Motif IL_89033.1 Version IL_89033.1 of this group appears in releases 1.17 to 1.17

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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		4		5		6		7		8	break		9		10	1-10	5-6	5-7	8-9
1	IL_4BPP_029	4BPP	0.2794	0		A	SSU rRNA	A	543	G	544	G	545	G	546	C	547	A	548	A	549	G	550	*	C	581	U	582	cWW	cSH		cWW
2	IL_3U5F_030	3U5F	0.2982	0		6	SSU rRNA	A	550	G	551	G	552	G	553	C	554	A	555	A	556	G	557	*	C	587	U	588	cWW	cSH		cWW
3	IL_3J7A_024	3J7A	0.2784	0	SSU/LSU pseudoknot (H)	A	SSU rRNA	A	557	G	558	G	559	G	560	C	561	A	562	A	563	G	564	*	C	594	U	595	cWW	cSH		cWW
4	IL_1FJG_020	1FJG	0.2422	0	SSU/LSU pseudoknot (H)	A	SSU rRNA	C	504	G	505	G	506	C	507	C	508	A	509	A	510	C	511	*	G	540	G	541	cWW	ncSH	ntSW	cWW
5	IL_2AW7_027	2AW7	0.2405	0		A	SSU rRNA	C	504	G	505	G	506	C	507	U	508	A	509	A	510	C	511	*	G	540	G	541	cWW			cWW
6	IL_4A1B_055	4A1B	0.0000	0		1	LSU rRNA	C	1200	G	1201	C	1202	C	1203	C	1204	A	1205	A	1206	A	1207	*	U	1352	G	1353	cWW	cSH		cWW
7	IL_1S72_039	1S72	0.1645	0	SSU/LSU pseudoknot (H)	0	LSU rRNA	U	1101	C	1102	C	1103	C	1104	C	1105	A	1106	A	1107	G	1108	*	C	1254	A	1255	cWW	cSH		cWW
8	IL_4QCN_036	4QCN	0.1702	0		A	LSU rRNA	C	1050	C	1051	C	1052	C	1053	C	1054	A	1055	A	1056	G	1057	*	C	1196	G	1197	cWW	cSH		cWW
9	IL_4IOA_033	4IOA	0.1909	0	SSU/LSU pseudoknot	X	LSU rRNA	U	1015	C	1016	C	1017	C	1018	U	1019	A	1020	A	1021	A	1022	*	U	1161	A	1162	cWW	cSH		cWW
10	IL_2QBG_037	2QBG	0.2173	0		B	LSU rRNA	U	1004	C	1005	C	1006	C	1007	A	1008	A	1009	A	1010	G	1011	*	C	1150	A	1151	cWW	ncSH		cWW
11	IL_3U5H_054	3U5H	0.3468	0		5	LSU rRNA	U	1173	G	1174	C	1175	C	1176	G	1177	G	1178	A	1179	A	1180	*	U	1325	A	1326	cWW	chH		cWW
12	IL_4CUV_055	4CUV	0.3453	0		1	LSU rRNA	U	1173	G	1174	C	1175	C	1176	G	1177	G	1178	A	1179	A	1180	*	U	1325	A	1326	cWW	nchH		cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
AGGGCAAG*CU	3
UGCCGGAA*UA	2
CGGCCAAC*GG	1
CGGCUAAC*GG	1
CGCCCAAA*UG	1
UCCCCAAG*CA	1
CCCCCAAG*CG	1
UCCCUAAA*UA	1
UCCCAAAG*CA	1

Non-Watson-Crick part of the motif

Sequence	Counts
GGGCAA*	3
CCCCAA*	2
GCCGGA*	2
GGCCAA*	1
GGCUAA*	1
GCCCAA*	1
CCCUAA*	1
CCCAAA*	1

Release history

Release	1.17
Date	2014-09-04
Status	New id, 2 parents

Parent motifs

Parent motif	Common motif instances	Only in IL_89033.1	Only in the parent motif
IL_24546.6 Compare	IL_2QBG_037, IL_4BPP_029, IL_3U5F_030, IL_1S72_039, IL_1FJG_020, IL_4A1B_055	IL_3U5H_054, IL_3J7A_024, IL_4CUV_055, IL_4QCN_036, IL_4IOA_033, IL_2AW7_027	IL_4NVV_039
IL_03128.1 Compare	IL_4CUV_055, IL_2AW7_027, IL_4IOA_033, IL_3U5H_054	IL_2QBG_037, IL_4BPP_029, IL_3J7A_024, IL_3U5F_030, IL_1S72_039, IL_1FJG_020, IL_4QCN_036, IL_4A1B_055	IL_4CUX_030, IL_2QBG_022, IL_2QBG_097, IL_3SN2_002, IL_4NVV_094, IL_1VW3_080, IL_4OO8_002, IL_3SNP_002, IL_3U5H_031, IL_4IOA_092

Children motifs

Child motif	Common motif instances	Only in IL_89033.1	Only in the child motif
IL_89033.2 Compare	IL_2QBG_037, IL_4BPP_029, IL_3J7A_024, IL_3U5F_030, IL_1S72_039, IL_1FJG_020, IL_4QCN_036, IL_4A1B_055	IL_4CUV_055, IL_2AW7_027, IL_4IOA_033, IL_3U5H_054
IL_66381.1 Compare	IL_4CUV_055, IL_2AW7_027, IL_4IOA_033, IL_3U5H_054	IL_2QBG_037, IL_4BPP_029, IL_3J7A_024, IL_3U5F_030, IL_1S72_039, IL_1FJG_020, IL_4QCN_036, IL_4A1B_055	IL_3U5H_031, IL_4UN5_002, IL_4W21_154, IL_2QBG_097, IL_3SN2_002, IL_2QBG_022, IL_4UN3_002, IL_4OO8_002, IL_4QCN_095, IL_3SNP_002, IL_1VW3_080, IL_4IOA_092, IL_1VX6_057

Annotations: (8)
SSU/LSU pseudoknot (H) (3)
SSU/LSU pseudoknot (1)
Basepair signature: cWW-L-L-L-cSH-L-cWW
Heat map statistics: Min 0.08 | Avg 0.26 | Max 0.43

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Coloring options: Nucleotide numbers

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