ISDA

Deposition Date 2010-03-17

Release Date 2010-09-29

Last Version Date 2023-12-20

Entry Detail

PDB ID:

2X9F

Keywords:

TRANSFERASE

Title:

ephB4 kinase domain inhibitor complex

Biological Source:

Source Organism:

HOMO SAPIENS (Taxon ID: 9606)

Host Organism:

SPODOPTERA FRUGIPERDA

Method Details:

Experimental Method:

X-RAY DIFFRACTION

Resolution:

1.75 Å

R-Value Free:

0.19

R-Value Work:

0.15

R-Value Observed:

0.15

Space Group:

P 1 21 1

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Macromolecular Entities

Protein Blast

Polymer Type:polypeptide(L)
Molecule:EPHRIN TYPE-B RECEPTOR 4
Gene (Uniprot):EPHB4
Mutations:YES
Chain IDs:A
Chain Length:302
Number of Molecules:1
Biological Source:HOMO SAPIENS

UniProt ID:P54760 Pfam ID:PF07714 EC:2.7.10.1

Ligand Molecules

X9F

Primary Citation

Inhibitors of the Tyrosine Kinase Ephb4. Part 3: Identification of Non-Benzodioxole-Based Kinase Inhibitors.

Bardelle, C, Barlaam, B, Brooks, N, Coleman, T, Cross, D, Ducray, R, Green, I, Brempt, C.L, Olivier, A, Read, J.Show

Bioorg.Med.Chem.Lett. 20 6242 ? (2010)

PMID: 20850301 DOI: 10.1016/J.BMCL.2010.08.100

Abstact

Starting from the initial bis-anilinopyrimidine 1, good potency against EphB4 was retained when benzodioxole at C-4 was replaced by an indazole. The key interactions of the indazole with the protein were characterised by crystallographic studies. Further optimisation led to compound 20, a potent inhibitor of the EphB4 and Src kinases with good pharmacokinetics in various preclinical species and high fraction unbound in plasma. Compound 20 may be used as a tool for evaluating the potential of EphB4 kinase inhibitors in vivo.

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Primary Citation of related structures