IL_89505.3

#S	Loop id	PDB	Disc	Annotation	Chain(s)	Standardized name		1		2		3	break		4		5	1-3	1-5	3-4
1	IL_7A0S_079	7A0S	1.3810	Single bulged U	X	LSU rRNA	U	2197	U	2198	C	2199	*	G	2186	A	2187		cWW	cWW
2	IL_1S03_001	1S03	1.1764	Single bulged U	A	47-MER	A	6	U	7	G	8	*	C	41	U	42		cWW	cWW
3	IL_1S03_005	1S03	1.1859	Single bulged U	B	47-MER	A	6	U	7	G	8	*	C	41	U	42		cWW	cWW
4	IL_4C7O_001	4C7O	0.8817	Single bulged U	E	SRP RNA	G	38	U	39	A	40	*	U	7	C	8		cWW	cWW
5	IL_4KZD_001	4KZD	1.0116	Single bulged U	R	RNA (84-MER)	C	74	U	75	G	76	*	C	10	G	11		cWW	cWW
6	IL_3W3S_002	3W3S	1.0419	Single bulged U	B	Selenocysteine transfer RNA	G	43	U	43\|\|\|A	G	44	*	C	26	C	27		cWW	cWW
7	IL_1GID_012	1GID	0.9939	Single bulged U	B	P4-P6 RNA RIBOZYME DOMAIN	G	129	U	130	U	131	*	A	192	C	193		cWW	cWW
8	IL_4WF9_088	4WF9	0.9054	Single bulged U	X	LSU rRNA	U	2428	U	2429	C	2430	*	G	2441	G	2442		cWW	cWW
9	IL_3KTW_010	3KTW	0.8962	Single bulged U	C	SRP RNA	U	178	U	179	C	180	*	G	152	G	153	ncSH	cWW	ncWW
10	IL_8K85_005	8K85	1.0460		B+A	RNA (56-MER)	U	30	U	31	G	32	*	C	20	G	21		cWW	cWW
11	IL_8CRE_137	8CRE	0.8057	Single bulged U (H)	1	LSU rRNA	U	3346	U	3347	G	3348	*	C	3289	G	3290		cWW	cWW
12	IL_8P9A_358	8P9A	0.7043	Single bulged U	AR	LSU rRNA	U	3381	U	3382	G	3383	*	C	3324	G	3325		cWW	cWW
13	IL_7KKV_001	7KKV	0.6612	Single bulged U	B	OLE* RNA	U	497	U	498	U	499	*	A	506	G	507		cWW	cWW
14	IL_2R8S_004	2R8S	0.5939	Single bulged U	R	P4-P6 RNA RIBOZYME DOMAIN	G	129	U	130	U	131	*	A	192	C	193		cWW	cWW
15	IL_4O26_001	4O26	0.5848	Single bulged U	E	Telomerase TR	G	181	U	182	C	183	*	G	193	C	194		cWW	cWW
16	IL_2A64_003	2A64	0.5775	Single bulged U	A	ribonuclease P RNA	G	66	U	67	G	68	*	C	77	C	78		cWW	cWW
17	IL_6JQ6_006	6JQ6	0.5746	Single bulged U	U	RNA (81-MER)	A	38	U	39	C	40	*	G	55	U	56		cWW	cWW
18	IL_6JQ5_003	6JQ5	0.5555	Single bulged U	A	RNA (82-MER)	A	38	U	39	C	40	*	G	55	U	56		cWW	cWW
19	IL_6JQ5_006	6JQ5	0.5631	Single bulged U	B	RNA (82-MER)	A	38	U	39	C	40	*	G	55	U	56		cWW	cWW
20	IL_5J7L_331	5J7L	0.5993	Single bulged U	DA	LSU rRNA	U	2202	U	2203	G	2204	*	U	2220	G	2221		cWW	cWW
21	IL_3TZR_002	3TZR	0.5038	Single bulged U	B+A	RNA (16-mer)	G	105	U	106	G	107	*	U	61	C	62		cWW	cWW
22	IL_8K85_008	8K85	0.6977		A+B	RNA (56-MER)	U	30	U	31	G	32	*	C	20	G	21		cWW	cWW
23	IL_8P9A_253	8P9A	0.7763	Single bulged U	AR	LSU rRNA	A	775	U	776	U	777	*	A	755	U	756		cWW	cWW
24	IL_8CRE_027	8CRE	0.7778	Single bulged U (H)	1	LSU rRNA	A	771	U	772	U	773	*	A	751	U	752		cWW	cWW
25	IL_5J7L_334	5J7L	0.8719	Single bulged U	DA	LSU rRNA	U	2401	U	2402	C	2403	*	G	2414	G	2415		cWW	cWW
26	IL_8P9A_314	8P9A	0.7043	Single bulged U	AR	LSU rRNA	C	2204	U	2205	G	2206	*	C	2237	G	2238		cWW	cWW
