Motif IL_11156.2 Version IL_11156.2 of this group appears in releases 3.3 to 3.7

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2	break		3		4		5	1-4	1-5	2-3
1	IL_4V8P_175	4V8P	0.5417	0		D1	LSU rRNA	U	511	G	512	*	U	466	A	467	A	468		cWW	cWW
2	IL_5TBW_081	5TBW	0.5282	0	Single stack bend	1	LSU rRNA	C	2094	G	2095	*	C	1951	G	1952	G	1953		cWW	cWW
3	IL_4Y4O_266	4Y4O	0.4562	0		2A	LSU rRNA	A	2453	G	2454	*	C	2498	C	2499	U	2500		cWW	cWW
4	IL_4IOA_085	4IOA	0.4161	0		X	LSU rRNA	A	2432	G	2433	*	C	2477	C	2478	U	2479		cWW	cWW
5	IL_4WF9_089	4WF9	0.3645	0	Single stack bend	X	LSU rRNA	A	2480	G	2481	*	C	2525	C	2526	U	2527		cWW	cWW
6	IL_5TBW_035	5TBW	0.4072	0	Single stack bend	1	LSU rRNA	C	969	A	970	*	U	1111	A	1112	G	1113		cWW	cWW
7	IL_4V8P_199	4V8P	0.4023	0	Single stack bend (H)	D1	LSU rRNA	C	994	A	995	*	U	1138	A	1139	G	1140		cWW	cWW
8	IL_5J7L_266	5J7L	0.1750	0	Single stack bend	DA	LSU rRNA	C	837	C	838	*	G	940	A	941	G	942		ncWW	cWW
9	IL_4Y4O_201	4Y4O	0.1810	0	Single stack bend (H)	2A	LSU rRNA	C	837	C	838	*	G	940	A	941	G	942		cWW	cWW
10	IL_4WF9_028	4WF9	0.2323	0	Single stack bend	X	LSU rRNA	C	882	C	883	*	G	984	A	985	G	986		cWW	cWW
11	IL_4IOA_021	4IOA	0.1947	0	Single stack bend (H)	X	LSU rRNA	C	850	C	851	*	G	951	A	952	G	953		cWW	cWW
12	IL_4V8P_158	4V8P	0.1419	0	Single stack bend (H)	D1	LSU rRNA	C	25	C	26	*	G	54	A	55	G	56		cWW	cWW
13	IL_5TBW_004	5TBW	0.1920	0	Single stack bend	1	LSU rRNA	C	27	C	28	*	G	56	A	57	G	58		cWW	cWW
14	IL_4V9F_005	4V9F	0.2110	0	Single stack bend	0	LSU rRNA	C	153	C	154	*	G	182	A	183	G	184		cWW	cWW
15	IL_4WF9_007	4WF9	0.1289	0	Single stack bend	X	LSU rRNA	C	186	C	187	*	G	215	A	216	G	217		cWW	cWW
16	IL_4Y4O_183	4Y4O	0.1205	0	Single stack bend (H)	2A	LSU rRNA	C	183	C	184	*	G	212	A	213	G	214		cWW	cWW
17	IL_4IOA_005	4IOA	0.0000	0	Single stack bend (H)	X	LSU rRNA	C	160	U	161	*	A	189	A	190	G	191		cWW	cWW
18	IL_5J7L_249	5J7L	0.1978	0	Single stack bend	DA	LSU rRNA	C	183	C	184	*	G	212	A	213	G	214		cWW	cWW
19	IL_5TBW_009	5TBW	0.2752	0	Single stack bend	1	LSU rRNA	U	257	G	258	*	C	163	A	164	A	165		cWW	cWW
20	IL_5TBW_375	5TBW	0.3042	0	Single stack bend	AS	5S rRNA	C	29	G	30	*	C	47	U	48	G	49		cWW	cWW
21	IL_5J7L_269	5J7L	0.3791	0	Single stack bend	DA	LSU rRNA	U	850	C	851	*	G	926	A	927	A	928		cWW	cWW
22	IL_5J7L_044	5J7L	0.3734	0	Single stack bend	AA	SSU rRNA	C	998	C	999	*	G	1041	A	1042	G	1043		cWW	cWW
23	IL_4IOA_056	4IOA	0.2810	0	Single stack bend (H)	X	LSU rRNA	C	1477	U	1478	*	A	1463	A	1464	G	1465	ncWW	cWW	cWW
24	IL_4V9F_081	4V9F	0.2417	0	Single stack bend	0	LSU rRNA	C	2454	A	2455	*	U	2436	A	2437	G	2438		cWW	cWW
25	IL_5J7L_032	5J7L	0.2973	0	Single stack bend	AA	SSU rRNA	C	658	U	659	*	A	746	A	747	G	748		cWW	cWW
26	IL_4LFB_041	4LFB	0.4135	0	Single stack bend	A	SSU rRNA	C	1038	C	1039	*	G	1002	G	1003	G	1003\|\|\|A		cWW	cWW
27	IL_4V8P_231	4V8P	0.3899	0		D1	LSU rRNA	C	1694	A	1695	*	U	1802	U	1803	G	1804		cWW	cWW
28	IL_4V83_236	4V83	0.3965	0	Single stack bend	CV	domain 3 of PSIC IGR IRES RNA	U	6172	G	6173	*	C	6155	A	6156	A	6157		cWW	cWW
29	IL_4IOA_046	4IOA	0.4993	1	Intercalated cWW (H)	X	LSU rRNA	U	1232	C	1234	*	G	1241	A	1242	G	1243		cWW	cWW
30	IL_4WF9_047	4WF9	0.3221	1	Intercalated cWW	X	LSU rRNA	G	1257	U	1259	*	G	1266	A	1267	C	1268		cWW	cWW
