Motif IL_83039.13 Version IL_83039.13 of this group appears in releases 3.80 to 3.81

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	Annotation	Chain(s)	Standardized name		1		2		3	break		4		5	1-5	3-4
1	IL_7A0S_079	7A0S	1.3508	Single bulged U	X	LSU rRNA	U	2197	U	2198	C	2199	*	G	2186	A	2187	cWW	cWW
2	IL_1S03_005	1S03	1.2010	Single bulged U	B	47-MER	A	6	U	7	G	8	*	C	41	U	42	cWW	cWW
3	IL_1S03_001	1S03	1.2223	Single bulged U	A	47-MER	A	6	U	7	G	8	*	C	41	U	42	cWW	cWW
4	IL_4C7O_001	4C7O	1.0264	Single bulged U	E	SRP RNA	G	38	U	39	A	40	*	U	7	C	8	cWW	cWW
5	IL_4KZD_001	4KZD	1.0450	Single bulged U	R	RNA (84-MER)	C	74	U	75	G	76	*	C	10	G	11	cWW	cWW
6	IL_3W3S_002	3W3S	1.0189	Single bulged U	B	Selenocysteine transfer RNA	G	43	U	43\|\|\|A	G	44	*	C	26	C	27	cWW	cWW
7	IL_4WF9_088	4WF9	0.7897	Single bulged U	X	LSU rRNA	U	2428	U	2429	C	2430	*	G	2441	G	2442	cWW	cWW
8	IL_5J7L_334	5J7L	0.6948	Single bulged U	DA	LSU rRNA	U	2401	U	2402	C	2403	*	G	2414	G	2415	cWW	cWW
9	IL_5TBW_086	5TBW	0.7094	Single bulged U	1	LSU rRNA	C	2204	U	2205	G	2206	*	C	2237	G	2238	cWW	cWW
10	IL_5TBW_025	5TBW	0.6601	Single bulged U	1	LSU rRNA	A	775	U	776	U	777	*	A	755	U	756	cWW	cWW
11	IL_8C3A_027	8C3A	0.6556	Single bulged U	1	LSU rRNA	A	771	U	772	U	773	*	A	751	U	752	cWW	cWW
12	IL_5TBW_134	5TBW	0.4791	Single bulged U	1	LSU rRNA	G	3340	U	3341	A	3342	*	U	3363	C	3364	cWW	cWW
13	IL_3TZR_002	3TZR	0.5089	Single bulged U	B+A	RNA (16-mer)	G	105	U	106	G	107	*	U	61	C	62	cWW	cWW
14	IL_2A64_003	2A64	0.6884	Single bulged U	A	ribonuclease P RNA	G	66	U	67	G	68	*	C	77	C	78	cWW	cWW
15	IL_4O26_001	4O26	0.6707	Single bulged U	E	Telomerase TR	G	181	U	182	C	183	*	G	193	C	194	cWW	cWW
16	IL_5J7L_331	5J7L	0.6268	Single bulged U	DA	LSU rRNA	U	2202	U	2203	G	2204	*	U	2220	G	2221	cWW	cWW
17	IL_6JQ5_006	6JQ5	0.6750	Single bulged U	B	Hatchet ribozyme	A	38	U	39	C	40	*	G	55	U	56	cWW	cWW
18	IL_6JQ5_003	6JQ5	0.6615	Single bulged U	A	Hatchet ribozyme	A	38	U	39	C	40	*	G	55	U	56	cWW	cWW
19	IL_6JQ6_006	6JQ6	0.6650	Single bulged U	U	Hatchet ribozyme	A	38	U	39	C	40	*	G	55	U	56	cWW	cWW
20	IL_8C3A_137	8C3A	0.7505	Single bulged U	1	LSU rRNA	U	3346	U	3347	G	3348	*	C	3289	G	3290	cWW	cWW
21	IL_5TBW_131	5TBW	0.5534	Single bulged U	1	LSU rRNA	U	3381	U	3382	G	3383	*	C	3324	G	3325	cWW	cWW
22	IL_7KKV_001	7KKV	0.5095	Single bulged U	B	OLE* RNA	U	497	U	498	U	499	*	A	506	G	507	cWW	cWW
23	IL_2R8S_004	2R8S	0.4822	Single bulged U	R	P4-P6 RNA RIBOZYME DOMAIN	G	129	U	130	U	131	*	A	192	C	193	cWW	cWW
24	IL_6MWN_006	6MWN	0.5619	Single bulged U	B	IRES	U	659	U	660	C	661	*	G	646	A	647	cWW	cWW
25	IL_2ZY6_002	2ZY6	0.6465	Single bulged U	A	phenylalanyl transfer RNA	G	10	U	11	G	12	*	C	24	C	25	cWW	cWW
26	IL_4WF9_030	4WF9	0.6702	Single bulged U	X	LSU rRNA	A	969	U	970	U	971	*	A	897	U	898	cWW	cWW
27	IL_2UWM_003	2UWM	0.8138	Single bulged U	D	RNA (23-mer)	C	25	U	26	G	27	*	C	21	G	22	cWW	cWW
