Motif HL_91226.1 Version HL_91226.1 of this group appears in releases 0.3 to 0.4

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2		3		4		5		6		7		8	1-8
1	HL_2QBG_058	2QBG	0.5360	0		B	23S rRNA	U	2324	G	2325	C	2326	A	2327	A	2328	U	2329	G	2330	G	2331	cWW
2	HL_2ZJR_054	2ZJR	0.4480	0	Pseudoknot geometry (H)	X	LSU rRNA	C	2303	G	2304	C	2305	A	2306	A	2307	A	2308	G	2309	G	2310	cWW
3	HL_3V2F_054	3V2F	0.4227	0		A	23S Ribosomal RNA	C	2324	G	2325	C	2326	A	2327	A	2328	G	2329	G	2330	G	2331	cWW
4	HL_3U5H_058	3U5H	0.4575	0		5	25S rRNA	C	2693	A	2694	A	2695	A	2696	A	2697	G	2698	G	2699	G	2700	cWW
5	HL_4A1B_057	4A1B	0.4547	0		1	26S RRNA	C	2682	A	2683	A	2684	A	2685	A	2686	G	2687	G	2688	G	2689	cWW
6	HL_1S72_058	1S72	0.5453	0	Pseudoknot geometry (H)	0	LSU rRNA	U	2358	G	2359	C	2360	A	2361	A	2362	G	2363	A	2364	G	2365	cWW
7	HL_2JLT_002	2JLT	0.4866	0	Pseudoknot geometry	B	TAR	C	5	C	6	U	7	G	8	G	9	G	10	A	11	G	12	cWW
8	HL_1S72_014	1S72	0.3112	1	Pseudoknot geometry (H)	0	LSU rRNA	G	416	C	418	A	419	U	420	C	421	G	422	A	423	C	424	cWW
9	HL_2NZ4_015	2NZ4	0.0000	1		S	GlmS ribozyme	G	71	U	73	C	74	A	75	U	76	C	77	A	78	C	79	cWW
10	HL_2NZ4_011	2NZ4	0.2043	1		R	GlmS ribozyme	G	71	U	73	C	74	A	75	U	76	C	77	A	78	C	79	cWW
11	HL_1S72_061	1S72	0.2717	1	Pseudoknot geometry (H)	0	LSU rRNA	G	2442	U	2444	U	2445	G	2446	A	2447	U	2448	G	2449	C	2450	cWW
12	HL_4A1B_060	4A1B	0.3170	1		1	26S RRNA	A	2764	A	2766	A	2767	G	2768	U	2769	U	2770	U	2771	U	2772	cWW
13	HL_3U5H_061	3U5H	0.3293	1		5	25S rRNA	C	2776	G	2778	A	2779	A	2780	U	2781	U	2782	U	2783	G	2784	cWW
14	HL_3G78_005	3G78	0.4488	2		A	Group II catalytic intron D1-D4-3	U	178	A	181	U	182	A	183	A	184	C	185	A	186	A	187	cWW
15	HL_4ENB_001	4ENB	0.4223	2	Pseudoknot geometry (H)	A	Fluoride riboswitch	G	5	G	8	A	9	G	10	G	11	C	12	C	13	C	14	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CAAAAGGG	2
GUUCAUCAC	2
UGCAAUGG	1
CGCAAAGG	1
CGCAAGGG	1
UGCAAGAG	1
CCUGGGAG	1
GGCAUCGAC	1
GCUUGAUGC	1
ACAAGUUUU	1
CGGAAUUUG	1
UGCAUAACAA	1
GAUGAGGCCC	1

Non-Watson-Crick part of the motif

Sequence	Counts
AAAAGG	2
UUCAUCA	2
GCAAUG	1
GCAAAG	1
GCAAGG	1
GCAAGA	1
CUGGGA	1
GCAUCGA	1
CUUGAUG	1
CAAGUUU	1
GGAAUUU	1
GCAUAACA	1
AUGAGGCC	1

Release history

Release	0.3	0.4
Date	2013-02-17	2013-02-17
Status	New id, 2 parents	Exact match

Parent motifs

Parent motif	Common motif instances	Only in HL_91226.1	Only in the parent motif
HL_91122.1 Compare	HL_1S72_061, HL_1S72_058, HL_2ZJR_054, HL_2NZ4_015, HL_2JLT_002, HL_2NZ4_011, HL_3G78_005, HL_2QBG_058	HL_4ENB_001, HL_4A1B_057, HL_3U5H_061, HL_3V2F_054, HL_4A1B_060, HL_3U5H_058, HL_1S72_014	HL_2NR0_003, HL_3O58_067, HL_3OWZ_002, HL_3O58_058, HL_2NZ4_007, HL_2GIS_001, HL_3O58_061, HL_2NZ4_003, HL_3PYO_056, HL_2ZJR_063, HL_1S72_067, HL_3IVK_009, HL_2QBG_067, HL_3NPB_001, HL_3O58_009, HL_3IVK_004
HL_54304.1 Compare	HL_1S72_014	HL_4ENB_001, HL_1S72_061, HL_1S72_058, HL_2ZJR_054, HL_2NZ4_015, HL_2JLT_002, HL_4A1B_057, HL_2NZ4_011, HL_3V2F_054, HL_4A1B_060, HL_3G78_005, HL_2QBG_058, HL_3U5H_058, HL_3U5H_061

Children motifs

Child motif	Common motif instances	Only in HL_91226.1	Only in the child motif
HL_91226.2 Compare	HL_4ENB_001, HL_1S72_058, HL_2ZJR_054, HL_2NZ4_015, HL_2JLT_002, HL_4A1B_057, HL_2NZ4_011, HL_3V2F_054, HL_4A1B_060, HL_1S72_061, HL_2QBG_058, HL_3U5H_058, HL_3U5H_061, HL_1S72_014	HL_3G78_005	HL_4FRN_002, HL_3U5H_009, HL_4GMA_003
HL_35446.1 Compare	HL_3G78_005	HL_4ENB_001, HL_1S72_058, HL_2ZJR_054, HL_2NZ4_015, HL_2JLT_002, HL_4A1B_057, HL_2NZ4_011, HL_3V2F_054, HL_4A1B_060, HL_1S72_061, HL_2QBG_058, HL_3U5H_058, HL_3U5H_061, HL_1S72_014

Annotations: (9)
Pseudoknot geometry (H) (5)
Pseudoknot geometry (1)
Basepair signature: cWW-R-R-R-R-R
Heat map statistics: Min 0.12 | Avg 0.44 | Max 0.87

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Coloring options: Nucleotide numbers

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