27	IL_6MWN_006	6MWN	0.6714	Single bulged U	B	IRES	U	659	U	660	C	661	*	G	646	A	647		cWW	cWW
28	IL_4WF9_030	4WF9	0.7260	Single bulged U	X	LSU rRNA	A	969	U	970	U	971	*	A	897	U	898		cWW	cWW
29	IL_2ZY6_002	2ZY6	0.8442	Single bulged U	A	phenylalanyl transfer RNA	G	10	U	11	G	12	*	C	24	C	25		cWW	cWW
30	IL_8TQX_002	8TQX	0.7891	Single bulged U	A+D	Zika virus stem-loop A (SLA) bottom stem	G	14	U	15	A	16	*	U	4	C	5		cWW	cWW
31	IL_2UWM_003	2UWM	0.8209	Single bulged U	D	RNA (23-mer)	C	25	U	26	G	27	*	C	21	G	22		cWW	cWW
32	IL_8CRE_068	8CRE	0.6354	Single bulged U (H)	1	LSU rRNA	G	1556	U	1557	G	1558	*	C	1573	C	1574		cWW	cWW
33	IL_6M0X_002	6M0X	0.7559	Single bulged U	B	RNA (71-MER)	A	59	U	60	G	61	*	C	55	U	56		cWW	cWW
34	IL_6JDV_003	6JDV	0.8397	Single bulged U	B	sgRNA	G	95	U	96	G	97	*	C	81	C	82		cWW	cWW
35	IL_6UFG_004	6UFG	0.5625	Single bulged U	A	RNA (166-MER)	U	138	U	139	C	140	*	G	153	G	154		cWW	cWW
36	IL_6UFH_004	6UFH	0.4692	Single bulged U	A	RNA (167-MER)	U	139	U	140	C	141	*	G	154	G	155		cWW	cWW
37	IL_2A64_002	2A64	0.3942	Single bulged U	A	ribonuclease P RNA	G	51	U	52	C	53	*	G	395	C	396		cWW	cWW
38	IL_6LT7_001	6LT7	0.3330	Single bulged U	C	50-mer RNA	G	46	U	47	U	48	*	A	41	C	42		cWW	cWW
39	IL_8P9A_372	8P9A	0.3088	Single bulged U	AT	5.8S rRNA	A	89	U	90	C	91	*	G	68	U	69		cWW	cWW
40	IL_8TQX_001	8TQX	0.4840	Single bulged U	D+A	Zika virus stem-loop A (SLA) bottom stem	G	14	U	15	A	16	*	U	4	C	5		cWW	cWW
41	IL_3CUL_007	3CUL	0.6076	Single bulged U	C	RNA (92-MER)	U	17	U	18	C	19	*	GTP	1	G	2		cWW	cWW
42	IL_8CRE_140	8CRE	0.4975	Single bulged U (H)	1	LSU rRNA	G	3305	U	3306	A	3307	*	U	3328	C	3329		cWW	cWW
43	IL_8P9A_361	8P9A	0.5485	Single bulged U	AR	LSU rRNA	G	3340	U	3341	A	3342	*	U	3363	C	3364		cWW	cWW
44	IL_3WBM_001	3WBM	0.5151	Single bulged U	X+Y	RNA (25-MER)	G	2	U	3	A	4	*	U	23	C	24		cWW	cWW
45	IL_7KVT_002	7KVT	0.3635	Single bulged U	B	Squash RNA aptamer bound to DFHBI-1T with iridium (III) ions	G	50	U	51	A	52	*	U	66	C	67		cWW	cWW
46	IL_3NDB_005	3NDB	0.5580	Single bulged U	M	SRP RNA	C	139	U	140	C	141	*	G	237	G	238		cWW	cWW
47	IL_8CRE_003	8CRE	0.4066	Single bulged U (H)	1+4	LSU rRNA + 5.8S rRNA	A	12	U	13	C	14	*	G	144	U	145		cWW	cWW
48	IL_8P9A_232	8P9A	0.4125	Single bulged U	AR+AT	LSU rRNA + 5.8S rRNA	A	13	U	14	C	15	*	G	144	U	145		cWW	cWW
49	IL_8F5G_001	8F5G	0.4718	Single bulged U	D	RNA	A	5	U	6	C	7	*	G	21	U	22		cWW	cWW
50	IL_4FRG_002	4FRG	0.5025	Single bulged U	B	cobalamin riboswitch aptamer domain	G	23	U	24	G	25	*	C	39	C	40		cWW	cWW
51	IL_8P9A_427	8P9A	0.3810	Single bulged U	sR	SSU rRNA	G	1051	U	1052	G	1053	*	C	1066	C	1067		cWW	cWW
52	IL_9DFE_080	9DFE	0.3392	Single bulged U	1A	LSU rRNA	G	2067	U	2068	G	2069	*	C	2442	C	2443		cWW	cWW