28	IL_7RQB_008	7RQB	0.8290	Single bulged U	1A	LSU rRNA	G	271\|\|\|M	U	271\|\|\|N	C	271\|\|\|O	*	G	271\|\|\|I	C	271\|\|\|J	ncWW	cWW
29	IL_5J7L_298	5J7L	0.7760	Single bulged U	DA	LSU rRNA	G	1459	U	1460	C	1461	*	G	1450	C	1451	cWW	cWW
30	IL_5TBW_125	5TBW	0.8046	Single bulged U	1	LSU rRNA	G	3197	U	3198	G	3199	*	C	3193	C	3194	cWW	cWW
31	IL_8C3A_136	8C3A	0.7770	Single bulged U	1	LSU rRNA	G	3283	U	3284	A	3285	*	U	3352	C	3353	cWW	cWW
32	IL_5TBW_130	5TBW	0.6700	Single bulged U	1	LSU rRNA	G	3318	U	3319	A	3320	*	U	3387	C	3388	ncWW	cWW
33	IL_4WF9_038	4WF9	0.7265	Single bulged U	X	LSU rRNA	A	1055	U	1056	A	1057	*	U	1193	U	1194	cWW	cWW
34	IL_5J7L_279	5J7L	0.7084	Single bulged U	DA	LSU rRNA	G	1011	U	1012	C	1013	*	G	1149	C	1150	cWW	cWW
35	IL_7RQB_038	7RQB	0.7254	Single bulged U	1A	LSU rRNA	G	1011	U	1012	C	1013	*	G	1149	C	1150	cWW	cWW
36	IL_8C3A_053	8C3A	0.7481	Single bulged U	1	LSU rRNA	A	1176	U	1177	G	1178	*	C	1320	U	1321	cWW	cWW
37	IL_4V9F_039	4V9F	0.6921	Single bulged U	0	LSU rRNA	G	1108	U	1109	G	1110	*	C	1253	C	1254	cWW	cWW
38	IL_5TBW_050	5TBW	0.8286	Single bulged U	1	LSU rRNA	A	1180	U	1181	A	1182	*	U	1324	U	1325	cWW	cWW
39	IL_7A0S_035	7A0S	0.8993	Single bulged U	X	LSU rRNA	A	1022	U	1023	G	1024	*	C	1160	U	1161	cWW	cWW
40	IL_8C3A_068	8C3A	0.8280	Single bulged U	1	LSU rRNA	G	1556	U	1557	G	1558	*	C	1573	C	1574	cWW	cWW
41	IL_6M0X_002	6M0X	0.8171	Single bulged U	B	RNA (71-MER)	A	59	U	60	G	61	*	C	55	U	56	cWW	cWW
42	IL_6JDV_003	6JDV	0.7739	Single bulged U	B	CRISPR RNA direct repeat element	G	95	U	96	G	97	*	C	81	C	82	cWW	cWW
43	IL_8C3A_476	8C3A	0.8322	Single bulged U	CM	SSU rRNA	U	1643	U	1644	G	1645	*	U	1730	A	1731	cWW	cWW
44	IL_4V88_469	4V88	0.8202	Single bulged U	A6	SSU rRNA	U	1656	U	1657	G	1658	*	U	1743	A	1744	cWW	cWW
45	IL_6CZR_156	6CZR	0.7855	Single bulged U	1a	SSU rRNA	C	1177	U	1178	G	1179	*	C	1043	G	1044	cWW	cWW
46	IL_4LFB_046	4LFB	0.7743	Single bulged U	A	SSU rRNA	C	1195	U	1196	G	1197	*	C	1060	G	1061	cWW	cWW
47	IL_7PMM_002	7PMM	0.7870	Single bulged U	D	RNA (45mer) containing HP92 of the 23S rRNA	A	15	U	16	A	17	*	U	31	U	32	cWW	cWW
48	IL_7PMQ_002	7PMQ	0.5532	Single bulged U	F	RNA (42-MER)	A	24	U	25	A	26	*	U	40	U	41	cWW	cWW
49	IL_4V9F_107	4V9F	0.5115	Single bulged U	9	5S rRNA	G	86	U	87	G	88	*	C	95	C	96	cWW	cWW
50	IL_4LFB_042	4LFB	0.5619	Single bulged U	A	SSU rRNA	G	1048	U	1049	G	1050	*	C	1208	C	1209	cWW	cWW
51	IL_5J7L_046	5J7L	0.5499	Single bulged U	AA	SSU rRNA	G	1048	U	1049	G	1050	*	C	1208	C	1209	cWW	cWW
52	IL_4V88_449	4V88	0.5468	Single bulged U	A6	SSU rRNA	G	1268	U	1269	G	1270	*	C	1440	C	1441	cWW	cWW
53	IL_8C3A_455	8C3A	0.5390	Single bulged U	CM	SSU rRNA	G	1253	U	1254	G	1255	*	C	1426	C	1427	cWW	cWW
54	IL_3MEI_001	3MEI	0.4143	Single bulged U	B+A	RNA (23-mer)	C	15	U	16	G	17	*	C	7	G	8	cWW	cWW
