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Table 1 The CRE consensus. For B. subtilus and species of the phylum Firmicutes in general, a consensus has been formulated by others on basis of both (exp) experiment and (pred) predictions. For the composition of the L. plantarum CRE consensus (bold, italics) we have used the two experimentally established CREs in L. plantarum [49,110] and the initial CcpA operator motif retrieved by us (Figure 2).

From: A generic approach to identify Transcription Factor-specific operator motifs; Inferences for LacI-family mediated regulation in Lactobacillus plantarum WCFS1

LacI-family TF

Organism

Site

Operator(a)

Evidence

CcpA

B. subtilis

CRE

TG WNAN CG NTNW CA

pred/exp: [29]

 

B. subtilis

CRE

TG NAAR CG NWWW CA

pred/exp: [22,28]

 

L. lactis

CRE

WG WAAR CG YTWW MA

pred/exp: [25]

 

Firmicutes

CRE

WG NAAS CG NWWN CA

pred/exp: [30]

 

Firmicutes

CRE

WG HWAD SG YWWD CA

pred/exp: [21] (b)

 

L. plantarum

CRE

NK NWAN SG NWWN CA

pred/exp: [49, 110] and this work

  1. (a) Abreviations for specific nucleotide combinations taken from [111]: C, G: S (strong); A, T: W (weak); A, G: R (purine); T, C: Y (pyrimidine); T, G: K (keto); A, C: M (amino); A, T, G: D (not-C); A, T, C: H (not-G); A, T, C, G: N (any).
  2. (b) This consensus is based on the experimentally verified operators listed in this reference