› 5gji

X-ray diffraction
0.9Å resolution

PI3K p85 N-terminal SH2 domain/CD28-derived peptide complex

Released:
DOI: 10.2210/pdb5gji/pdb
PDB entry 5gji coloured by chain, front view.
PDB entry 5gji coloured by chain, side view.
PDB entry 5gji coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Crystal Structures and Thermodynamic Analysis Reveal Distinct Mechanisms of CD28 Phosphopeptide Binding to the Src Homology 2 (SH2) Domains of Three Adaptor Proteins.
Inaba S, Numoto N, Ogawa S, Morii H, Ikura T, Abe R, Ito N, Oda M
J Biol Chem 292 1052-1060 (2017)
PMID: 27927989

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-145439 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Phosphatidylinositol 3-kinase regulatory subunit alpha Chain: A
Molecule details ›
Chain: A
Length: 108 amino acids
Theoretical weight: 12.43 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P27986 (Residues: 325-430; Coverage: 15%)
  • Best match: P27986-5 (Residues: 1-67)
Gene names: GRB1, PIK3R1
Sequence domains: SH2 domain
Structure domains: SH2 domain
T-cell-specific surface glycoprotein CD28 Chain: B
Molecule details ›
Chain: B
Length: 8 amino acids
Theoretical weight: 1.04 KDa
Source organism: Homo sapiens
Expression system: Not provided
UniProt:
  • Canonical: P10747 (Residues: 189-196; Coverage: 4%)
Gene name: CD28

Ligands and Environments

2 bound ligands:
Ligand SO4 3 x SO4
Ligand GOL 1 x GOL
1 modified residue:
Ligand PTR 1 x PTR

Experiments and Validation Details

Entry percentile scores
X-ray source: PHOTON FACTORY BEAMLINE BL-17A
Spacegroup: P1
Unit cell:
a: 27.59Å b: 31.24Å c: 32.25Å
α: 73.28° β: 85.38° γ: 71.73°
R-values:
R R work R free
0.127 0.126 0.145
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided

Quick links

Citations

2 review citations

SH2 Domain Binding: Diverse FLVRs of Partnership.
Jaber Chehayeb et al. (2020)
1 more

4 mentions without citation

Homo- and Heterodimerization of Proteins in Cell Signaling: Inhibition and Drug Design.
Singh et al. (2018)
3 more