RegRNA
A Regulatory RNA Motifs and Elements Finder
  Release 1.0, Jan 2006
 
 
 

Accession R0513
Feature Type Riboswitch
Name ykoK element
Regulatory Motif
(RNAMotif descriptor)
descr

	h5(len=2)

		h5(seq="^Y$")

			h5(len=2)

				h5(seq="^CU$")

					ss(seq="^AGGGUUCCG$")

					h5(len=1)

						h5(seq="^Y$")

							h5(len=2)

								ss(minlen=3, maxlen=5)

							h3

						h3

					h3

					ss(seq="^G$")

					ss(len=1)

					ss(seq="^CUGGUCCGAG$")

				h3

			h3

		h3

	h3

	ss(seq="^R$")

	h5(len=5)

		h5(minlen=0, maxlen=3)

			ss(minlen=3, maxlen=5)

		h3

	h3

	ss(seq="^Y$")

	ss(len=1)

	ss(seq="^CACGG$")

	ss(len=1)

	ss(seq="^GGGAYAAAAGCCCGGGAGR$")

	ss(minlen=3, maxlen=5)
Ligand metal
References Barrick JE, Corbino KA, Winkler WC, Nahvi A, Mandal M, Collins J, Lee M, Roth A, Sudarsan N, Jona I, Wickiser JK, and Breaker RR
New RNA motifs suggest an expanded scope for riboswitches in bacterial genetic control.
Proc Natl Acad Sci U S A 2004; 101(17), 6421-6   PubMed 


Department of Biological Science and Technology, Institute of Bioinformatics, National Chiao Tung University, Taiwan
Contact with Dr. Hsien-Da Huang