Regulated Operon: ydaDEFG

Genes
Genes Synonyms Direction Genome position Function COG ID Conserved groups
ydaD
+ 471709..472569
COG1028IQR yhdF-BAC-2 yhdF-BAC-3  
ydaE
+ 472585..473088
COG3822R  
ydaF
+ 473174..473725
COG1670J  
ydaG yzzA + 473803..474225
COG3871R  

Operon evidence: Northern blotting (2.8 kb and 3.3 kb transcripts)
Reference: Petersohn A, et al. (1999)
Comments: The readthrough terminator downstream of ydaE leads to a 1.6 kb transcript. Both ydaDEFG transcripts terminate before reaching ydaH. An internal promoter in front of ydaG leads to monocistronic ydaG transcripts of 0.47 kb, 0.6 kb, and 0.9 kb. A 1.6 kb ydaFG transcript was also detected.

Promoters

Binding
factor		 Regulation Location Absolute position Binding seq.(cis-element) Experimental evidence
SigB Promoter -40:+5 471639..471683 AGCCATGTTTATCCAAAGAGTGTGTGAGGTACACAACAAATAGAC Petersohn A, et al. (1999): PE NB 2D-gel
SigB Promoter -36:+4 473739..473778 TTGTTTAAATCTTCCCCGGATGTGGAAAAGTAACAGCGGA Petersohn A, et al. (1999): PE NB 2D-gel

Terminator

Terminator sequence Absolute position Position from stop codon Free energy
[kcal/mol]		 Downstream of
ACAAACCGCCCGGCGTACGCCGGACGGTTTTTTTATTGCAAA
     >>>>>>>>>    <<<<<<<<<
474621..474642
396..417
-15.3
 ydaG
TATAAGGATGGGCTTAACAGCCCATCCTTTTTGTATTGAAAA
     >>>>>>>>>    <<<<<<<<<
473089..473110
1..22
-15.5
 ydaE

Overview



Upper Region
Copyright: Human Genome Center, Inst. Med. Sci., Univ. Tokyo; 1999-2008
Contact: Kenta Nakai