IL_87904.6

#S	Loop id	PDB	Disc	Annotation	Chain(s)	Standardized name for chain		1		2		3		4		5	break		6		7		8		9		10	1-10	2-3	2-8	2-9	3-8	4-7	5-6
1	IL_2QWY_001	2QWY	0.5454		A	SAM-II riboswitch	A	46	A	47	A	48	A	49	G	50	*	C	16	G	17	U	18	A	19	U	20	cWW			tSH		tHS	cWW
2	IL_4BPP_028	4BPP	0.5325		A	SSU rRNA	U	525	U	526	A	527	G	528	C	529	*	G	509	A	510	A	511	C	512	A	513	cWW		cWW	ntSH	tHS		cWW
3	IL_3U5H_112	3U5H	0.4686		5	LSU rRNA	C	2849	G	2850	A	2851	C	2852	A	2853	*	U	2835	C	2836	A	2837	A	2838	G	2839	cWW			tSH	ntHS		cWW
4	IL_2QBG_094	2QBG	0.3945		B	LSU rRNA	C	2480	G	2481	A	2482	C	2483	G	2484	*	C	2466	C	2467	A	2468	A	2469	G	2470	cWW			tSH	ntHS	ncBW	cWW
5	IL_4A1B_110	4A1B	0.3850		1	LSU rRNA	C	2837	G	2838	A	2839	C	2840	G	2841	*	C	2823	C	2824	A	2825	A	2826	G	2827	cWW			tSH	tHS	ncBW	cWW
6	IL_4IOA_089	4IOA	0.4062	Triple sheared	X	LSU rRNA	C	2459	G	2460	G	2461	C	2462	G	2463	*	C	2445	C	2446	G	2447	A	2448	G	2449	cWW			tSH	ntHS	ncBW	cWW
7	IL_4NVV_091	4NVV	0.4126		A	LSU rRNA	C	2492	G	2493	G	2494	C	2495	G	2496	*	C	2478	C	2479	G	2480	A	2481	G	2482	cWW			tSH		ncBW	cWW
8	IL_1U6B_002	1U6B	0.3825	Double sheared with non-canonical cWW	B	197-MER	G	56	A	57	A	58	A	59	C	60	*	G	84	C	85	A	86	A	87	C	88	cWW			tSH	tHS	ncWW	cWW
9	IL_1VW3_083	1VW3	0.2239		A	LSU rRNA	C	2902	A	2903	A	2904	A	2905	U	2906	*	A	3112	U	3113	A	3114	A	3115	G	3116	cWW			tSH	tHS	ntHS	cWW
10	IL_1S72_083	1S72	0.3347	Double sheared with non-canonical cWW (H)	0	LSU rRNA	C	2515	G	2516	A	2517	C	2518	C	2519	*	G	2501	C	2502	A	2503	A	2504	G	2505	cWW			tSH	ntHS	cBW	cWW
11	IL_2AW7_058	2AW7	0.4398		A	SSU rRNA	C	1259	G	1260	A	1261	C	1262	C	1263	*	G	1272	C	1273	A	1274	A	1275	G	1276	cWW			tSH	tHS	ncBW	cWW
12	IL_3U5F_091	3U5F	0.3738		6	SSU rRNA	A	1719	G	1720	A	1721	A	1722	U	1723	*	A	1678	G	1679	G	1680	A	1681	U	1682	cWW				tHS	tHS	cWW
13	IL_3U5H_032	3U5H	0.3966		5	LSU rRNA	U	834	G	835	A	836	A	837	G	838	*	U	855	G	856	G	857	A	858	G	859	cWW			tSH	tHS	tHS	cWW
14	IL_1S72_028	1S72	0.3688		0	LSU rRNA	U	794	G	795	A	796	A	797	G	798	*	U	815	G	816	G	817	A	818	A	819	cWW			tSH	tHS	tHS	cWW
15	IL_4NVV_023	4NVV	0.3744		A	LSU rRNA	U	750	G	751	A	752	A	753	G	754	*	U	771	G	772	G	773	A	774	G	775	cWW			tSH	tHS	tHS	cWW
16	IL_2QBG_024	2QBG	0.3691		B	LSU rRNA	U	703	G	704	A	705	A	706	G	707	*	U	724	G	725	G	726	A	727	G	728	cWW			tSH	tHS	tHS	cWW
17	IL_2QBG_068	2QBG	0.3102		B	LSU rRNA	U	1720	G	1721	A	1722	G	1723	G	1724	*	U	1736	G	1737	G	1738	A	1739	G	1740	cWW			tSH	tHS	ntHS	cWW
