IL_39199.3

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2	break		3		4		5	1-4	1-5	2-3	3-5	4-5
1	IL_2QBG_092	2QBG	0.6432	0		B	23S rRNA	U	2493	G	2494	*	U	2457	G	2458	A	2459		cWW	cWW
2	IL_4A1B_111	4A1B	0.6459	0		1	26S RRNA	C	2864	G	2865	*	U	2937	G	2938	G	2939		cWW	cWW
3	IL_4IOA_090	4IOA	0.6412	0	Major groove platform (H)	X	LSU rRNA	C	2486	G	2487	*	U	2559	G	2560	G	2561		cWW	cWW		chH
4	IL_2QBG_095	2QBG	0.6528	0		B	23S rRNA	C	2507	G	2508	*	U	2580	G	2581	G	2582		cWW	cWW		chH
5	IL_2QBG_001	2QBG	0.5404	0		A	5S rRNA	C	17	G	18	*	U	65	A	66	G	67		cWW	cWW
6	IL_4A1B_087	4A1B	0.5878	1		1	26S RRNA	U	2195	G	2196	*	U	2236	A	2237	A	2239		cWW	cWW
7	IL_3V2F_097	3V2F	0.5967	0		A	23S Ribosomal RNA	C	2591	G	2592	*	C	2601	A	2602	G	2603		cWW	cWW
8	IL_1FJG_028	1FJG	0.2870	0	Major groove platform (H)	A	SSU rRNA	G	657	G	658	*	C	747	C	748	C	749		cWW	cWW		ncSH
9	IL_1G1X_002	1G1X	0.2575	0	Major groove platform	D+E	16S RIBOSOMAL RNA	G	657	G	658	*	C	747	C	748	C	749		cWW	cWW		ncSH
10	IL_2XZM_079	2XZM	0.3375	0		A	18S RRNA	U	1469	C	1470	*	G	1479	U	1480	A	1481		cWW	cWW		ncSH
11	IL_3NKB_002	3NKB	0.2435	0	Major groove platform	B	The hepatitis delta virus ribozyme	U	47	C	48	*	G	55	U	56	A	57		cWW	cWW		cSH
12	IL_2XZM_055	2XZM	0.2999	0		A	18S RRNA	U	1100	C	1101	*	G	1091	U	1092	A	1093		cWW	cWW		ncSH
13	IL_3Q1Q_001	3Q1Q	0.4544	0		B	RNase P RNA	G	328	C	329	*	G	51	U	52	C	53		cWW	cWW		ncSH
14	IL_3SUX_002	3SUX	0.5240	0	Major groove platform	X	THF riboswitch	G	37	A	38	*	U	47	G	48	U	49		cWW	ncWW
15	IL_4A1B_106	4A1B	0.3020	0		1	26S RRNA	G	2811	G	2812	*	U	2853	C	2854	C	2855		cWW	cWW		ncSH
16	IL_3U5H_108	3U5H	0.3158	0		5	25S rRNA	G	2823	G	2824	*	U	2865	U	2866	C	2867		cWW	cWW	ncSH	cSH
17	IL_3V2F_087	3V2F	0.2863	0		A	23S Ribosomal RNA	G	2414	G	2415	*	U	2401	C	2402	C	2403		cWW	cWW		ncSH
18	IL_1XJR_002	1XJR	0.2533	0	Major groove platform	A	s2m RNA	G	13	G	14	*	U	37	A	38	C	39		cWW	cWW		cSH
19	IL_4IOA_084	4IOA	0.2331	0	Major groove platform	X	LSU rRNA	G	2393	G	2394	*	U	2380	A	2381	C	2382		cWW	cWW
20	IL_3V2F_009	3V2F	0.2624	0		A	23S Ribosomal RNA	G	272\|\|\|D	G	272\|\|\|E	*	U	363\|\|\|E	A	363\|\|\|F	C	364		cWW	cWW		ncSH
21	IL_2AW7_031	2AW7	0.2849	0		A	16S ribosomal RNA	U	644	G	645	*	U	594	A	595	A	596		cWW	cWW		ncSH
22	IL_1I6U_003	1I6U	0.2975	0		D	16S RRNA FRAGMENT	U	28	G	29	*	U	9	A	10	A	11	ntHS	cWW	cWW		cSH
23	IL_4A1B_021	4A1B	0.3768	0		1	26S RRNA	U	473	G	474	*	U	503	A	504	A	505		cWW	ncWW		ncSH
24	IL_3V2F_090	3V2F	0.3046	0		A	23S Ribosomal RNA	U	2493	G	2494	*	U	2457	G	2458	A	2459	ntHS	cWW	ncWW
25	IL_4IOA_087	4IOA	0.3021	0		X	LSU rRNA	U	2472	G	2473	*	U	2436	G	2437	A	2438	ntHS	cWW	cWW
26	IL_2QBG_078	2QBG	0.2574	0		B	23S rRNA	U	2617	G	2618	*	C	2050	A	2051	A	2052	tHS	cWW	cWW		cSH
27	IL_3V2F_075	3V2F	0.2967	0		A	23S Ribosomal RNA	C	2617	G	2618	*	C	2050	A	2051	G	2052		cWW	cWW		cSH
28	IL_4IOA_073	4IOA	0.3010	0	Major groove platform (H)	X	LSU rRNA	C	2596	G	2597	*	C	2033	A	2034	G	2035		cWW	cWW		cSH