55	IL_7VTI_004	7VTI	0.4376	Single bulged U	B	crRNA	G	21	U	22	G	23	*	C	14	C	15	cWW	cWW
56	IL_5TBW_053	5TBW	0.4016	Single bulged U	1	LSU rRNA	G	1207	U	1208	G	1209	*	C	1296	C	1297	cWW	cWW
57	IL_8C3A_056	8C3A	0.3273	Single bulged U	1	LSU rRNA	G	1203	U	1204	G	1205	*	C	1292	C	1293	cWW	cWW
58	IL_3NDB_005	3NDB	0.4408	Single bulged U	M	SRP RNA	C	139	U	140	C	141	*	G	237	G	238	cWW	cWW
59	IL_8C3A_003	8C3A	0.4446	Single bulged U	1+4	LSU rRNA + 5.8S rRNA	A	12	U	13	C	14	*	G	144	U	145	cWW	cWW
60	IL_5TBW_003	5TBW	0.4442	Single bulged U	1+4	LSU rRNA + 5.8S rRNA	A	13	U	14	C	15	*	G	144	U	145	cWW	cWW
61	IL_8F5G_001	8F5G	0.4953	Single bulged U	D	RNA	A	5	U	6	C	7	*	G	21	U	22	cWW	cWW
62	IL_4FRG_002	4FRG	0.5165	Single bulged U	B	cobalamin riboswitch aptamer domain	G	23	U	24	G	25	*	C	39	C	40	cWW	cWW
63	IL_4WF9_080	4WF9	0.5059	Single bulged U	X	LSU rRNA	G	2094	U	2095	G	2096	*	C	2469	C	2470	cWW	cWW
64	IL_7A0S_075	7A0S	0.4954	Single bulged U	X	LSU rRNA	G	2050	U	2051	G	2052	*	C	2421	C	2422	cWW	cWW
65	IL_4V9F_074	4V9F	0.5205	Single bulged U	0	LSU rRNA	A	2108	U	2109	G	2110	*	C	2477	U	2478	cWW	cWW
66	IL_7RQB_080	7RQB	0.4877	Single bulged U	1A	LSU rRNA	G	2067	U	2068	G	2069	*	C	2442	C	2443	cWW	cWW
67	IL_8C3A_098	8C3A	0.4496	Single bulged U	1	LSU rRNA	G	2387	U	2388	U	2389	*	A	2783	C	2784	cWW	cWW
68	IL_5TBW_093	5TBW	0.4438	Single bulged U	1	LSU rRNA	G	2409	U	2410	U	2411	*	A	2811	C	2812	cWW	cWW
69	IL_4V88_439	4V88	0.3653	Single bulged U	A6	SSU rRNA	G	1051	U	1052	G	1053	*	C	1066	C	1067	cWW	cWW
70	IL_8C3A_424	8C3A	0.4714	Single bulged U	CM	SSU rRNA	G	555	U	556	C	557	*	G	584	C	585	cWW	cWW
71	IL_6LT7_001	6LT7	0.3771	Single bulged U	C	50-mer RNA	G	46	U	47	U	48	*	A	41	C	42	cWW	cWW
72	IL_5TBW_146	5TBW	0.4475	Single bulged U	4	5.8S rRNA	A	89	U	90	C	91	*	G	68	U	69	cWW	cWW
73	IL_7KVT_002	7KVT	0.3580	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
74	IL_3WBM_001	3WBM	0.3602	Single bulged U	X+Y	RNA (25-MER)	G	2	U	3	A	4	*	U	23	C	24	cWW	cWW
75	IL_8C3A_140	8C3A	0.3978	Single bulged U	1	LSU rRNA	G	3305	U	3306	A	3307	*	U	3328	C	3329	cWW	cWW
76	IL_6UFH_004	6UFH	0.0000	Single bulged U	A	RNA (167-MER)	U	139	U	140	C	141	*	G	154	G	155	cWW	cWW
77	IL_6UFG_004	6UFG	0.2883	Single bulged U	A	RNA (166-MER)	U	138	U	139	C	140	*	G	153	G	154	cWW	cWW
78	IL_2A64_002	2A64	0.3868	Single bulged U	A	ribonuclease P RNA	G	51	U	52	C	53	*	G	395	C	396	cWW	cWW
79	IL_2PJP_001	2PJP	0.4549	Single bulged U	B	SECIS RNA	G	16	U	17	U	18	*	A	29	C	30	cWW	cWW
80	IL_2OIU_003	2OIU	0.5544	Single bulged U	Q	L1 Ribozyme RNA Ligase	G	18	U	19	U	20	*	A	41	C	42	cWW	cWW
81	IL_6CZR_126	6CZR	0.5464	Single bulged U	1a	SSU rRNA	U	363	U	364	C	365	*	G	388	A	389	cWW	cWW
82	IL_5J7L_017	5J7L	0.5436	Single bulged U	AA	SSU rRNA	U	367	U	368	G	369	*	C	392	A	393	cWW	cWW
83	IL_3D2V_001	3D2V	0.5298	Single bulged U	A	TPP riboswitch (THI element)	G	73	U	74	G	75	*	C	5	C	6	cWW	cWW
