IL_28408.5

#S	Loop id	PDB	Disc	Annotation	Chain(s)	Standardized name for chain		1		2		3	break		4		5	1-5	3-4
1	IL_6JQ5_001	6JQ5	1.4989	Multiple bulged bases	A	Hatchet ribozyme	U	62	G	63	C	64	*	G	31	G	32	cWW	cWW
2	IL_7A0S_099	7A0S	1.3920	Major groove intercalation	X	LSU rRNA	U	2853	G	2854	C	2855	*	G	2813	G	2814	cWW	cWW
3	IL_1U9S_006	1U9S	1.3206	Major groove intercalation	A	RNase P class A	U	158	G	159	C	160	*	G	140	G	141	ncWW	cWW
4	IL_9FN2_004	9FN2	1.5006	GG cWH outside loop	B	SAMURI-SAM	C	29	G	30	C	31	*	G	15	G	16	cWW	cWW
5	IL_9FN3_004	9FN3	1.4962	GG cWH outside loop	B	SAMURI-ProSeDMA	C	29	G	30	C	31	*	G	15	G	16	cWW	cWW
6	IL_8B0X_008	8B0X	1.5321	GG cWH outside loop	A	SSU rRNA	C	93	G	94	C	95	*	G	75	G	76	cWW	cWW
7	IL_5DEA_001	5DEA	1.4999	GG cWH outside loop	A	sc1	C	5	G	6	G	7	*	C	30	G	31	cWW	cWW
8	IL_5DE5_002	5DE5	1.4798	GG cWH outside loop	C	sc1	C	5	G	6	G	7	*	C	30	G	31	cWW	cWW
9	IL_6JQ5_004	6JQ5	1.2733	Single bulged G	B	Hatchet ribozyme	U	62	G	63\|\|A	C	64	*	G	31	G	32	cWW	cWW
10	IL_3D0U_005	3D0U	1.1580	Single bulged G	A	Lysine riboswitch	U	106	G	107	G	108	*	C	81	G	82	cWW	ncWW
11	IL_3DIL_005	3DIL	1.1281	Single bulged G	A	Lysine riboswitch	U	109	G	110	C	111	*	G	84	G	85	cWW	cWW
12	IL_4V9F_010	4V9F	0.7772	Single bulged G	0	LSU rRNA	U	374	G	375	C	376	*	G	274	G	275	cWW	cWW
13	IL_9SUM_162	9SUM	0.6637	Single bulged G (H)	CA	SSU rRNA	G	447	G	448	A	449	*	U	436	C	437	cWW	cWW
14	IL_8CRE_415	8CRE	0.6749	Single bulged G	CM	SSU rRNA	G	456	G	457	A	458	*	U	445	C	446	cWW	cWW
15	IL_8GLP_215	8GLP	0.6440	Single bulged G	S2	SSU rRNA	G	506	G	507	A	508	*	U	495	C	496	cWW	cWW
16	IL_9PN5_166	9PN5	0.6524	Single bulged G	B5	SSU rRNA	G	458	G	459	A	460	*	U	447	C	448	cWW	cWW
17	IL_9H3G_180	9H3G	0.6543	Single bulged G	h1	SSU rRNA	G	460	G	461	A	462	*	PSU	449	C	450	cWW	cWW
18	IL_8B0X_018	8B0X	0.5052	Single bulged G	A	SSU rRNA	U	387	G	388	A	389	*	U	375	G	376	cWW	cWW
19	IL_4LFB_016	4LFB	0.5577	Single bulged G	A	SSU rRNA	U	387	G	388	A	389	*	U	375	G	376	cWW	cWW
20	IL_4V9F_041	4V9F	0.6552	Single bulged G	0	LSU rRNA	U	1136	G	1137	G	1138	*	C	1225	G	1226	cWW	cWW
21	IL_8GLP_045	8GLP	0.5926	Single bulged G	L5	LSU rRNA	G	1198	G	1199	G	1200	*	C	1096	C	1097	cWW	cWW
22	IL_8GLP_268	8GLP	0.4218	Single bulged G	S2	SSU rRNA	C	1427	G	1428	G	1429	*	C	1412	G	1413	cWW	cWW
