Motif IL_83385.2 Version IL_83385.2 of this group appears in releases 0.4 to 0.4

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name for chain		1		2		3	break		4		5	1-2	1-5	2-5	3-4
1	IL_3G78_005	3G78	0.9272	2		A	Group II catalytic intron D1-D4-3	U	234	G	236	U	238	*	G	128	G	129		cWW		cWW
2	IL_2ZJR_077	2ZJR	0.7089	1	Minor groove platform (H)	X	LSU rRNA	U	2417	C	2419	C	2420	*	G	2053	A	2054	cSH	cWW		cWW
3	IL_2QWY_006	2QWY	0.6564	0		B	SAM-II riboswitch	U	40	A	41	G	42	*	C	23	A	24		cWW		cWW
4	IL_2QWY_009	2QWY	0.6666	0	Minor groove platform	C	SAM-II riboswitch	U	40	A	41	G	42	*	C	23	A	24		cWW	tHS	cWW
5	IL_2GDI_007	2GDI	0.5862	0		Y	TPP riboswitch (THI element)	C	23	C	24	U	25	*	A	35	G	36	ncSH	cWW		cWW
6	IL_2QWY_003	2QWY	0.6043	0		A	SAM-II riboswitch	U	40	A	41	G	42	*	C	23	A	24		cWW	tHS	cWW
7	IL_1S72_075	1S72	0.5572	1	Minor groove platform (H)	0	LSU rRNA	U	2473	C	2475	C	2476	*	G	2111	A	2112	cSH	cWW		cWW
8	IL_3F1H_027	3F1H	0.7227	0		A	LSU rRNA	U	913	C	914	C	915	*	G	862	A	863	cSH	cWW		cWW
9	IL_3F1H_070	3F1H	0.8475	1		A	LSU rRNA	G	1846	A	1848	G	1849	*	C	1893	C	1894		cWW	ncWS	cWW
10	IL_3F1H_031	3F1H	0.7611	0		A	LSU rRNA	U	877	A	878	G	879	*	C	898	A	899		cWW		cWW
11	IL_3F1H_078	3F1H	0.8672	1		A	LSU rRNA	U	2438	C	2440	C	2441	*	G	2070	A	2071	ncSH	cWW		cWW
12	IL_2GDI_003	2GDI	0.5574	0	Minor groove platform	X	TPP riboswitch (THI element)	C	23	C	24	U	25	*	A	35	G	36	ncSH	cWW		cWW
13	IL_1S72_033	1S72	0.4327	0	Single bulged A (H)	0	LSU rRNA	U	942	A	943	G	944	*	C	1023	G	1024	ncSH	cWW		cWW
14	IL_1FJG_042	1FJG	0.3696	2	Minor groove platform (H)	A	SSU rRNA	U	1199	G	1202	C	1203	*	G	1057	G	1058		cWW	tHS	cWW
15	IL_1S72_035	1S72	0.5283	0	Minor groove platform (H)	0	LSU rRNA	U	1009	C	1010	C	1011	*	G	956	A	957	cSH	cWW		cWW
16	IL_1FJG_004	1FJG	0.0000	0	Minor groove platform (H)	A	SSU rRNA	C	54	A	55	U	56	*	A	356	G	357		cWW	tHS	cWW
17	IL_1FJG_038	1FJG	0.1941	0	Minor groove platform (H)	A	SSU rRNA	C	1226	A	1227	C	1228	*	G	953	G	954		cWW	ntHS	cWW
18	IL_1FJG_052	1FJG	0.3856	0		A	SSU rRNA	C	1260	A	1261	C	1262	*	G	1273	G	1274			tHS	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
UAG*CA	4
UACC*GA	3
CCU*AG	2
UCC*GA	2
CAC*GG	2
UUGAU*GG	1
GAAG*CC	1
UAG*CG	1
UCAGC*GG	1
CAU*AG	1

