4lp0 Summary

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Crystal structure of a topoisomerase ATP inhibitor

The structure was published by Basarab, G.S., Manchester, J.I., Bist, S., et al., Sriram, S., Uria-Nickelsen, M., and Eakin, A.E., in 2013 in a paper entitled "Fragment-to-Hit-to-Lead Discovery of a Novel Pyridylurea Scaffold of ATP Competitive Dual Targeting Type II Topoisomerase Inhibiting Antibacterial Agents." (abstract).

This crystal structure was determined using X-ray diffraction at a resolution of 1.95 Å and deposited in 2013.

The experimental data on which the structure is based was also deposited.

The PDB entry contains the structure of Topoisomerase IV subunit B. This molecule has the UniProt identifier Q8DQB5 (Q8DQB5_STRR6)search. The sample contained 226 residues which is < 90% of the natural sequence. Out of 226 residues 191 were observed and are deposited in the PDB.

It also contains one or more heterogenic compounds (e.g., ligands, co-factors, ions, modified amino acids, etc.); see here for a complete list.

The molecule is most likely monomeric.

The following tables show cross-reference information to other databases (to obtain a list of all PDB entries sharing the same property or classification, click on the magnifying glass icon):


Chain Name UniProt Name of source organism % of UniProt sequence present in the sample Residues in the sample molecules % of residues observed
A Topoisomerase IV subunit B Q8DQB5 (1-226) (Q8DQB5_STRR6)search Streptococcus pneumoniae R6search < 90% 226 84%


This entry contains 1 unique UniProt protein:

UniProt accession Name Organism PDB
Q8DQB5 (1 - 226) Topoisomerase IV subunit B Streptococcus pneumoniae R6

Chain Sequence family (Pfam)
A Histidine kinase-, DNA gyrase B-, and HSP90-like ATPasesearch

Chain ID Molecular function (GO) Biological process (GO)
A (Q8DQB5) ATP bindingsearch DNA bindingsearch DNA topoisomerase type II (ATP-hydrolyzing) activitysearch DNA topological changesearch

Chain InterPro annotation
A DNA topoisomerase, type IIA, subunit Bsearch DNA topoisomerase, type IIAsearch Histidine kinase-like ATPase, C-terminal domainsearch