84	IL_4LFB_014	4LFB	0.5981	Single bulged U	A	SSU rRNA	U	367	U	368	C	369	*	G	392	A	393	cWW	cWW
85	IL_4V88_407	4V88	0.6008	Single bulged U	A6	SSU rRNA	U	439	U	440	A	441	*	U	463	A	464	cWW	cWW
86	IL_8C3A_415	8C3A	0.6738	Single bulged U	CM	SSU rRNA	U	437	U	438	A	439	*	U	461	A	462	cWW	cWW
87	IL_4V88_414	4V88	0.6435	Single bulged U	A6	SSU rRNA	G	557	U	558	C	559	*	G	586	C	587	cWW	cWW
88	IL_2PN3_003	2PN3	0.7495	Single bulged U	B+A	RNA (20-mer)	G	105	U	106	G	107	*	U	61	C	62	cWW	cWW
89	IL_5FQ5_002	5FQ5	1.1592	Single bulged U	A	tracrRNA	G	58	U	59	C	60	*	G	54	C	55	cWW	cWW
90	IL_7QQX_002	7QQX	1.1620	Single bulged U	A	tracrRNA	G	58	U	59	C	60	*	G	54	C	55	cWW	cWW
91	IL_5B2T_002	5B2T	1.1650	Single bulged U	A	tracrRNA	G	58	U	59	C	60	*	G	54	C	55	cWW	cWW
92	IL_7QR0_002	7QR0	1.1660	Single bulged U	A	tracrRNA	G	58	U	59	C	60	*	G	54	C	55	cWW	cWW
93	IL_5VW1_002	5VW1	1.1788	Single bulged U	C	tracrRNA	G	58	U	59	C	60	*	G	54	C	55	cWW	cWW
94	IL_4ZT0_004	4ZT0	1.1575	Single bulged U	D	tracrRNA	G	58	U	59	C	60	*	G	54	C	55	cWW	cWW
95	IL_7QR8_002	7QR8	1.1596	Single bulged U	A	tracrRNA	G	58	U	59	C	60	*	G	54	C	55	cWW	cWW
96	IL_7QQP_002	7QQP	1.1600	Single bulged U	A	tracrRNA	G	58	U	59	C	60	*	G	54	C	55	cWW	cWW
97	IL_7ZO1_002	7ZO1	1.1781	Single bulged U	A	tracrRNA	G	58	U	59	C	60	*	G	54	C	55	cWW	cWW
98	IL_5F9R_003	5F9R	1.2223	Single bulged U	A	tracrRNA	G	76	U	77	C	78	*	G	72	C	73	cWW	cWW
99	IL_8C3A_409	8C3A	1.3472	Single bulged U	CM	SSU rRNA	G	277	U	278	G	279	*	C	273	C	274	cWW	cWW
100	IL_4V88_401	4V88	1.3744	Single bulged U	A6	SSU rRNA	G	279	U	280	G	281	*	C	275	C	276	cWW	cWW
101	IL_8C3A_035	8C3A	1.0424	Single bulged U	1	LSU rRNA	C	869	U	870	G	871	*	C	882	G	883	cWW	cWW
102	IL_5TBW_032	5TBW	1.0500	Single bulged U	1	LSU rRNA	C	873	U	874	G	875	*	C	886	G	887	cWW	cWW
103	IL_4V9F_029	4V9F	1.0109	Single bulged U	0	LSU rRNA	G	834	U	835	G	836	*	C	847	C	848	cWW	cWW
104	IL_8C3A_013	8C3A	0.9998	Single bulged U	1	LSU rRNA	G	188	U	189	U	190	*	A	203	C	204	cWW	cWW
105	IL_4V9F_013	4V9F	0.9461	Single bulged U	0	LSU rRNA	G	307	U	308	C	309	*	G	322	C	323	cWW	cWW
106	IL_5TBW_012	5TBW	1.0170	Single bulged U	1	LSU rRNA	G	189	U	190	U	191	*	A	204	C	205	cWW	cWW
107	IL_1ET4_002	1ET4	1.1893	Major groove intercalation	A	RNA APTAMER, 35-MER	G	226	U	227	G	228	*	C	218	C	219	cWW	cWW
108	IL_3IWN_003	3IWN	1.6394	Major groove intercalation	A	C-di-GMP riboswitch	C	42	U	43	C	44	*	G	81	G	82	cWW	cWW
109	IL_3MXH_003	3MXH	1.6344	Major groove intercalation	R	c-di-GMP riboswitch	C	52	U	53	C	54	*	G	86	G	87	cWW	cWW
110	IL_5LYS_008	5LYS	1.3990	Single bulged U	B	7SK RNA	C	62	U	63	G	64	*	C	45	G	46	cWW	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
GUG*CC	25
GUC*GC	19
CUG*CG	9
GUU*AC	8
GUA*UC	7
AUC*GU	7
AUG*CU	6
UUC*GA	4
UUC*GG	4
AUA*UU	4
AUU*AU	3
CUC*GG	3
GUG*UC	2
UUG*CG	2
UUG*UA	2
UUA*UA	2
UUG*UG	1
UUU*AG	1
UUG*CA	1