Non-Watson-Crick part of the motif

Sequence	Counts
A*	8
C*	4
AC*	3
UGA*	1
AA*	1
CAG*	1

Release history

Release	0.4
Date	2011-12-08
Status	Updated, 2 parents

Parent motifs

Parent motif	Common motif instances	Only in IL_83385.2	Only in the parent motif
IL_83385.1 Compare	IL_3F1H_027, IL_1S72_075, IL_3G78_005, IL_1FJG_038, IL_1S72_035, IL_2QWY_009, IL_2QWY_006, IL_2GDI_007, IL_2QWY_003, IL_3F1H_078, IL_2ZJR_077, IL_2GDI_003	IL_3F1H_031, IL_1S72_033, IL_1FJG_004, IL_3F1H_070, IL_1FJG_052, IL_1FJG_042	IL_1FJG_051
IL_86058.1 Compare	IL_3F1H_031, IL_1S72_033, IL_1FJG_004, IL_3F1H_070, IL_1FJG_052, IL_1FJG_042	IL_3F1H_027, IL_1S72_075, IL_3G78_005, IL_1FJG_038, IL_1S72_035, IL_2QWY_009, IL_2QWY_006, IL_2GDI_007, IL_2QWY_003, IL_3F1H_078, IL_2ZJR_077, IL_2GDI_003	IL_3F1H_068, IL_2ZJR_027, IL_2ZJR_003, IL_3F1H_056, IL_2ZJR_067, IL_1S72_066

Children motifs

Child motif	Common motif instances	Only in IL_83385.2	Only in the child motif
IL_11266.1 Compare	IL_1FJG_038, IL_1S72_033, IL_1S72_035, IL_2QWY_009, IL_2QWY_006, IL_1S72_075, IL_2QWY_003, IL_2ZJR_077	IL_3F1H_031, IL_3F1H_027, IL_1FJG_004, IL_3F1H_070, IL_3G78_005, IL_1FJG_052, IL_1FJG_042, IL_2GDI_007, IL_3F1H_078, IL_2GDI_003	IL_1U6B_007, IL_3PYO_073, IL_2ZJR_027, IL_2QBG_081, IL_1Y0Q_003, IL_3O30_006, IL_2ZJR_003, IL_2AW7_045, IL_3O58_053, IL_2AW7_050, IL_2AW7_067, IL_3PYO_003, IL_3O58_113, IL_2QBG_008, IL_3PYO_027, IL_2XZM_061, IL_2XZM_026
IL_81608.1 Compare	IL_2GDI_007, IL_2GDI_003	IL_3F1H_031, IL_1FJG_038, IL_1S72_033, IL_2QWY_009, IL_3F1H_027, IL_1S72_035, IL_1FJG_004, IL_3F1H_070, IL_3G78_005, IL_1FJG_052, IL_2QWY_006, IL_1FJG_042, IL_1S72_075, IL_2QWY_003, IL_3F1H_078, IL_2ZJR_077	IL_1X8W_004
IL_16498.1 Compare	IL_1FJG_004, IL_1FJG_052	IL_3F1H_031, IL_1FJG_038, IL_1S72_033, IL_2QWY_009, IL_1S72_035, IL_3F1H_027, IL_3F1H_070, IL_3G78_005, IL_1S72_075, IL_2QWY_006, IL_1FJG_042, IL_2GDI_007, IL_2QWY_003, IL_3F1H_078, IL_2ZJR_077, IL_2GDI_003	IL_2XZM_005, IL_2QBG_072, IL_2ZJR_067, IL_2AW7_004, IL_2XZM_070, IL_3PYO_031
IL_58873.1 Compare	IL_1FJG_042	IL_3F1H_031, IL_1FJG_038, IL_1S72_033, IL_2QWY_009, IL_1S72_035, IL_3F1H_027, IL_1FJG_004, IL_3F1H_070, IL_3G78_005, IL_1FJG_052, IL_1S72_075, IL_2QWY_006, IL_2GDI_007, IL_2QWY_003, IL_3F1H_078, IL_2ZJR_077, IL_2GDI_003
IL_99637.1 Compare	IL_3G78_005	IL_3F1H_031, IL_1FJG_038, IL_1S72_033, IL_1S72_035, IL_3F1H_027, IL_1FJG_004, IL_3F1H_070, IL_2QWY_009, IL_1FJG_052, IL_1S72_075, IL_2QWY_006, IL_1FJG_042, IL_2GDI_007, IL_2QWY_003, IL_3F1H_078, IL_2ZJR_077, IL_2GDI_003	IL_3O58_038

Annotations: (9)
Minor groove platform (H) (6)
Minor groove platform (2)
Single bulged A (H) (1)
Basepair signature
Heat map statistics: Min 0.10 | Avg 0.51 | Max 0.97

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Coloring options: Nucleotide numbers

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