LogoMotif

General information

Regulator	NdgR
Gene identifier	SCO5552 - SC1C2.33c
Family	IclR
Regulation type	Activator
Function	Isopropylmalate dehydratase
Organism	Streptomyces coelicolor

External links

Sequence logo

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Based on 18 sites.

Position Frequency Matrix

PFM


T	4	13	4	1	0	1	1	6	8	3	10	2	0	1	1
G	14	1	0	0	3	3	0	0	0	11	0	15	17	0	0
C	0	2	14	17	0	14	13	7	7	4	6	1	1	0	16
A	0	2	0	0	15	0	4	5	3	0	2	0	0	17	1

Position Weight Matrix

PWM


T	0.37	1.72	0.37	-0.68	-1.32	-0.68	-0.68	0.79	1.12	0.09	1.39	-0.24	-1.32	-0.68	-0.68
G	1.81	-0.68	-1.32	-1.32	0.09	0.09	-1.32	-1.32	-1.32	1.51	-1.32	1.90	2.06	-1.32	-1.32
C	-1.32	-0.24	1.81	2.06	-1.32	1.81	1.72	0.97	0.97	0.37	0.79	-0.68	-0.68	-1.32	1.98
A	-1.32	-0.24	-1.32	-1.32	1.90	-1.32	0.37	0.60	0.09	-1.32	-0.24	-1.32	-1.32	2.06	-0.68

Hidden Markov Model (HMM)


Consensus	GTCCACC-2-GTGGAC
Alignment length	15

Predictions

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Score:

Animate
Node Repulsion
Ideal Edge Length

Curated binding sequences
Predicted binding sequences

Gene ID	Location	Orientation	Binding sequence	Method	Reference
SCO1553	1662781:1662795	-	GTCCACCCACCGGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO1707	1828423:1828437	+	GTCCACCACGCGGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO1776	1897508:1897522	+	GTCCATCCTGCGGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO2103	2261989:2262003	+	GTCCACCCTTTGGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO2912	3163207:3163221	-	GATCACACTCCGGAA	ChIP-Seq	J.N. Kim et al. (2015)
SCO2999	3269922:3269936	+	GTTCACCTCGTGGTC	ChIP-Seq	J.N. Kim et al. (2015)
SCO3346	3704846:3704860	+	TTCCACCTTGATCAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO4164	4580694:4580708	+	TCCCACTCCTTGGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO4193	4601788:4601802	-	GGTCAGCTCCTGGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO5277	5742420:5742434	+	GACCACCTCGTGGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO5394	5863483:5863497	+	GTCCACACCGTGGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO5412	5882573:5882587	-	GTCCGCCTTGAGGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO5511	6002862:6002876	+	TCCCACCCACTTGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO5522	6015204:6015218	-	GTCCGCCATGCGGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO5552	6051783:6051797	+	GTCCAGAACGCCGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO5561	6059774:6059788	-	GTCCAGCAAGTGGAC	ChIP-Seq	J.N. Kim et al. (2015)
SCO6102	6702861:6702875	-	GTCCACATTTTGGAT	ChIP-Seq	J.N. Kim et al. (2015)
SCO6510	7200390:7200404	+	TTTTGCCATGTGGAC	ChIP-Seq	J.N. Kim et al. (2015)

Region	Location	Orientation	Score	Binding sequence	Method