53	IL_5J7L_388	5J7L	0.4034	Single bulged U	DA	LSU rRNA	G	2067	U	2068	G7M	2069	*	C	2442	C	2443		cWW	cWW
54	IL_7A0S_075	7A0S	0.4039	Single bulged U	X	LSU rRNA	G	2050	U	2051	G	2052	*	C	2421	C	2422		cWW	cWW
55	IL_4WF9_080	4WF9	0.4172	Single bulged U	X	LSU rRNA	G	2094	U	2095	G	2096	*	C	2469	C	2470		cWW	cWW
56	IL_4V9F_074	4V9F	0.4451	Single bulged U	0	LSU rRNA	A	2108	U	2109	G	2110	*	C	2477	U	2478		cWW	cWW
57	IL_8P9A_321	8P9A	0.3375	Single bulged U	AR	LSU rRNA	G	2409	U	2410	U	2411	*	A	2811	C	2812		cWW	cWW
58	IL_8CRE_098	8CRE	0.3306	Single bulged U (H)	1	LSU rRNA	G	2387	U	2388	U	2389	*	A	2783	C	2784		cWW	cWW
59	IL_2PJP_001	2PJP	0.4747	Single bulged U	B	SECIS RNA	G	16	U	17	U	18	*	A	29	C	30		cWW	cWW
60	IL_2OIU_003	2OIU	0.4506	Single bulged U	Q	L1 Ribozyme RNA Ligase	G	18	U	19	U	20	*	A	41	C	42		cWW	cWW
61	IL_6CZR_126	6CZR	0.4082	Single bulged U	1a	SSU rRNA	U	363	U	364	C	365	*	G	388	A	389		cWW	cWW
62	IL_5J7L_017	5J7L	0.3645	Single bulged U	AA	SSU rRNA	U	367	U	368	G	369	*	C	392	A	393		cWW	cWW
63	IL_3D2V_001	3D2V	0.4008	Single bulged U	A	TPP riboswitch (THI element)	G	73	U	74	G	75	*	C	5	C	6		cWW	cWW
64	IL_4LFB_014	4LFB	0.3922	Single bulged U	A	SSU rRNA	U	367	U	368	C	369	*	G	392	A	393		cWW	cWW
65	IL_8P9A_396	8P9A	0.3660	Single bulged U	sR	SSU rRNA	U	439	U	440	A	441	*	U	463	A	464		cWW	cWW
66	IL_8CRE_413	8CRE	0.3720	Single bulged U (H)	CM	SSU rRNA	U	437	U	438	A	439	*	U	461	A	462		cWW	cWW
67	IL_7PMM_002	7PMM	0.6925	Single bulged U	D	RNA (45mer) containing HP92 of the 23S rRNA	A	15	U	16	A	17	*	U	31	U	32		cWW	cWW
68	IL_7PMQ_002	7PMQ	0.5450	Single bulged U	F	RNA (42-MER)	A	24	U	25	A	26	*	U	40	U	41		cWW	cWW
69	IL_4V9F_107	4V9F	0.4227	Single bulged U	9	5S rRNA	G	86	U	87	G	88	*	C	95	C	96		cWW	cWW
70	IL_4LFB_042	4LFB	0.5109	Single bulged U	A	SSU rRNA	G	1048	U	1049	G	1050	*	C	1208	C	1209		cWW	cWW
71	IL_5J7L_046	5J7L	0.4729	Single bulged U	AA	SSU rRNA	G	1048	U	1049	G	1050	*	C	1208	C	1209		cWW	cWW
72	IL_8P9A_437	8P9A	0.4902	Single bulged U	sR	SSU rRNA	G	1268	U	1269	G	1270	*	C	1440	C	1441		cWW	cWW
73	IL_8CRE_451	8CRE	0.4759	Single bulged U (H)	CM	SSU rRNA	G	1253	U	1254	G	1255	*	C	1426	C	1427		cWW	cWW
74	IL_3MEI_001	3MEI	0.3871	Single bulged U	B+A	RNA (23-mer)	C	15	U	16	G	17	*	C	7	G	8		cWW	cWW
75	IL_7VTI_004	7VTI	0.3909	Single bulged U	B	crRNA	G	21	U	22	G	23	*	C	14	C	15		cWW	cWW
76	IL_8P9A_281	8P9A	0.3666	Single bulged U	AR	LSU rRNA	G	1207	U	1208	G	1209	*	C	1296	C	1297		cWW	cWW
77	IL_8CRE_056	8CRE	0.3343	Single bulged U (H)	1	LSU rRNA	G	1203	U	1204	G	1205	*	C	1292	C	1293		cWW	cWW
78	IL_2PN3_003	2PN3	0.4951	Single bulged U	B+A	RNA (20-mer)	G	105	U	106	G	107	*	U	61	C	62		cWW	cWW