29	IL_1S03_008	1S03	0.1751	0	Major groove platform	B	47-MER	U	16	G	17	*	C	34	A	35	A	36	tHS	cWW	cWW		cSH
30	IL_4IOA_086	4IOA	0.0000	0	Major groove platform (H)	X	LSU rRNA	G	2433	G	2434	*	C	2475	A	2476	C	2477		cWW	cWW		ncSH
31	IL_1S72_080	1S72	0.1111	0	Major groove platform (H)	0	LSU rRNA	G	2489	A	2490	*	U	2531	A	2532	C	2533		cWW	cWW		cSH
32	IL_3V2F_089	3V2F	0.0875	0		A	23S Ribosomal RNA	G	2454	G	2455	*	C	2496	A	2497	C	2498		cWW	cWW		cSH
33	IL_2QBG_091	2QBG	0.1270	0		B	23S rRNA	G	2454	G	2455	*	C	2496	A	2497	C	2498		cWW	cWW		cSH
34	IL_3D0U_004	3D0U	0.1775	1	Major groove platform; stack outside cWW	A	Lysine Riboswitch RNA	G	51	G	52	*	C	35	A	36	C	38		cWW	cWW		cSH
35	IL_3OWZ_003	3OWZ	0.2095	0		A	Domain II of glycine riboswitch	G	35	G	36	*	C	68	U	69	C	70		cWW	cWW		cSH
36	IL_3OWZ_007	3OWZ	0.2005	0		B	Domain II of glycine riboswitch	G	35	G	36	*	C	68	U	69	C	70		cWW	cWW		cSH
37	IL_2QBG_025	2QBG	0.3166	0		B	23S rRNA	G	757	C	758	*	G	738	A	739	C	740		cWW	cWW		cSH
38	IL_3P49_010	3P49	0.3750	0		A	Glycine riboswitch	G	113	G	114	*	C	140	U	141	C	142		cWW	cWW		ncSH
39	IL_4A1B_108	4A1B	0.4931	0		1	26S RRNA	U	2850	G	2851	*	U	2814	U	2815	G	2816		cWW	cWW
40	IL_3P49_007	3P49	0.4181	0		A	Glycine riboswitch	G	38	A	39	*	U	49	U	50	C	51		ncWW	cWW		ncSH
41	IL_2QBG_044	2QBG	0.3317	1		B	23S rRNA	U	1101	C	1102	*	G	1087	A	1089	A	1090		cWW	cWW		ncSH
42	IL_3DIR_004	3DIR	0.2934	1		A	RNA (174-MER)	G	54	G	55	*	C	38	A	39	C	41		cWW	cWW
43	IL_1QA6_002	1QA6	0.3499	1		C	58 NUCLEOTIDE RIBOSOMAL RNA DOMAIN	U	151	C	152	*	G	137	A	139	A	140	ntHS	cWW	cWW		cSH
44	IL_1FJG_024	1FJG	0.2619	0	Major groove platform (H)	A	SSU rRNA	G	644	C	645	*	G	594	G	595	C	596	ntHS	cWW	cWW		ncSH
45	IL_1S72_061	1S72	0.4088	1		0	LSU rRNA	U	2034	C	2035	*	G	1744	G	1745	A	1747	tHS	cWW	cWW
46	IL_2QBG_064	2QBG	0.4516	1		B	23S rRNA	U	1993	C	1994	*	G	1666	G	1667	A	1669	tHS	cWW	cWW
47	IL_3V2F_063	3V2F	0.4474	1		A	23S Ribosomal RNA	U	1993	C	1994	*	G	1666	G	1667	A	1669	tHS	cWW	cWW
48	IL_3U5H_084	3U5H	0.4448	1		5	25S rRNA	U	2336	C	2337	*	G	1898	G	1899	A	1901	tHS	cWW	cWW
49	IL_4A1B_080	4A1B	0.4622	1		1	26S RRNA	U	2331	C	2332	*	G	1922	G	1923	A	1925	tHS	cWW	cWW
50	IL_1G1X_001	1G1X	0.3918	1	Major groove platform; stack outside cWW	D+E	16S RIBOSOMAL RNA	G	654	A	655	*	U	751	G	752	C	754	tHS	cWW	cWW		ncSH
51	IL_2AW7_034	2AW7	0.3829	1		A	16S ribosomal RNA	G	654	A	655	*	U	751	G	752	C	754	tHS	cWW	cWW
52	IL_1FJG_027	1FJG	0.3750	1	Major groove platform; stack outside cWW (H)	A	SSU rRNA	G	654	A	655	*	U	751	G	752	C	754	tHS	cWW	cWW		ncSH
53	IL_1F7Y_001	1F7Y	0.3923	1		B	16S RIBOSOMAL RNA FRAGMENT	G	18	A	19	*	U	50	G	51	C	53	tHS	cWW	cWW		ncSH
54	IL_2QBG_049	2QBG	0.4847	1		B	23S rRNA	A	1603	C	1604	*	G	1310	G	1311	U	1313	ntHS	cWW	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
UC*GGAA	5
GA*UGAC	4
UG*UGA	3
CG*UGG	3
CG*CAG	3
UC*GUA	3
GG*UAC	3
UG*UAA	3
GG*CAC	3
GG*CUC	3
GG*CCC	2
GG*UCC	2
UG*CAA	2
GG*CAUC	2
UC*GAAA	2
CG*UAG	1
UG*UAAA	1
GC*GUC	1
GA*UGU	1
GG*UUC	1
GA*UAC	1
GC*GAC	1
UG*UUG	1
GA*UUC	1
GC*GGC	1
AC*GGUU	1

