› 5s5k

X-ray diffraction
2.41Å resolution

Tubulin-Z2472938267-complex

Released:
DOI: 10.2210/pdb5s5k/pdb
PDB entry 5s5k coloured by chain, front view.
PDB entry 5s5k coloured by chain, side view.
PDB entry 5s5k coloured by chain, top view.
Source organisms:
Primary publication:
Comprehensive Analysis of Binding Sites in Tubulin.
Mühlethaler T, Gioia D, Prota AE, Sharpe ME, Cavalli A, Steinmetz MO
OpenAccess logo Angew Chem Int Ed Engl 60 13331-13342 (2021)
PMID: 33951246

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero hexamer (preferred)
PDBe Complex ID:
PDB-CPX-237116 (preferred)
Entry contents:
4 distinct polypeptide molecules
Macromolecules (4 distinct):
Tubulin alpha-1B chain Chains: A, C
Molecule details ›
Chains: A, C
Length: 451 amino acids
Theoretical weight: 50.2 KDa
Source organism: Bos taurus
Tubulin beta-2B chain Chains: B, D
Molecule details ›
Chains: B, D
Length: 445 amino acids
Theoretical weight: 50 KDa
Source organism: Bos taurus
Stathmin-4 Chain: E
Molecule details ›
Chain: E
Length: 143 amino acids
Theoretical weight: 16.84 KDa
Source organism: Rattus norvegicus
Expression system: Escherichia coli
Tubulin-Tyrosine Ligase Chain: F
Molecule details ›
Chain: F
Length: 384 amino acids
Theoretical weight: 44.38 KDa
Source organism: Gallus gallus
Expression system: Escherichia coli

Ligands and Environments

7 bound ligands:
Ligand GTP 2 x GTP
Ligand MG 5 x MG
Ligand CA 4 x CA
Ligand GDP 2 x GDP
Ligand MES 1 x MES
Ligand S6V 1 x S6V
Ligand ACP 1 x ACP
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04-1
Spacegroup: P212121
Unit cell:
a: 105.46Å b: 160.78Å c: 178.27Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.216 0.214 0.248
Expression system: Escherichia coli

Quick links

Citations

7 review citations

Molecular interactions at the colchicine binding site in tubulin: An X-ray crystallography perspective.
Wang et al. (2022)
6 more

1 mention without citation

Rational Design of a Novel Tubulin Inhibitor with a Unique Mechanism of Action.
Mühlethaler et al. (2022)