79	IL_8P9A_403	8P9A	0.2369	Single bulged U	sR	SSU rRNA	G	557	U	558	C	559	*	G	586	C	587		cWW	cWW
80	IL_8CRE_422	8CRE	0.0000	Single bulged U (H)	CM	SSU rRNA	G	555	U	556	C	557	*	G	584	C	585		cWW	cWW
81	IL_4LFB_046	4LFB	0.4988	Single bulged U	A	SSU rRNA	C	1195	U	1196	G	1197	*	C	1060	G	1061		cWW	cWW
82	IL_6CZR_156	6CZR	0.4989	Single bulged U	1a	SSU rRNA	C	1177	U	1178	G	1179	*	C	1043	G	1044		cWW	cWW
83	IL_8P9A_458	8P9A	0.6060	Single bulged U	sR	SSU rRNA	U	1656	U	1657	G	1658	*	U	1743	A	1744		cWW	cWW
84	IL_8CRE_472	8CRE	0.6053	Single bulged U (H)	CM	SSU rRNA	U	1643	U	1644	G	1645	*	U	1730	A	1731		cWW	cWW
85	IL_8P9A_357	8P9A	0.4986	Single bulged U	AR	LSU rRNA	G	3318	U	3319	A	3320	*	U	3387	C	3388		cWW	cWW
86	IL_5J7L_298	5J7L	0.4976	Single bulged U	DA	LSU rRNA	G	1459	U	1460	C	1461	*	G	1450	C	1451		cWW	cWW
87	IL_8CRE_136	8CRE	0.5083	Single bulged U (H)	1	LSU rRNA	G	3283	U	3284	A	3285	*	U	3352	C	3353		cWW	cWW
88	IL_8VMA_002	8VMA	0.7185	Single bulged U	C	RNA (88-MER)	G	40	U	41	G	42	*	C	36	C	37		cWW	cWW
89	IL_8VMB_001	8VMB	0.5664	Single bulged U	R	RNA (83-MER)	G	40	U	41	G	42	*	C	36	C	37		cWW	cWW
90	IL_4WF9_038	4WF9	0.4744	Single bulged U	X	LSU rRNA	A	1055	U	1056	A	1057	*	U	1193	U	1194		cWW	cWW
91	IL_5J7L_279	5J7L	0.4209	Single bulged U	DA	LSU rRNA	G	1011	U	1012	C	1013	*	G	1149	C	1150		cWW	cWW
92	IL_9DFE_037	9DFE	0.3870	Single bulged U	1A	LSU rRNA	G	1011	U	1012	C	1013	*	G	1149	C	1150		cWW	cWW
93	IL_8CRE_053	8CRE	0.3968	Single bulged U (H)	1	LSU rRNA	A	1176	U	1177	G	1178	*	C	1320	U	1321		cWW	cWW
94	IL_4V9F_039	4V9F	0.3932	Single bulged U	0	LSU rRNA	G	1108	U	1109	G	1110	*	C	1253	C	1254		cWW	cWW
95	IL_8P9A_278	8P9A	0.5351	Single bulged U	AR	LSU rRNA	A	1180	U	1181	A	1182	*	U	1324	U	1325		cWW	cWW
96	IL_7A0S_035	7A0S	0.6025	Single bulged U	X	LSU rRNA	A	1022	U	1023	G	1024	*	C	1160	U	1161		cWW	cWW
97	IL_3SNP_004	3SNP	0.6199	Single bulged U	D	ferritin H IRE RNA	G	18	U	19	U	20	*	A	13	C	14		cWW	cWW
98	IL_8KAL_003	8KAL	0.7233	Single bulged U	A	tracrRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	ncWW
99	IL_8KAJ_003	8KAJ	0.7723		I	tracrRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	cWW
100	IL_5VW1_002	5VW1	0.7506	Single bulged U	C	tracrRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	cWW
101	IL_4ZT0_004	4ZT0	0.7292	Single bulged U	D	tracrRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	cWW
102	IL_7QR8_002	7QR8	0.7298	Single bulged U	A	PTPRC sgRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	cWW
103	IL_7Z4D_002	7Z4D	0.7293	Single bulged U	A	sgRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	cWW
104	IL_7QQP_002	7QQP	0.7283	Single bulged U	A	AAVS1 sgRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	cWW
