› 6pdn

X-ray diffraction
2.4Å resolution

Human PIM1 bound to benzothiophene inhibitor 292

Released:
DOI: 10.2210/pdb6pdn/pdb
PDB entry 6pdn coloured by chain, front view.
PDB entry 6pdn coloured by chain, side view.
PDB entry 6pdn coloured by chain, top view.
Source organisms:
Entry authors: Godoi PHC, Santiago AS, Fala AM, Ramos PZ, Sriranganadane D, Mascarello A, Segretti N, Azevedo H, Guimaraes CRW, Arruda P, Elkins JM, Counago RM, 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:
hetero dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-536457 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Serine/threonine-protein kinase pim-1 Chain: A
Molecule details ›
Chain: A
Length: 313 amino acids
Theoretical weight: 35.67 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli
UniProt:
  • Canonical: P11309 (Residues: 1-312; Coverage: 100%)
Gene name: PIM1
Sequence domains: Protein kinase domain
peptide Chain: B
Molecule details ›
Chain: B
Length: 14 amino acids
Theoretical weight: 1.59 KDa
Source organism: synthetic construct
Expression system: Not provided

Ligands and Environments

2 bound ligands:
Ligand OD4 1 x OD4
Ligand GOL 1 x GOL
1 modified residue:
Ligand SEP 1 x SEP

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I24
Spacegroup: P65
Unit cell:
a: 98.001Å b: 98.001Å c: 80.248Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.19 0.188 0.223
Expression systems:
  • Escherichia coli
  • Not provided

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