› 5clq

X-ray diffraction
3.2Å resolution

Ran Y39A in complex with GPPNHP and RanBD1

Released:
DOI: 10.2210/pdb5clq/pdb
PDB entry 5clq coloured by chain, front view.
PDB entry 5clq coloured by chain, side view.
PDB entry 5clq coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Catalysis of GTP hydrolysis by small GTPases at atomic detail by integration of X-ray crystallography, experimental, and theoretical IR spectroscopy.
Rudack T, Jenrich S, Brucker S, Vetter IR, Gerwert K, Kötting C
J Biol Chem 290 24079-90 (2015)
PMID: 26272610

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-156036 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
GTP-binding nuclear protein Ran Chains: A, C
Molecule details ›
Chains: A, C
Length: 216 amino acids
Theoretical weight: 24.36 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P62826 (Residues: 1-216; Coverage: 100%)
Gene names: ARA24, OK/SW-cl.81, RAN
Sequence domains: Ras family
Structure domains: P-loop containing nucleotide triphosphate hydrolases
E3 SUMO-protein ligase RanBP2 Chains: B, D
Molecule details ›
Chains: B, D
Length: 167 amino acids
Theoretical weight: 18.96 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
UniProt:
  • Canonical: P49792 (Residues: 1155-1321; Coverage: 5%)
Gene names: NUP358, RANBP2
Sequence domains: RanBP1 domain
Structure domains: Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)

Ligands and Environments

3 bound ligands:
Ligand GNP 2 x GNP
Ligand MG 2 x MG
Ligand SO4 6 x SO4
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SLS BEAMLINE X10SA
Spacegroup: C2221
Unit cell:
a: 102.53Å b: 170.92Å c: 135.65Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.225 0.224 0.254
Expression system: Escherichia coli BL21(DE3)

Quick links

Citations

3 review citations

Invited review: Small GTPases and their GAPs.
Mishra et al. (2016)
2 more

2 mentions without citation

Catalysis of GTP hydrolysis by small GTPases at atomic detail by integration of X-ray crystallography, experimental, and theoretical IR spectroscopy.
Rudack et al. (2015)
1 more