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The structure of cyclin-dependent kinase 5 (CDK5) in complex with p25 and Compound 24

X-ray diffraction
3.05Å resolution
PDB entry 7vds coloured by chain, front view.
PDB entry 7vds coloured by chain, side view.
PDB entry 7vds coloured by chain, top view.
Source organism: Homo sapiens
Assembly composition:
hetero dimer (preferred)
Entry contents: 2 distinct polypeptide molecules

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Assemblies

Assembly 1 (preferred)
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Assembly Name: Cyclin-dependent protein kinase 5 holoenzyme complex, p35 variant
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Multimeric state: hetero dimer
Accessible surface area: 20253.01 Å2
Buried surface area: 9361.84 Å2
Dissociation area: 1,542.11 Å2
Dissociation energy (ΔGdiss): 19.2 kcal/mol
Dissociation entropy (TΔSdiss): 12.51 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-169443
Complex Portal ID: CPX-3142
Assembly 2
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Assembly Name: Cyclin-dependent protein kinase 5 holoenzyme complex, p35 variant
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Multimeric state: hetero dimer
Accessible surface area: 19779.07 Å2
Buried surface area: 3251.31 Å2
Dissociation area: 1,350.51 Å2
Dissociation energy (ΔGdiss): 12.93 kcal/mol
Dissociation entropy (TΔSdiss): 12.32 kcal/mol
Symmetry number: 1
PDBe Complex ID: PDB-CPX-169443
Complex Portal ID: CPX-3142

Macromolecules

Cyclin-dependent kinase 5
Chains: A, B
Length: 292 amino acids
Theoretical weight: 33.31 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q00535 (Residues: 2-292; Coverage: 100%)
Gene names: CDK5, CDKN5, PSSALRE
Pfam: Protein kinase domain
InterPro:
Cyclin-dependent kinase 5 in PDB entry 7vds, assembly 1, front view.
Cyclin-dependent kinase 5 in PDB entry 7vds, assembly 1, side view.
Cyclin-dependent kinase 5 in PDB entry 7vds, assembly 1, top view.
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Cyclin-dependent kinase 5 activator 1, p25
Chains: C, D
Length: 209 amino acids
Theoretical weight: 23.33 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q15078 (Residues: 100-307; Coverage: 68%)
Gene names: CDK5R, CDK5R1, NCK5A
Pfam: Cyclin-dependent kinase 5 activator protein
InterPro:
Cyclin-dependent kinase 5 activator 1, p25 in PDB entry 7vds, assembly 1, front view.
Cyclin-dependent kinase 5 activator 1, p25 in PDB entry 7vds, assembly 1, side view.
Cyclin-dependent kinase 5 activator 1, p25 in PDB entry 7vds, assembly 1, top view.
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