Regulated Operon: menBEC

Genes
Genes Synonyms Direction Genome position Function COG ID Genus clusters
menF icsM, entC - 3151350..3152765 menaquinone-specific isochorismate synthase COG1169 dhbC-BAC  
menD
- 3149611..3151353 2-oxoglutarate decarboxylase and 2-succinyl-6-hydroxy-2,4-cyclohexadiene-1-carboxylate synthase COG1165  
ytxM ytfB - 3148799..3149623
COG0596  
menB
- 3147949..3148764 dihydroxynapthoic acid synthetase COG0447  
menE
- 3146398..3147858 O-succinylbenzoic acid-CoA ligase COG0318  
menC ytfD - 3145286..3146401 O-succinylbenzoate-CoA synthase COG4948  

Operon evidence: Genome analysis
Reference: Lapidus A, et al. (1997), Driscoll JR & Taber HW (1992), Miller P, et al. (1988), Genbank AF008220
Comments: The readthrough terminator downstream of menB was found by RNA protection assays. An S1 nuclease experiment of the 5' end showed that menF and menD belong to the same operon. RNase protection assays showed that transcription of menB occurs from an upstream region in addition to the menB promoter, indicating that either no terminator or a readthrough terminator exists downstream of ytxM.

Promoters

Binding
factor		 Regulation Location Absolute position Binding seq.(cis-element) Experimental evidence
SigA Promoter -44:+18 3152843..3152904 GCTTGTTTCTTTTTCATTTCTGAAATTAGGTTTATAATAGGTAAGGCAGGCCATTTGGACTG Qin X, et al. (1996): PE
SigA Promoter -47:+17 3148736..3148799 ACTCATTCACATAGAGAATAAAAGGAGGTCATCATATGGCTGAATGGAAAACAAAACGGACATA Driscoll JR, et al. (1992): PE
SigA Promoter -50:+16 3147838..3147903 GCTGTTTTCTTTTCAATACAGACATTTTACCTCGGAGATGATGACATGCTGACAGAACAGCCCAAC Driscoll JR, et al. (1992): PE

Terminator

Terminator sequence Absolute position Position from stop codon Free energy
[kcal/mol]		 Downstream of
AAAAAAGCATTTTGCTATTTTGAATAAATGAC
     >>>>   <<<<
3145269..3145279
7..17
-5.1
 menC
TTGGACCGGCTGCTGACCCAGCCGGTTTTTTTATGTAAAT
     >>>>>>>      <<<<<<<
3145181..3145200
86..105
-13.4
 menC
ACCAACAGCTTGAGACTTTGCGGTCCAAGCTGTTTTCTTTTCAATAC
     >>>>>>>>>>>>    <<<<<<<<<<<
3147900..3147926
23..49
-17.1
 menB

Overview



Upper Region
Copyright: Human Genome Center, Inst. Med. Sci., Univ. Tokyo; 1999-2006
Contact: Kenta Nakai