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Copyright: Human Genome Center, Inst. Med. Sci., Univ. Tokyo; 1999-2006
Contact: Kenta Nakai |
| Regulated Operon: | cydABCD |
| Genes | Synonyms | Direction | Genome position | Function | COG ID | Genus clusters |
|---|---|---|---|---|---|---|
| cydA | yxkK | - | 3976810..3978216 | cytochrome bd ubiquinol oxidase (subunit I) | COG1271 | cbdA-STA cydA-BAC |
| cydB | yxkL | - | 3975810..3976826 | cytochrome bd ubiquinol oxidase (subunit II) | COG1294 | |
| cydC | yxkM | - | 3974107..3975810 | ABC membrane transporter (ATP-binding protein) | COG4988 | |
| cydD | yxkN | - | 3972383..3974110 | ABC membrane transporter (ATP-binding protein) | COG4987 |
| Operon evidence: | Northern blotting (6.0 kb transcript) |
|---|---|
| Reference: | Winstedt L, et al. (1998), Yoshida K, et al. (2000) |
| Comments: | Various shorter transcripts were found by Yoshida, which may be a result of the mRNA molecule being highly unstable (see Winstedt). |
| Binding factor |
Regulation | Location | Absolute position | Binding seq.(cis-element) | Experimental evidence |
|---|---|---|---|---|---|
| CcpA | Negative | -8:-37 | 3978417..3978446 | CTTTATTTTTGAAATGAATCGTTGTAAAGT |
Puri-Taneja A, et al. (2007): RG FT |
| ResD | Positive | -107:-58 | 3978467..3978516 | GCCGACATAAATAAGCAACAAAATAGACAAAAATCCGTCACATAGTGCGG |
Puri-Taneja A, et al. (2007): RG FT |
| SigA | Promoter | -39:+9 | 3978401..3978448 | GGCTTTATTTTTGAAATGAATCGTTGTAAAGTACTTAATATGAACCAG |
Winstedt L, et al. (1998): PE RG NB |
| YdiH | Negative | +64:+105 | 3978305..3978346 | TTTTGACACATTTGTGAAATATTGAGCAATATTTTTTTCGTC |
Schau M, et al. (2004): RG FT Larsson JT, et al. (2005): RG DB Reents H, et al. (2006): RG |
| YdiH | Negative | +99:+140 | 3978270..3978311 | TTTCGTCTATTTTGTGAATTACTGATCAAAGTCTCGGTTCTA |
Schau M, et al. (2004): RG FT Larsson JT, et al. (2005): RG DB Reents H, et al. (2006): RG |
| YdiH | Negative | +131:+172 | 3978238..3978279 | CTCGGTTCTATTTGTGAAGTAGTGAGCAAATTAACAGTTTTA |
Schau M, et al. (2004): RG FT Larsson JT, et al. (2005): RG DB Reents H, et al. (2006): RG |
| Terminator sequence | Absolute position | Position from stop codon | Free energy [kcal/mol] |
Downstream of |
|---|---|---|---|---|
| TAAAAGACAGCCCTAAAAGGCTGTCTTTTTTGTTTGAAAA >>>>>>> <<<<<<< |
cydD |
|