23	IL_8GLP_100	8GLP	0.3141	Single bulged G	L5	LSU rRNA	C	2651	G	2652	C	2653	*	G	2681	G	2682	cWW	cWW
24	IL_8VFS_001	8VFS	0.5258	Single bulged G	A+B	RNA (27-MER)	U	5	G	6	C	7	*	G	22	G	23	cWW	cWW
25	IL_8ZA0_002	8ZA0	0.4255	Single bulged G	D+C	RNA (15-mer)	C	5	G	6	C	7	*	G	10	G	11	cWW	cWW
26	IL_8ZA4_004	8ZA4	0.5276	Single bulged G	F+E	RNA (16-mer)	C	5	G	6	C	7	*	G	10	G	11	cWW	cWW
27	IL_9SUM_204	9SUM	0.7039	Single bulged G (H)	CA	SSU rRNA	U	1410	G	1411	A	1412	*	U	1246	G	1247	cWWa	cWW
28	IL_9PN5_207	9PN5	0.7062	Single bulged G	B5	SSU rRNA	U	1434	G	1435	A	1436	*	U	1276	G	1277	cWWa	cWW
29	IL_8TSV_003	8TSV	0.6605	Single bulged G	B+A	Zika virus stem-loop A (SLA) top stem	U	6	G	7	C	8	*	G	19	A	20	cWW	cWW
30	IL_2IZN_001	2IZN	0.4434	Single bulged G	R	RNA (19-mer)	C	5\|\|\|\|P_1	G	6\|\|\|\|P_1	C	7\|\|\|\|P_1	*	G	14\|\|\|\|P_1	G	15\|\|\|\|P_1	cWW	cWW
31	IL_9E9Q_001	9E9Q	0.4268	Single bulged G	A	Sarbecovirus 5'UTR	C	3	G	4	U	5	*	A	98	G	99	cWW	cWW
32	IL_4LVW_002	4LVW	0.6215	Single bulged G	A	THF riboswitch	G	67	G	68	U	69	*	G	17	C	18	cWW	cWW
33	IL_3SUX_001	3SUX	0.6597	Single bulged G	X	THF riboswitch	G	76	G	77	U	78	*	G	20	C	21	cWW	cWW
34	IL_4WF9_023	4WF9	0.5493	Single bulged G	X	LSU rRNA	G	773	G	774	A	775	*	U	747	U	748	cWW	cWW
35	IL_4V9F_026	4V9F	0.5514	Single bulged G	0	LSU rRNA	A	819	G	820	U	821	*	A	793	U	794	cWW	cWW
36	IL_9DFE_018	9DFE	0.5860	Single bulged G	1A	LSU rRNA	G	728	G	729	C	730	*	G	702	U	703	cWW	cWW
37	IL_8B0X_082	8B0X	0.5805	Single bulged G	a	LSU rRNA	G	730	G	731	A	732	*	U	704	U	705	cWW	cWW
38	IL_9E6Q_028	9E6Q	0.5851	Single bulged G	1	LSU rRNA	G	845	G	846	C	847	*	G	819	U	820	cWW	cWW
39	IL_8OI5_032	8OI5	0.5693	Single bulged G	1	LSU rRNA	G	855	G	856	C	857	*	G	829	U	830	cWW	cWW
40	IL_9AXU_028	9AXU	0.5766	Single bulged G	2	LSU rRNA	G	891	G	892	C	893	*	G	865	U	866	cWW	cWW
41	IL_9PN5_029	9PN5	0.5967	Single bulged G	A1	LSU rRNA	G	859	G	860	C	861	*	G	833	U	834	cWW	cWW
42	IL_9SUM_028	9SUM	0.5853	Single bulged G (H)	A	LSU rRNA	G	802	G	803	C	804	*	G	776	U	777	cWW	cWW
43	IL_7A0S_017	7A0S	0.5808	Single bulged G	X	LSU rRNA	G	741	G	742	A	743	*	U	715	U	716	cWW	cWW
44	IL_8GLP_058	8GLP	0.6030	Single bulged G	L5	LSU rRNA	G	1576	G	1577	U	1578	*	G	1550	C	1551	cWW	cWW
