TABLE 5.
Sequence and structural comparison of Rot to SarA and WHTH proteinsa
| Protein | PDB ID | Identity (%) |
RMSD (Å) |
pI | ||
|---|---|---|---|---|---|---|
| Entire protein | WHTH region | Monomer | WHTH region | |||
| Rot | 4RBR | 5.1 | ||||
| SarA family members | ||||||
| SarA | 2FNP | 19 | 26 | 4.6 | 2.4 | 7.8 |
| SarR | 1HSJ | 22 | 40 | 6.3 | 1.7 | 9.3 |
| SarS | 1P4X | 19 | 21 | 5.5 | 2.3 | 8.9 |
| MgrA | 2BV6 | 14 | 17 | 5.6 | 1.9 | 7.0 |
| DNA complexes | ||||||
| OhrR | 1Z9C | 13 | 24 | 3.7 | 2.1 | 6.3 |
| SlyA | 3Q5F | 8.3 | 14 | 6.1 | 2.3 | 6.2 |
| MecI | 1SAX | 5.7 | 7.3 | 7.2 | 2.4 | 8.9 |
| IscR | 4HF1 | 2.3 | 7.5 | 5.7 | 2.7 | 6.8 |
| RTP | 1F4K | 4.1 | 11.9 | 7.2 | 3.7 | 9.5 |
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.