18	IL_4BPP_090	4BPP	0.2491		A	SSU rRNA	G	1672	A	1673	A	1674	A	1675	A	1676	*	U	1649	G	1650	G	1651	A	1652	C	1653	cWW			tSH	tHS	tHS	cWW
19	IL_2A64_005	2A64	0.2663	Triple sheared	A	RNase P class B	C	284	G	285	A	286	A	287	G	288	*	C	297	G	298	G	299	A	300	G	301	cWW			tSH	ntHS	tHS	cWW
20	IL_3DHS_004	3DHS	0.2811	Triple sheared	A	RNase P class B	C	284	G	285	A	286	A	287	G	288	*	C	297	G	298	G	299	A	300	G	301	cWW	ncSH				tHS	cWW
21	IL_2A64_006	2A64	0.2224	Triple sheared	A	RNase P class B	C	378	G	379	A	380	A	381	G	382	*	C	347	G	348	G	349	A	350	G	351	cWW				tHS	tHS	cWW
22	IL_4IOA_070	4IOA	0.1740	Triple sheared	X	LSU rRNA	C	1865	G	1866	A	1867	A	1868	A	1869	*	U	1848	G	1849	G	1850	A	1851	G	1852	cWW			ntSH	tHS	tHS	cWW
23	IL_4NVV_075	4NVV	0.0000		A	LSU rRNA	C	1904	G	1905	A	1906	A	1907	C	1908	*	G	1887	G	1888	G	1889	A	1890	G	1891	cWW			tSH	tHS	tHS	cWW
24	IL_3U5H_075	3U5H	0.2186		5	LSU rRNA	U	1645	G	1646	A	1647	A	1648	U	1649	*	A	1806	G	1807	G	1808	A	1809	A	1810	cWW			tSH	tHS	tHS	cWW
25	IL_3IWN_002	3IWN	0.2817	Triple sheared	A	Cyclic di-GMP-I riboswitch	C	12	A	13	A	14	A	15	C	16	*	G	31	G	32	A	33	C	34	G	35	cWW			ntSH		tHS	cWW
26	IL_4FAW_002	4FAW	0.2420		A	Group II catalytic intron D1-D4-3	C	70	U	71	A	72	A	73	C	74	*	G	113	G	114	A	115	C	116	G	117	cWW			tSH		tHS	cWW
27	IL_4A1B_125	4A1B	0.3009		1	LSU rRNA	U	3217	U	3218	A	3219	A	3220	C	3221	*	G	3189	A	3190	G	3191	C	3192	G	3193	cWW			ntSHa	ntHS	tHS	cWW
28	IL_3UCZ_001	3UCZ	0.3653		R	Cyclic di-GMP-I riboswitch	C	22	A	23	A	24	A	25	C	26	*	G	41	G	42	A	43	C	44	G	45	cWW			ntSH		tHS	cWW
29	IL_1S72_021	1S72	0.5278	AAA cross-strand stack (H)	0	LSU rRNA	C	663	U	664	A	665	A	666	C	667	*	G	679	G	680	G	681	A	682	G	683	cWW			ntWH		tHS	cWW
30	IL_2QBG_019	2QBG	0.5239		B	LSU rRNA	U	606	U	607	A	608	A	609	C	610	*	G	618	G	619	G	620	A	621	G	622	cWW			ntWH		tHS	cWW
31	IL_4NVV_017	4NVV	0.5381		A	LSU rRNA	U	629	U	630	A	631	A	632	G	633	*	C	643	G	644	G	645	A	646	G	647	cWW			ntWH		tHS	cWW
32	IL_4IOA_012	4IOA	0.6522	AAA cross-strand stack	X	LSU rRNA	U	616	U	617	A	618	A	619	G	620	*	C	629	G	630	G	631	A	632	G	633	cWW					tHS	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
UGAAG*UGGAG	3
CGAAG*CGGAG	3
CGACG*CCAAG	2
CGGCG*CCGAG	2
CGACC*GCAAG	2
CAAAC*GGACG	2
UUAAG*CGGAG	2
AAAAG*CGUAU	1
UUAGC*GAACA	1
CGACA*UCAAG	1
GAAAC*GCAAC	1
CAAAU*AUAAG	1
AGAAU*AGGAU	1
UGAAG*UGGAA	1
UGAGG*UGGAG	1
GAAAA*UGGAC	1
CGAAA*UGGAG	1
CGAAC*GGGAG	1
UGAAU*AGGAA	1
CUAAC*GGACG	1
UUAAC*GAGCG	1
CUAAC*GGGAG	1
UUAAC*GGGAG	1

