Regulated operon: pyrRPBCAAABKDFE

Regulated Operon:

pyrRPBCAAABKDFE

Genes

Genes	Synonyms	Direction	Genome position	Function	COG ID	Conserved groups
pyrR		+	1618304..1618849		COG2065F	pyrR-BAC pyrR-LAB pyrR-STA pyrR-STR
pyrP		+	1619023..1620330		COG2233F	pyrP-BAC pyrP-STA
pyrB		+	1620476..1621390		COG0540F	pyrB-BAC pyrB-STA
pyrC		+	1621374..1622660		COG0044F	pyrC-STR
pyrAA		+	1622657..1623751		COG0505EF
pyrAB		+	1623736..1626951		COG0458EF
pyrK	ylxD	+	1626948..1627718		COG0543HC	pyrK-STR
pyrD	pyrDI	+	1627718..1628653		COG0167F	pyrD-STA pyrD-STR
pyrF		+	1628622..1629341		COG0284F	pyrF-STA pyrF-STR
pyrE	pyrX	+	1629320..1629970		COG0461F

Operon evidence:	Northern blotting (12 kb transcript)
Reference:	Turner RJ, et al. (1994), Genbank AJ000974, Genbank M59757
Comments:	Northern blotting showed four transcripts (of 0.12, 0.65, 2.3, and 12 kb) corresponding to the transcriptional terminators upstream of pyrR and downstream of pyrR, pyrP, and pyrE. At these stem-loops, transcriptional termination (mediated by PyrR) occurs in the presence of excess uridine monophosphate.

Promoters

Binding factor	Regulation	Location	Absolute position	Binding seq.(cis-element)	Experimental evidence
PurR	Negative	`-110:-45`	1618044..1618109	`GGAGAATATGTCGAATTTGAAGCGCCGCTTCCCGAGGATATGGCAGAATTAATCGAAAACCTCAGA`	Shin BS, et al. (1997): GS FT
PyrR	Negative	ND	1618156..1618215	`TGAATAGATTCTTTAAAACAGTCCAGAGAGGCTGAGAAGGATAACGGATAGACGGGATGC`	Lu Y, et al. (1995): DB RG Turner RJ, et al. (1994): NB RG DP OV Ghim S-Y & Switzer RL (1996): Classical genetics, RG Lu Y & Switzer RL (1996): Titration Lu Y & Switzer RL (1996): RO NB, in-vitro transcription Lu Y, et al. (1996): In-vitro transcription Bonner ER, et al. (2001): GS FT Zhang H & Switzer RL (2003): RO
SigA	Promoter	`-40:+4`	1618114..1618157	`ACGGTTGACAGAGGGTTTCTTTTCTGAAATAATAAACGAAGCTG`	Quinn CL, et al. (1991): NB PE
PyrR	Negative	ND	1618850..1618910	`TAGATCACCTTTTTAAGGGCAATCCAGAGAGGTTGCAAAGAGGTGCACAACAAAGGCCCAA`	Turner RJ, et al. (1994): NB RG DP OV Lu Y, et al. (1996): DB RG Ghim S-Y & Switzer RL (1996): Classical genetics, RG Lu Y & Switzer RL (1996): Titration Lu Y & Switzer RL (1996): RO NB, in-vitro transcription Turner RJ, et al. (1998): GS DP Bonner ER, et al. (2001): GS FT SDM Zhang H & Switzer RL (2003): RO Zhang H, et al. (2005): SDM RG
PyrR	Negative	ND	1620326..1620385	`TTTAAAACCTTTTAATGAAAGTCCAGAGAGGCTTGGAAGGGTTATGAAGAGAAGGAAGCT`	Lu Y, et al. (1996): DB RG Quinn CL, et al. (1991): S1 Turner RJ, et al. (1994): NB RG DP OV Ghim S-Y & Switzer RL (1996): Classical genetics, RG Lu Y & Switzer RL (1996): Titration Lu Y & Switzer RL (1996): RO NB, in-vitro transcription Bonner ER, et al. (2001): GS FT Zhang H & Switzer RL (2003): RO

Terminator

Terminator sequence	Absolute position	Position from stop codon	Free energy [kcal/mol]	Downstream of
`CACCTTGTCCTAAAACCCCTCTATGCTCTGGCAGGAGGGGTTTTTTCTTCTATAT >>>>>>>>>>> <<<<<<<<<<`	1618244..1618268	-605..-581	-17.1	pyrR
`AGGTCTTTGTATGCCTCTTTGCGTAAAAAAGCAAAGAGGTTTTTTTATACAGTC >>>>>>>>> <<<<<<<<<`	1618936..1618961	87..112	-15.7	pyrR
`ACCATACCCCGAGTCTATCTTAGACCGGGGTTTTTTTTCAGCCTT >>>>>>>>>>> <<<<<<<<<<`	1620412..1620435	82..105	-16.6	pyrP
`TAAAGAGGCTTCAAAGCCTTGCTGTACTTGAAAACAGGCTGTGAGGCCTGTTTTTTTATTAATCC >>>>>>>>>>>>>> <<<<<<<<<<<<<<`	1629995..1630038	25..68	-23.3	pyrE
`TGAAAACAGGCTGTGAGGCCTGTTTTTTTATTAATCCT >>>>>>> <<<<<<<`	1630023..1630040	53..70	-15.7	pyrE

Overview

Upper Region

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