31	IL_2ET8_001	2ET8	0.3770	1	Stack and bulge	A+B	RNA (22-mer)	G	4	C	6	*	G	41	U	42	C	43		cWW	cWW
32	IL_2O3X_001	2O3X	0.3613	1	Stack and bulge	A+B	RNA (23-mer)	G	5	C	7	*	G	42	U	43	C	44		cWW	cWW
33	IL_5VCI_005	5VCI	0.4731	0	Not an internal loop	A+B	RNA (22-mer) + RNA (12-mer)	G	22	C	1	*	G	13	C	14	C	15		cWW	cWW
34	IL_2QWY_008	2QWY	0.5987	0	Single stack bend	C	SAM-II riboswitch	U	21	G	22	*	C	43	U	44	A	45		cWW	cWW
35	IL_3MOJ_004	3MOJ	0.5173	0	Single stack bend	A	LSU rRNA	U	2522	G	2523	*	C	2540	A	2541	A	2542		cWW	cWW
36	IL_4V8P_166	4V8P	0.5248	0		D1	LSU rRNA	U	245	G	246	*	U	173	A	174	A	175		ncWW	cWW
37	IL_3T4B_001	3T4B	0.5196	1		A	HCV IRES pseudoknot domain plus crystallization module	G	135	G	137	*	U	287	A	288	C	289		cWW	cWW
38	IL_2O3X_003	2O3X	0.5754	2	Decoding loop related	A+B	RNA (23-mer)	G	16	G	19	*	C	30	A	31	C	32		cWW	cWW
39	IL_1ZX7_005	1ZX7	0.5047	2	Decoding loop related	E+F	RNA (15-mer) + RNA (14-mer)	G	7	G	10	*	C	26	A	27	C	28		cWW	cWW
40	IL_1ZX7_003	1ZX7	0.5867	2	Decoding loop related	C+D	RNA (15-mer) + RNA (14-mer)	G	7	G	10	*	C	26	A	27	C	28		cWW	cWW
41	IL_1T0E_001	1T0E	0.6309	2	Decoding loop related	A+C	RNA (18-mer) + RNA (17-mer)	G	7	G	10\|\|A	*	C	16	A	17	C	18		cWW	cWW
42	IL_4ZC7_003	4ZC7	0.7474	2	Decoding loop related	A+B	RNA duplex	A	16	G	19	*	C	30	G	31	U	32		ncWW	cWW
43	IL_1ZZ5_001	1ZZ5	0.7648	2	Decoding loop related	A+B	RNA (15-mer) + RNA (14-mer)	G	7	G	10	*	C	26	A	27	C	28		cWW	cWW
44	IL_1ZZ5_003	1ZZ5	0.7895	2	Decoding loop related	C+D	RNA (15-mer) + RNA (14-mer)	G	7	G	10	*	C	26	A	27	C	28		cWW	cWW
45	IL_2PWT_003	2PWT	0.7563	2		A+B	22-mer of the ribosomal decoding site	G	15	G	18	*	C	28	A	29	C	30		cWW	cWW
46	IL_2PWT_002	2PWT	0.7632	2		B+A	22-mer of the ribosomal decoding site	G	37	G	40	*	C	6	A	7	C	8		cWW	cWW
47	IL_3C3Z_002	3C3Z	0.7570	2	Decoding loop related	A+B	HIV-1 subtype F genomic RNA	G	7	G	10	*	C	15	A	16	C	17		cWW	cWW
48	IL_3C3Z_003	3C3Z	0.7337	2	Decoding loop related	B+A	HIV-1 subtype F genomic RNA	G	7	G	10	*	C	15	A	16	C	17		cWW	cWW
49	IL_2O3X_002	2O3X	0.7253	2	Decoding loop related	B+A	RNA (23-mer)	G	39	G	42	*	C	7	A	8	C	9		cWW	cWW
50	IL_2ET8_002	2ET8	0.7154	2	Decoding loop related	B+A	RNA (22-mer)	G	38	G	41	*	C	6	A	7	C	8		cWW	cWW
51	IL_4IOA_102	4IOA	0.7491	2	Decoding loop related (H)	X	LSU rRNA	G	2846	C	2849	*	G	2818	G	2819	C	2820		cWW	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CC*GAG	11
GAAG*CAC	11
AG*CCU	3
CA*UAG	3
CU*AAG	3
UG*CAA	3
UG*UAA	2
GUC*GUC	2
CG*CGG	1
CG*CUG	1
UC*GAA	1
CC*GGG	1
CA*UUG	1
UAC*GAG	1
GAU*GAC	1
GC*GCC	1
UG*CUA	1
GAG*UAC	1
CAC*GAAG	1
AAAG*CGU	1
GGAC*GGC	1

Non-Watson-Crick part of the motif

Sequence	Counts
*A	23
AA*A	11
*C	4
*U	3
A*A	3
*G	2
U*U	2
A*AA	1
AA*G	1
GA*G	1

Release history

Release	3.3	3.4	3.5	3.6	3.7
Date	2018-03-08	2018-04-06	2018-05-04	2018-06-01	2018-06-29
Status	Updated, 1 parent	Exact match	Exact match	Exact match	Exact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: Single stack bend (19)
Decoding loop related (11)
(8)
Single stack bend (H) (7)
Stack and bulge (2)
Intercalated cWW (H) (1)
Decoding loop related (H) (1)
Intercalated cWW (1)
Not an internal loop (1)
Basepair signature: cWW-R-cWW
Heat map statistics: Min 0.06 | Avg 0.53 | Max 0.98

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