› 6sge

X-ray diffraction
1.5Å resolution

Crystal structure of Human RHOB-GTP in complex with nanobody B6

Released:
DOI: 10.2210/pdb6sge/pdb
PDB entry 6sge coloured by chain, front view.
PDB entry 6sge coloured by chain, side view.
PDB entry 6sge coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
A Targeted Protein Degradation Cell-Based Screening for Nanobodies Selective toward the Cellular RHOB GTP-Bound Conformation.
Bery N, Keller L, Soulié M, Gence R, Iscache AL, Cherier J, Cabantous S, Sordet O, Lajoie-Mazenc I, Pedelacq JD, Favre G, Olichon A
Cell Chem Biol 26 1544-1558.e6 (2019)
PMID: 31522999

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-105140 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Rho-related GTP-binding protein RhoB Chains: A, C
Molecule details ›
Chains: A, C
Length: 183 amino acids
Theoretical weight: 20.81 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P62745 (Residues: 1-183; Coverage: 93%)
Gene names: ARH6, ARHB, RHOB
Sequence domains: Ras family
Ig-like domain-containing protein Chains: B, D
Molecule details ›
Chains: B, D
Length: 134 amino acids
Theoretical weight: 14.7 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: A0A4E0W6L3 (Residues: 4-50, 51-111, 112-127; Coverage: 98%)
Sequence domains: Immunoglobulin V-set domain

Ligands and Environments

2 bound ligands:
Ligand GTP 2 x GTP
Ligand MG 4 x MG
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID29
Spacegroup: P21
Unit cell:
a: 66.84Å b: 70.227Å c: 71.212Å
α: 90° β: 107.68° γ: 90°
R-values:
R R work R free
0.162 0.161 0.188
Expression system: Escherichia coli

Quick links

Citations

11 review citations

Exploring cellular biochemistry with nanobodies.
Cheloha et al. (2020)
10 more

1 mention without citation

Cytotoxic and Antifungal Amides Derived from Ferulic Acid: Molecular Docking and Mechanism of Action.
de Morais et al. (2021)