› 6tyl

X-ray diffraction
3.3Å resolution

Crystal structure of mammalian Ric-8A:Galpha(i):nanobody complex

Released:
DOI: 10.2210/pdb6tyl/pdb
PDB entry 6tyl coloured by chain, front view.
PDB entry 6tyl coloured by chain, side view.
PDB entry 6tyl coloured by chain, top view.
Source organisms:
Primary publication:
Structure of the G protein chaperone and guanine nucleotide exchange factor Ric-8A bound to Gαi1.
McClelland LJ, Zhang K, Mou TC, Johnston J, Yates-Hansen C, Li S, Thomas CJ, Doukov TI, Triest S, Wohlkonig A, Tall GG, Steyaert J, Chiu W, Sprang SR
OpenAccess logo Nat Commun 11 1077 (2020)
PMID: 32103024

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-253309 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
Chaperone Ric-8A Chains: A, F
Molecule details ›
Chains: A, F
Length: 492 amino acids
Theoretical weight: 55.84 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: Q80ZG1 (Residues: 1-491; Coverage: 93%)
Gene name: Ric8a
Sequence domains: Guanine nucleotide exchange factor synembryn
Nanobody A Chains: C, H
Molecule details ›
Chains: C, H
Length: 124 amino acids
Theoretical weight: 13.61 KDa
Source organism: Lama glama
Expression system: Escherichia coli
Nanobody B Chains: E, J
Molecule details ›
Chains: E, J
Length: 131 amino acids
Theoretical weight: 14.25 KDa
Source organism: Lama glama
Expression system: Escherichia coli
Nanobody C Chains: D, I
Molecule details ›
Chains: D, I
Length: 134 amino acids
Theoretical weight: 14.89 KDa
Source organism: Lama glama
Expression system: Escherichia coli
Guanine nucleotide-binding protein G(i) subunit alpha-1 Chains: B, G
Molecule details ›
Chains: B, G
Length: 354 amino acids
Theoretical weight: 40.4 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
UniProt:
  • Canonical: P10824 (Residues: 1-354; Coverage: 100%)
Gene names: Gnai-1, Gnai1
Sequence domains: G-protein alpha subunit

Ligands and Environments

No bound ligands
2 modified residues:
Ligand SEP 2 x SEP
Ligand TPO 2 x TPO

Experiments and Validation Details

Entry percentile scores
X-ray source: NSLS-II BEAMLINE 17-ID-2
Spacegroup: P21
Unit cell:
a: 93.048Å b: 144.726Å c: 114.42Å
α: 90° β: 94.66° γ: 90°
R-values:
R R work R free
0.248 0.248 0.287
Expression system: Escherichia coli

Quick links

Citations

3 review citations

Spindle positioning and its impact on vertebrate tissue architecture and cell fate.
Lechler et al. (2021)
2 more

3 mentions without citation

Structure of the G protein chaperone and guanine nucleotide exchange factor Ric-8A bound to Gαi1.
McClelland et al. (2020)
2 more