› 6ype

X-ray diffraction
1.45Å resolution

Crystal structure of the human neuronal pentraxin 1 (NP1) pentraxin (PTX) domain.

Released:
DOI: 10.2210/pdb6ype/pdb
PDB entry 6ype coloured by chain, front view.
PDB entry 6ype coloured by chain, side view.
PDB entry 6ype coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A synthetic synaptic organizer protein restores glutamatergic neuronal circuits.
Suzuki K, Elegheert J, Song I, Sasakura H, Senkov O, Matsuda K, Kakegawa W, Clayton AJ, Chang VT, Ferrer-Ferrer M, Miura E, Kaushik R, Ikeno M, Morioka Y, Takeuchi Y, Shimada T, Otsuka S, Stoyanov S, Watanabe M, Takeuchi K, Dityatev A, Aricescu AR, Yuzaki M
Science 369 (2020)
PMID: 32855309

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-172416 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Neuronal pentraxin-1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 205 amino acids
Theoretical weight: 22.7 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: Q15818 (Residues: 225-429; Coverage: 50%)
Gene name: NPTX1
Sequence domains: Pentaxin family

Ligands and Environments

2 bound ligands:
Ligand CA 4 x CA
Ligand CAC 2 x CAC
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I03
Spacegroup: C2
Unit cell:
a: 121.22Å b: 36.06Å c: 92.17Å
α: 90° β: 97.47° γ: 90°
R-values:
R R work R free
0.154 0.153 0.178
Expression system: Homo sapiens

Quick links

Citations

14 review citations

Structure, Function, and Pharmacology of Glutamate Receptor Ion Channels.
Hansen et al. (2021)
13 more

1 mention without citation

Molecular Docking and Molecular Dynamics Studies Reveal Secretory Proteins as Novel Targets of Temozolomide in Glioblastoma Multiforme.
Sumera et al. (2022)