6D88 image
Deposition Date 2018-04-26
Release Date 2018-09-12
Last Version Date 2024-03-13
Entry Detail
PDB ID:
6D88
Keywords:
Title:
Tubulin-RB3_SLD-TTL in complex with compound 13f
Biological Source:
Source Organism:
Rattus norvegicus (Taxon ID: 10116)
Gallus gallus (Taxon ID: 9031)
Sus scrofa (Taxon ID: 9823)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.85 Å
R-Value Free:
0.24
R-Value Work:
0.19
R-Value Observed:
0.19
Space Group:
P 21 21 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Tubulin alpha-1B chain
Gene (Uniprot):TUBA1B
Chain IDs:A, C
Chain Length:450
Number of Molecules:2
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Tubulin beta chain
Chain IDs:B, D
Chain Length:445
Number of Molecules:2
Biological Source:Sus scrofa
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:Stathmin-4
Gene (Uniprot):Stmn4
Chain IDs:E
Chain Length:143
Number of Molecules:1
Biological Source:Rattus norvegicus
Polymer Type:polypeptide(L)
Molecule:Tubulin tyrosine ligase
Chain IDs:F
Chain Length:384
Number of Molecules:1
Biological Source:Gallus gallus
Primary Citation
Structural Modification of the 3,4,5-Trimethoxyphenyl Moiety in the Tubulin Inhibitor VERU-111 Leads to Improved Antiproliferative Activities.
J. Med. Chem. 61 7877 7891 (2018)
PMID: 30122035 DOI: 10.1021/acs.jmedchem.8b00827

Abstact

Colchicine binding site inhibitors (CBSIs) hold great potential in developing new generations of antimitotic drugs. Unlike existing tubulin inhibitors such as paclitaxel, they are generally much less susceptible to resistance caused by the overexpression of drug efflux pumps. The 3,4,5-trimethoxyphenyl (TMP) moiety is a critical component present in many CBSIs, playing an important role in maintaining suitable molecular conformations of CBSIs and contributing to their high binding affinities to tubulin. Previously reported modifications to the TMP moiety in a variety of scaffolds of CBSIs have usually resulted in reduced antiproliferative potency. We previously reported a potent CBSI, VERU-111, that also contains the TMP moiety. Herein, we report the discovery of a VERU-111 analogue 13f that is significantly more potent than VERU-111. The X-ray crystal structure of 13f in complex with tubulin confirms its direct binding to the colchicine site. In addition, 13f exhibited a strong inhibitory effect on tumor growth in vivo.

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