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. 2021 Jan 15;11:621391. doi: 10.3389/fmicb.2020.621391

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Copyright © 2021 Kravchenko, Gogoleva, Kalubaka, Kruk, Diubo, Gogolev and Nikolaichik.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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Alignment of DNA binding domain sequences of the OmpR family TFs. The sequences are aligned with hmmalign according to the Trans_reg_C (PF00486) family model. The amino acid residues of OmpR family proteins that form direct contacts with nucleotide bases were determined by the interaction service of NPIDB (Zanegina et al., 2016). The residues making specific contacts with DNA bases are highlighted in green (hydrogen bonds) and yellow (hydrophobic contacts). Positions with contact observed in at least one sequence are marked with an asterisk. PDB/GenPept/Uniprot IDs followed after a colon by protein names combined with species abbreviations are shown to the right of each sequence. Species names are abbreviated as Eco (Escherichia coli), Mtu (Mycobacterium tuberculosis), Kpn (Klebsiella pneumoniae), Aba (Acinetobacter baumannii), Pve (Pectobacterium versatile), and Sen (Salmonella enterica).