45	IL_5U30_002	5U30	0.9606	Single bulged G	B	sgRNA	A	7	G	8	G	9	*	C	3	U	4	cWW	cWW
46	IL_8GLP_102	8GLP	0.7327	Single bulged G	L5	LSU rRNA	C	2710	G	2711	G	2712	*	C	2704	G	2705	cWW	cWW
47	IL_8GLP_331	8GLP	0.4800	Single bulged G	S2	SSU rRNA	G	1206	G	1207	A	1208	*	U	1691	PSU	1692	cWW	cWW
48	IL_8GLP_034	8GLP	0.4857	Single bulged G	L5	LSU rRNA	C	1286	G	1287	G	1288	*	C	709	G	710	cWW	cWW
49	IL_9H3G_211	9H3G	0.3414	Single bulged G	h1	SSU rRNA	G	1150	G	1151	A	1152	*	U	1629	PSU	1630	cWW	cWW
50	IL_9PN5_196	9PN5	0.3137	Single bulged G	B5	SSU rRNA	G	1149	G	1150	A	1151	*	U	1627	U	1628	cWW	cWW
51	IL_9SUM_191	9SUM	0.3170	Single bulged G (H)	CA	SSU rRNA	G	1119	G	1120	A	1121	*	U	1602	U	1603	cWW	cWW
52	IL_8CRE_444	8CRE	0.3193	Single bulged G	CM	SSU rRNA	G	1134	G	1135	A	1136	*	U	1614	U	1615	cWW	cWW
53	IL_8B0X_039	8B0X	0.3980	Single bulged G	A	SSU rRNA	G	925	G	926	G	927	*	U	1390	U	1391	cWW	cWW
54	IL_4LFB_036	4LFB	0.4009	Single bulged G	A	SSU rRNA	G	925	G	926	G	927	*	U	1390	U	1391	cWW	cWW
55	IL_4WF9_125	4WF9	0.2628	Single bulged G	X	LSU rRNA	C	2229	G	2230	C	2231	*	G	2247	G	2248	ncWW	ncWW
56	IL_7D7W_002	7D7W	0.1016	Single bulged G	A	nadA RNA	C	37	G	38	C	39	*	G	22	G	23	cWW	cWW
57	IL_6TFF_002	6TFF	0.0000	Single bulged G	A	nadA RNA	C	37	G	38	A	39	*	U	22	G	23	cWW	cWW
58	IL_7D7V_002	7D7V	0.1922	Single bulged G	A	nadA RNA	U	44	G	45	A	46	*	U	21	G	22	cWW	cWW
59	IL_8GLP_048	8GLP	0.4307	Single bulged G	L5	LSU rRNA	G	1265	G	1266	C	1267	*	G	1244	C	1245	cWW	cWW
60	IL_8OI5_048	8OI5	0.4501	Single bulged G	1	LSU rRNA	U	1070	G	1071	C	1072	*	G	1079	A	1080	cWW	cWW
61	IL_9SUM_043	9SUM	0.4793	Single bulged G (H)	A	LSU rRNA	U	1021	G	1022	C	1023	*	G	1030	A	1031	cWW	cWW
62	IL_9AXU_043	9AXU	0.4860	Single bulged G	2	LSU rRNA	C	1106	G	1107	C	1108	*	G	1115	G	1116	cWW	cWW
63	IL_9H3G_051	9H3G	0.5293	Single bulged G	A	LSU rRNA	U	1084	G	1085	C	1086	*	G	1093	A	1094	cWW	cWW
64	IL_8GLP_072	8GLP	0.4342	Single bulged G	L5	LSU rRNA	C	1814	G	1815	C	1816	*	G	1823	G	1824	cWW	cWW
65	IL_3IGI_004	3IGI	0.4643	Single bulged G	A	Group II catalytic intron D1-D4-3	U	82	G	83	U	84	*	A	99	A	100	cWW	cWW
66	IL_9E6Q_102	9E6Q	0.5587	Single bulged G	1	LSU rRNA	G	2999	G	3000	C	3001	*	G	2962	C	2963	cWW	cWW
67	IL_8TSV_002	8TSV	0.3893	Single bulged G	C+D	Zika virus stem-loop A (SLA) top stem	U	6	G	7	C	8	*	G	19	A	20	cWW	cWW
