› 6dd4

X-ray diffraction
2.1Å resolution

Crystal Structure of the Human vaccinia-related kinase bound to a N,N-dipropyl-dihydropteridine inhibitor

Released:
DOI: 10.2210/pdb6dd4/pdb
PDB entry 6dd4 coloured by chain, front view.
PDB entry 6dd4 coloured by chain, side view.
PDB entry 6dd4 coloured by chain, top view.
Source organism: Homo sapiens
Entry authors: dos Reis CV, Santiago AS, de Souza GP, Counago RM, Azevedo A, Guimaraes C, Mascarello A, Gama F, Ferreira M, Massirer KB, Arruda P, Edwards AM, Elkins JM, Structural Genomics Consortium (SGC)

Function and Biology Details

Reaction catalysed: 
ATP + a protein = ADP + a phosphoprotein
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-189297 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Serine/threonine-protein kinase VRK1 Chains: A, B, C, D
Molecule details ›
Chains: A, B, C, D
Length: 364 amino acids
Theoretical weight: 41.14 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: Q99986 (Residues: 3-364; Coverage: 91%)
Gene name: VRK1
Sequence domains: Protein kinase domain
Structure domains: Transferase(Phosphotransferase) domain 1

Ligands and Environments

5 bound ligands:
Ligand CL 8 x CL
Ligand ACT 7 x ACT
Ligand G6J 2 x G6J
Ligand SO4 6 x SO4
Ligand GOL 2 x GOL
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I24
Spacegroup: P212121
Unit cell:
a: 91.596Å b: 96.168Å c: 191.871Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.196 0.195 0.226
Expression system: Escherichia coli

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