Non-Watson-Crick part of the motif

Sequence	Counts
U*	110

Release history

Release	3.80	3.81
Date	2024-01-31	2024-02-28
Status	Updated, 1 parent	Exact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: Single bulged U (107)
Major groove intercalation (3)
Basepair signature: cWW-L-cWW
Heat map statistics: Min 0.03 | Avg 0.82 | Max 2.05

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Jmol getValue MEASURECallback null

Jmol getValue MESSAGECallback null

Jmol getValue MINIMIZATIONCallback null

Jmol getValue SERVICECallback null

Jmol getValue PICKCallback null

Jmol getValue RESIZECallback null

Jmol getValue SCRIPTCallback null

Jmol getValue SYNCCallback null

Jmol getValue STRUCTUREMODIFIEDCallback null

Jmol getValue doTranslate null

language=en_US

Jmol getValue popupMenu null

Jmol getValue script null

Jmol getValue loadInline null

Jmol getValue load null

Jmol applet jmolApplet0__993396648622096__ ready

script 1 started

loadScript https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//core/coretext.z.js

Script completed

Jmol script terminated

script 2 started

Script completed

Jmol script terminated

script 3 started

Script completed

Jmol script terminated

script 4 started

Script completed

Jmol script terminated

Coloring options: Nucleotide numbers

Motif IL_83039.13 Version IL_83039.13 of this group appears in releases 3.80 to 3.81 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_83039.13 Version IL_83039.13 of this group appears in releases 3.80 to 3.81

Download

Csv

Json