TABLE 5

Sequence and structural comparison of Rot to SarA and WHTH proteinsa

ProteinPDB IDIdentity (%)RMSD (Å)pI
Entire proteinWHTH regionMonomerWHTH region
Rot4RBR5.1
SarA family members
    SarA2FNP19264.62.47.8
    SarR1HSJ22406.31.79.3
    SarS1P4X19215.52.38.9
    MgrA2BV614175.61.97.0
DNA complexes
    OhrR1Z9C13243.72.16.3
    SlyA3Q5F8.3146.12.36.2
    MecI1SAX5.77.37.22.48.9
    IscR4HF12.37.55.72.76.8
    RTP1F4K4.111.97.23.79.5
  • a Rot's sequence and structure are compared to those of other SarA family members and several WHTH-containing proteins whose structures were solved in complex with DNA. Tabulated data shown with respect to Rot are the Protein Data Bank (PDB) identifier (ID) of each structure, the sequence identity of the entire protein, the sequence identity of the WHTH region defined by structural alignment, the root mean square deviation (RMSD) of the monomer (in the case of 1P4X, only the protein which corresponds to one Rot monomer was compared), the RMSD of the WHTH region defined by structural alignment, and the isoelectric point of each protein defined by the whole-protein sequence.