68	IL_9H3G_012	9H3G	0.3804	Single bulged G	A	LSU rRNA	U	257	G	258	U	259	*	A	157	A	158	cWW	cWW
69	IL_9SUM_036	9SUM	0.4217	Single bulged G (H)	A	LSU rRNA	A	930	G	931	U	932	*	A	1046	U	1047	cWW	cWW
70	IL_8OI5_040	8OI5	0.4294	Single bulged G	1	LSU rRNA	A	979	G	980	U	981	*	A	1095	U	1096	cWW	cWW
71	IL_9PN5_036	9PN5	0.4386	Single bulged G	A1	LSU rRNA	A	983	G	984	U	985	*	A	1099	U	1100	cWW	cWW
72	IL_9AXU_036	9AXU	0.4361	Single bulged G	2	LSU rRNA	A	1015	G	1016	U	1017	*	A	1131	U	1132	cWW	cWW
73	IL_9H3G_043	9H3G	0.4285	Single bulged G	A	LSU rRNA	A	994	G	995	U	996	*	A	1108	U	1109	cWW	cWW
74	IL_8GLP_066	8GLP	0.4415	Single bulged G	L5	LSU rRNA	A	1723	G	1724	U	1725	*	A	1838	U	1839	cWW	cWW
75	IL_8GLP_077	8GLP	0.5083	Single bulged G	L5	LSU rRNA	U	1918	G	1919	C	1920	*	G	2063	G	2064	cWW	cWW
76	IL_4C7O_004	4C7O	0.6152	Single bulged G	E	SRP RNA	U	27	G	28	U	29	*	A	15	A	16	cWW	cWW
77	IL_8B0X_001	8B0X	0.8881	Single bulged G	A	SSU rRNA	U	30	G	31	A	32	*	U	552	A	553	cWW	cWW
78	IL_4LFB_001	4LFB	0.8869	Single bulged G	A	SSU rRNA	U	30	G	31	A	32	*	U	552	A	553	cWW	cWW
79	IL_9H3G_208	9H3G	0.7683	Single bulged G	h1	SSU rRNA	U	1056	G	1057	C	1058	*	G	1064	G	1065	cWW	cWW
80	IL_8I3Z_004	8I3Z	0.8792	Single bulged G	A+B	RNA (24-mer) + RNA (31-MER)	C	10	G	11	U	12	*	A	53	G	54	cWW	cWW
81	IL_9E6Q_035	9E6Q	0.9955	Single bulged G	1	LSU rRNA	C	967	G	968	G	969	*	C	1046	G	1047	cWW	cWW
82	IL_8B0X_091	8B0X	1.1279	Single bulged G	a	LSU rRNA	U	915	G	916	C	917	*	G	864	A	865	cWW	cWW
83	IL_9H3G_003	9H3G	1.1920	Single bulged G	3	5.8S rRNA	C	98	G	99	A	100	*	U	68	G	69	cWW	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CGC*GG	11
UGC*GG	9
AGU*AU	7
CGG*CG	6
UGC*GA	6
GGA*UU	6
GGC*GU	6
UGA*UG	5
GGA*UC	4
GGU*GC	3
UGU*AA	3
UGG*CG	2
CGU*AG	2
GGA*U(PSU)	2
GGG*UU	2
CGA*UG	2
GGC*GC	2
UGA*UA	2
GGA*(PSU)C	1
GGG*CC	1
AGG*CU	1

Non-Watson-Crick part of the motif

Sequence	Counts
G*	83

Release history

Release	4.14
Date	2026-09-09
Status	Updated, 1 parent

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Motif IL_28408.5 Version IL_28408.5 of this group appears in releases 4.14 to 4.14 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_28408.5 Version IL_28408.5 of this group appears in releases 4.14 to 4.14

Download

Csv

Json