› 6npv

X-ray diffraction
1.86Å resolution

C-abl Kinase domain with the activator(cmpd51), N-(1-(3,4-dichlorophenyl)-4-(2-hydroxyethyl)-4,5-dihydro-1H-pyrazol-3-yl)isonicotinamide

Released:
DOI: 10.2210/pdb6npv/pdb
PDB entry 6npv coloured by chain, front view.
PDB entry 6npv coloured by chain, side view.
PDB entry 6npv coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Identification and Optimization of Novel Small c-Abl Kinase Activators Using Fragment and HTS Methodologies.
Simpson GL, Bertrand SM, Borthwick JA, Campobasso N, Chabanet J, Chen S, Coggins J, Cottom J, Christensen SB, Dawson HC, Evans HL, Hobbs AN, Hong X, Mangatt B, Munoz-Muriedas J, Oliff A, Qin D, Scott-Stevens P, Ward P, Washio Y, Yang J, Young RJ
J Med Chem 62 2154-2171 (2019)
PMID: 30689376

Function and Biology Details

Reaction catalysed: 
ATP + a [protein]-L-tyrosine = ADP + a [protein]-L-tyrosine phosphate
Biochemical function:
Biological process:
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-132602 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Tyrosine-protein kinase ABL1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 298 amino acids
Theoretical weight: 34.71 KDa
Source organism: Homo sapiens
Expression system: Spodoptera aff. frugiperda 2 RZ-2014
UniProt:
  • Canonical: P00519 (Residues: 229-512; Coverage: 25%)
Gene names: ABL, ABL1, JTK7
Sequence domains: Protein tyrosine and serine/threonine kinase
Structure domains:

Ligands and Environments

5 bound ligands:
Ligand SO4 3 x SO4
Ligand STI 2 x STI
Ligand KWP 2 x KWP
Ligand GOL 2 x GOL
Ligand 2PE 1 x 2PE
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: APS BEAMLINE 21-ID-F
Spacegroup: P212121
Unit cell:
a: 74.973Å b: 95.287Å c: 115.361Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.183 0.182 0.207
Expression system: Spodoptera aff. frugiperda 2 RZ-2014

Quick links

Citations

3 citation in other articles

Synthetic Reprogramming of Kinases Expands Cellular Activities of Proteins.
Shoba et al. (2022)
2 more

3 mentions without citation

Intermolecular Interactions in Crystal Structures of Imatinib-Containing Compounds.
Vologzhanina et al. (2020)
2 more