› 2rex

X-ray diffraction
2.3Å resolution

Crystal structure of the effector domain of PLXNB1 bound with Rnd1 GTPase

Released:
DOI: 10.2210/pdb2rex/pdb
PDB entry 2rex coloured by chain, front view.
PDB entry 2rex coloured by chain, side view.
PDB entry 2rex coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: Tong Y, Tempel W, Shen L, Arrowsmith CH, Edwards AM, Sundstrom M, Weigelt J, Bochkarev A, Park H, Structural Genomics Consortium (SGC)

Function and Biology Details

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

Structure analysis Details

Assemblies composition:
hetero dimer (preferred)
hetero tetramer
hetero octamer
Assembly name:
PDBe Complex ID:
PDB-CPX-128847 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Plexin-B1 Chains: A, C
Molecule details ›
Chains: A, C
Length: 121 amino acids
Theoretical weight: 13.3 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: O43157 (Residues: 1743-1862; Coverage: 6%)
Gene names: KIAA0407, PLXN5, PLXNB1, SEP
Sequence domains: Plexin cytoplasmic RhoGTPase-binding domain
Structure domains: Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1
Rho-related GTP-binding protein Rho6 Chains: B, D
Molecule details ›
Chains: B, D
Length: 197 amino acids
Theoretical weight: 21.95 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q92730 (Residues: 5-200; Coverage: 85%)
Gene names: RHO6, RND1
Sequence domains: Ras family
Structure domains: P-loop containing nucleotide triphosphate hydrolases

Ligands and Environments

4 bound ligands:
Ligand UNX 30 x UNX
Ligand MG 2 x MG
Ligand CA 2 x CA
Ligand GNP 2 x GNP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: CHESS BEAMLINE F1
Spacegroup: C2
Unit cell:
a: 150.136Å b: 71.653Å c: 101.885Å
α: 90° β: 128.36° γ: 90°
R-values:
R R work R free
0.216 0.215 0.248
Expression system: Escherichia coli

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