E11 D20
• Catalytic site (residue number reindexed from 1): E12 D21
• Enzyme Commision number: 3.2.1.17: lysozyme.

Gene Ontology

Molecular Function

• GO:0003796 lysozyme activity
• GO:0016798 hydrolase activity, acting on glycosyl bonds

Biological Process

• GO:0009253 peptidoglycan catabolic process
• GO:0016998 cell wall macromolecule catabolic process
• GO:0031640 killing of cells of another organism
• GO:0042742 defense response to bacterium
• GO:0044659 viral release from host cell by cytolysis

Cellular Component

• GO:0030430 host cell cytoplasm

External links

• PDB: RCSB:3sb5, PDBe:3sb5, PDBj:3sb5
• PDBsum: 3sb5
• PubMed: 21898649
• UniProt: P00720|ENLYS_BPT4 Endolysin (Gene Name=E)