› 5zbq

X-ray diffraction
2.7Å resolution

The Crystal Structure of human neuropeptide Y Y1 receptor with UR-MK299

Released:
DOI: 10.2210/pdb5zbq/pdb
PDB entry 5zbq coloured by chain, front view.
PDB entry 5zbq coloured by chain, side view.
PDB entry 5zbq coloured by chain, top view.
Source organisms:
Primary publication:
Structural basis of ligand binding modes at the neuropeptide Y Y1 receptor.
Yang Z, Han S, Keller M, Kaiser A, Bender BJ, Bosse M, Burkert K, Kögler LM, Wifling D, Bernhardt G, Plank N, Littmann T, Schmidt P, Yi C, Li B, Ye S, Zhang R, Xu B, Larhammar D, Stevens RC, Huster D, Meiler J, Zhao Q, Beck-Sickinger AG, Buschauer A, Wu B
Nature 556 520-524 (2018)
PMID: 29670288

Function and Biology Details

Reaction catalysed: 
Hydrolysis of (1->4)-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan and between N-acetyl-D-glucosamine residues in chitodextrins
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-132972 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Endolysin; Neuropeptide Y receptor type 1 Chain: A
Molecule details ›
Chain: A
Length: 525 amino acids
Theoretical weight: 60.6 KDa
Source organisms: Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P25929 (Residues: 2-358; Coverage: 93%)
  • Canonical: P00720 (Residues: 1-161; Coverage: 98%)
Gene names: E, NPY1R, NPYR, NPYY1
Sequence domains:

Ligands and Environments

1 bound ligand:
Ligand 9AO 1 x 9AO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SPRING-8 BEAMLINE BL41XU
Spacegroup: P21
Unit cell:
a: 37.84Å b: 100.68Å c: 83.16Å
α: 90° β: 98.76° γ: 90°
R-values:
R R work R free
0.226 0.225 0.247
Expression system: Spodoptera frugiperda

Quick links

Citations

12 review citations

GPCR drug discovery: integrating solution NMR data with crystal and cryo-EM structures.
Shimada et al. (2019)
11 more

21 mentions without citation

G protein-coupled receptors: structure- and function-based drug discovery.
Yang et al. (2021)
20 more