Non-Watson-Crick part of the motif

Sequence	Counts
GAA*GGA	11
GAC*CAA	5
UAA*GGA	4
GGC*CGA	2
AAA*GAC	2
AAA*GUA	1
UAG*AAC	1
AAA*CAA	1
AAA*UAA	1
GAG*GGA	1
AAA*GGA	1
UAA*GAC	1
UAA*AGC	1

Release history

Release	1.14
Date	2014-04-27
Status	Updated, 1 parent

Parent motifs

Parent motif	Common motif instances	Only in IL_87904.6	Only in the parent motif
IL_87904.5 Compare	IL_4BPP_028, IL_2AW7_058, IL_4IOA_012, IL_4A1B_110, IL_4IOA_070, IL_2QWY_001, IL_2QBG_068, IL_1S72_028, IL_2QBG_019, IL_1S72_021, IL_3IWN_002, IL_2A64_005, IL_2A64_006, IL_4BPP_090, IL_2QBG_024, IL_1U6B_002, IL_2QBG_094, IL_3U5F_091, IL_4IOA_089, IL_4FAW_002, IL_3U5H_112, IL_3U5H_032, IL_3UCZ_001, IL_4A1B_125, IL_3U5H_075, IL_1S72_083, IL_3DHS_004	IL_1VW3_083, IL_4NVV_075, IL_4NVV_023, IL_4NVV_091, IL_4NVV_017	IL_3V2F_072, IL_3V2F_092, IL_3V2F_021, IL_3V2F_016

Children motifs

Child motif	Common motif instances	Only in IL_87904.6	Only in the child motif
IL_87904.7 Compare	IL_2AW7_058, IL_4NVV_091, IL_1S72_083, IL_4A1B_110, IL_4IOA_070, IL_2QWY_001, IL_2QBG_068, IL_1S72_028, IL_2QBG_019, IL_1S72_021, IL_4NVV_023, IL_1VW3_083, IL_3IWN_002, IL_2A64_005, IL_2A64_006, IL_4BPP_090, IL_2QBG_024, IL_1U6B_002, IL_2QBG_094, IL_3U5F_091, IL_4IOA_089, IL_4FAW_002, IL_3U5H_112, IL_3U5H_032, IL_3UCZ_001, IL_4A1B_125, IL_3U5H_075, IL_4IOA_012, IL_4NVV_075, IL_4NVV_017, IL_3DHS_004	IL_4BPP_028	IL_4CUV_035, IL_4CUV_073, IL_4CUV_116, IL_4CUX_077
IL_49445.1 Compare	IL_4BPP_028	IL_2AW7_058, IL_4NVV_091, IL_1S72_083, IL_4A1B_110, IL_4IOA_070, IL_2QWY_001, IL_2QBG_068, IL_1S72_028, IL_2QBG_019, IL_1S72_021, IL_4NVV_023, IL_1VW3_083, IL_3IWN_002, IL_2A64_005, IL_2A64_006, IL_4BPP_090, IL_2QBG_024, IL_1U6B_002, IL_2QBG_094, IL_3U5F_091, IL_4IOA_089, IL_4FAW_002, IL_3U5H_112, IL_3U5H_032, IL_3UCZ_001, IL_4A1B_125, IL_3U5H_075, IL_4IOA_012, IL_4NVV_075, IL_4NVV_017, IL_3DHS_004	IL_4CUV_046

Motif IL_87904.6 Version IL_87904.6 of this group appears in releases 1.14 to 1.14 Download Csv Json

3D structures

Complete motif including flanking bases

Non-Watson-Crick part of the motif

Release history

Parent motifs

Children motifs

Motif IL_87904.6 Version IL_87904.6 of this group appears in releases 1.14 to 1.14

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