Non-Watson-Crick part of the motif

Sequence	Counts
*A	17
*U	10
*GA	9
*G	8
*C	4
*AA	3
*AU	2
*GU	1

Release history

Release	1.1	1.2	1.3	1.4
Date	2013-04-08	2013-05-04	2013-06-01	2013-07-01
Status	Updated, 1 parent	Exact match	Exact match	Exact match

Parent motifs

Parent motif	Common motif instances	Only in IL_39199.3	Only in the parent motif
IL_39199.2 Compare	IL_2QBG_091, IL_3V2F_087, IL_1FJG_028, IL_1FJG_027, IL_3V2F_089, IL_3V2F_009, IL_2XZM_055, IL_2XZM_079, IL_1S72_061, IL_2AW7_031, IL_3NKB_002, IL_2AW7_034, IL_3U5H_108, IL_2QBG_001, IL_2QBG_025, IL_2QBG_044, IL_3D0U_004, IL_1G1X_002, IL_1G1X_001, IL_2QBG_049, IL_2QBG_064, IL_3U5H_084, IL_3P49_007, IL_4A1B_087, IL_4A1B_080, IL_1FJG_024, IL_3V2F_090, IL_1XJR_002, IL_2QBG_092, IL_2QBG_095, IL_3V2F_097, IL_3V2F_075, IL_4A1B_021, IL_4A1B_111, IL_1I6U_003, IL_4A1B_108, IL_4A1B_106, IL_3DIR_004, IL_2QBG_078, IL_1QA6_002, IL_3V2F_063, IL_1S03_008, IL_3Q1Q_001, IL_1F7Y_001, IL_3OWZ_007, IL_3P49_010, IL_3OWZ_003, IL_1S72_080, IL_3SUX_002	IL_4IOA_084, IL_4IOA_087, IL_4IOA_086, IL_4IOA_090, IL_4IOA_073	IL_2ZJR_083, IL_2ZJR_085, IL_2ZJR_086, IL_2ZJR_089, IL_2ZJR_062, IL_2ZJR_074

Children motifs

Child motif	Common motif instances	Only in IL_39199.3	Only in the child motif
IL_39199.4 Compare	IL_3V2F_090, IL_3P49_010, IL_3V2F_087, IL_1FJG_028, IL_4IOA_084, IL_1FJG_027, IL_3V2F_089, IL_3V2F_009, IL_1S72_080, IL_4IOA_073, IL_1S72_061, IL_2AW7_031, IL_3NKB_002, IL_2AW7_034, IL_3U5H_108, IL_2QBG_001, IL_2QBG_025, IL_2QBG_044, IL_3D0U_004, IL_1G1X_002, IL_1G1X_001, IL_2QBG_049, IL_2QBG_064, IL_3U5H_084, IL_3P49_007, IL_4A1B_087, IL_4A1B_080, IL_1FJG_024, IL_2QBG_091, IL_1XJR_002, IL_4IOA_087, IL_2QBG_092, IL_2QBG_095, IL_3V2F_097, IL_4IOA_086, IL_3V2F_075, IL_4A1B_021, IL_1I6U_003, IL_4A1B_108, IL_4A1B_106, IL_3DIR_004, IL_2QBG_078, IL_1QA6_002, IL_3V2F_063, IL_1S03_008, IL_3Q1Q_001, IL_1F7Y_001, IL_3OWZ_007, IL_4A1B_111, IL_3OWZ_003, IL_4IOA_090, IL_3SUX_002	IL_2XZM_055, IL_2XZM_079	IL_4BPP_077

Motif IL_39199.3 Version IL_39199.3 of this group appears in releases 1.1 to 1.4 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_39199.3 Version IL_39199.3 of this group appears in releases 1.1 to 1.4

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