105	IL_7ZO1_002	7ZO1	0.7464	Single bulged U	A	CD34 sgRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	cWW
106	IL_7QQX_002	7QQX	0.7309	Single bulged U	A	FANCF sgRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	cWW
107	IL_7QR0_002	7QR0	0.7352	Single bulged U	A	TRAC sgRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	cWW
108	IL_5B2T_002	5B2T	0.7338	Single bulged U	A	tracrRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	cWW
109	IL_5FQ5_002	5FQ5	0.7275	Single bulged U	A	SGRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	cWW
110	IL_6K4Q_002	6K4Q	0.7509		A	tracrRNA	G	58	U	59	C	60	*	G	54	C	55		cWW	cWW
111	IL_5F9R_003	5F9R	0.7944	Single bulged U	A	tracrRNA	G	76	U	77	C	78	*	G	72	C	73		cWW	cWW
112	IL_8CRE_407	8CRE	0.7694	Single bulged U (H)	CM	SSU rRNA	G	277	U	278	G	279	*	C	273	C	274		cWW	cWW
113	IL_8P9A_390	8P9A	0.9863	Single bulged U	sR	SSU rRNA	G	279	U	280	G	281	*	C	275	C	276		cWW	cWW
114	IL_8P9A_260	8P9A	0.6476	Single bulged U	AR	LSU rRNA	C	873	U	874	G	875	*	C	886	G	887		cWW	cWW
115	IL_8CRE_035	8CRE	0.6460	Single bulged U (H)	1	LSU rRNA	C	869	U	870	G	871	*	C	882	G	883		cWW	cWW
116	IL_4V9F_029	4V9F	0.6195	Single bulged U	0	LSU rRNA	G	834	U	835	G	836	*	C	847	C	848		cWW	cWW
117	IL_8CRE_013	8CRE	0.6303	Single bulged U (H)	1	LSU rRNA	G	188	U	189	U	190	*	A	203	C	204		cWW	cWW
118	IL_8P9A_241	8P9A	0.6281	Single bulged U	AR	LSU rRNA	G	189	U	190	U	191	*	A	204	C	205		cWW	cWW
119	IL_4V9F_013	4V9F	0.5809	Single bulged U	0	LSU rRNA	G	307	U	308	C	309	*	G	322	C	323		cWW	cWW
120	IL_1ET4_002	1ET4	1.0128	Major groove intercalation	A	RNA APTAMER, 35-MER	G	226	U	227	G	228	*	C	218	C	219		cWW	cWW
121	IL_5LYS_008	5LYS	1.2329	Single bulged U	B	7SK RNA	C	62	U	63	G	64	*	C	45	G	46		cWW	cWW
122	IL_3MXH_003	3MXH	1.4576	Major groove intercalation	R	c-di-GMP riboswitch	C	52	U	53	C	54	*	G	86	G	87		cWW	cWW
123	IL_3IWN_003	3IWN	1.4555	Major groove intercalation	A	C-di-GMP riboswitch	C	42	U	43	C	44	*	G	81	G	82		cWW	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
GUG*CC	26
GUC*GC	22
GUU*AC	10
GUA*UC	9
CUG*CG	9
AUC*GU	7
AUG*CU	6
UUC*GG	5
UUC*GA	4
UUG*CG	4
AUA*UU	4
AUU*AU	3
CUC*GG	3
GUG*UC	2
UUA*UA	2
UUG*UA	2
UUU*AG	1
UUG*UG	1
UUC*(GTP)G	1
GU(G7M)*CC	1
UUG*CA	1

Non-Watson-Crick part of the motif

Sequence	Counts
U*	123

Release history

Release	3.95
Date	2025-03-26
Status	Updated, 1 parent

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Motif IL_89505.3 Version IL_89505.3 of this group appears in releases 3.95 to 3.95 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_89505.3 Version IL_89505.3 of this group appears in releases 3.95 to 3.95

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Csv

Json