Structure of PDB 4djh Chain A

Receptor sequence

>4djhA (length=447) Species: 9606,10665

SPAIPVIITAVYSVVFVVGLVGNSLVMFVIIRYTKMKTATNIYIFNLALA
DALVTTTMPFQSTVYLMNSWPFGDVLCKIVLSIDYYNMFTSIFTLTMMSV
DRYIAVCHPVKALDFRTPLKAKIINICIWLLSSSVGISAIVLGGTKVRED
VDVIECSLQFPDDDYSWWDLFMKICVFIFAFVIPVLIIIVCYTLMILRLK
SVRLLSGNIFEMLRIDEGLRLKIYKDTEGYYTIGIGHLLTKSPSLNAAKS
ELDKAIGRNTNGVITKDEAEKLFNQDVDAAVRGILRNAKLKPVYDSLDAV
RRAALINMVFQMGETGVAGFTNSLRMLQQKRWDEAAVNLAKSRWYNQTPN
RAKRVITTFRTGTWDAYREKDRNLRRITRLVLVVVAVFVVCWTPIHIFIL
VEALGSAALSSYYFCIALGYTNSSLNPILYAFLDENFKRCFRDFCFP

3D structure

• PDB: 4djh tructure of the human kappa-opioid receptor in complex with JDTic
• Chain: A
• Resolution: 2.9 Å

Enzymatic activity

• Catalytic site (original residue number in PDB): E1011 D1020
• Catalytic site (residue number reindexed from 1): E217 D226
• Enzyme Commision number:
  3.2.1.17: lysozyme.

Interaction with ligand

Site #	Ligand	Ligand chain	Binding residues on receptor (original residue number in PDB)	Binding residues on receptor (residue number reindexed from 1)	Binding affinity
BS01	JDC	A	Q115 V134 D138 M142 V230 W287 I294 G319 Y320	Q61 V80 D84 M88 V176 W392 I399 G419 Y420	PDBbind-CN: -logKd/Ki=9.49,Ki=0.32nM

Gene Ontology

Molecular Function

• GO:0003796 lysozyme activity
• GO:0004930 G protein-coupled receptor activity
• GO:0016798 hydrolase activity, acting on glycosyl bonds

Biological Process

• GO:0007186 G protein-coupled receptor signaling pathway
• 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:0016020 membrane
• GO:0030430 host cell cytoplasm

External links

• PDB: RCSB:4djh, PDBe:4djh, PDBj:4djh
• PDBsum: 4djh
• PubMed: 22437504
• UniProt: P00720|ENLYS_BPT4 Endolysin (Gene Name=E);
  P41145|OPRK_HUMAN Kappa-type opioid receptor (Gene Name=OPRK1)