HL_41998.1

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2		3		4		5		6		7	1-7	2-6
1	HL_4WF9_019	4WF9	0.5286	2		X	LSU rRNA	C	654	A	655	G	656	U	657	A	659	U	661	G	662	cWW
2	HL_6CZR_100	6CZR	0.6050	3		1a	SSU rRNA	C	1296	U	1297	G	1298	C	1299	A	1300	A	1301	G	1305	cWW	ntWH
3	HL_4LFB_029	4LFB	0.6106	3		A	SSU rRNA	C	1314	U	1315	G	1316	C	1317	A	1318	A	1319	G	1323	cWW	tWH
4	HL_5J7L_028	5J7L	0.6142	3		AA	SSU rRNA	C	1314	U	1315	G	1316	C	1317	A	1318	A	1319	G	1323	cWW	tWH
5	HL_2A64_002	2A64	0.3986	1	T-loop with 1 bulged base	A	ribonuclease P RNA	C	69	U	70	G	71	A	72	G	73	A	74	G	76	cWW	tWH
6	HL_4WF9_010	4WF9	0.2951	1	T-loop with 1 bulged base	X	LSU rRNA	C	348	U	349	G	350	G	351	A	352	A	353	G	355	cWW	tWH
7	HL_7RQB_010	7RQB	0.2453	1		1A	LSU rRNA	U	305	U	306	G	307	G	308	G	309	A	310	G	312	cWW	tWH
8	HL_5T5A_001	5T5A	0.3421	2	T-loop with 2 stacked bulged bases	A	DNA/RNA (71-MER)	G	21	U	22	G	23	C	24	A	25	A	26	C	29	cWW	tWH
9	HL_7A0S_010	7A0S	0.2078	1		X	LSU rRNA	C	316	U	317	G	318	G	319	A	320	A	321	G	323	cWW	tWH
10	HL_5J7L_142	5J7L	0.2134	1	T-loop with 1 bulged base	DA	LSU rRNA	C	305	U	306	G	307	G	308	A	309	A	310	G	312	cWW	tWH
11	HL_5DH6_002	5DH6	0.2408	1	T-loop with 1 bulged base	A	hammerhead ribozyme	C	27	U	28	G	29	G	30	G	31	A	32	G	34	cWW	tWH
12	HL_5Y85_003	5Y85	0.2852	2	T-loop with 2 stacked bulged bases	D	DNA/RNA (50-MER)	G	11	U	12	G	13	C	14	A	15	A	16	C	19	cWW	tWH
13	HL_4FRN_005	4FRN	0.1913	2	T-loop with 2 bulged bases not stacked	B	Cobalamin riboswitch aptamer domain	G	28	U	29	G	30	U	31	A	32	A	33	C	36	cWW	tWH
14	HL_4V9F_034	4V9F	0.4147	2	T-loop with 2 stacked bulged bases	0	LSU rRNA	G	1387	U	1388	G	1389	A	1390	G	1391	A	1392	C	1395	cWW	tWH
15	HL_7A0S_032	7A0S	0.3564	2		X	LSU rRNA	G	1294	U	1295	G	1296	A	1297	G	1298	A	1299	C	1302	cWW	tWH
16	HL_7RQB_033	7RQB	0.3337	2		1A	LSU rRNA	G	1281	U	1282	G	1283	A	1284	G	1285	A	1286	C	1289	cWW	tWH
17	HL_4WF9_032	4WF9	0.3669	2	T-loop with 2 stacked bulged bases	X	LSU rRNA	G	1318	U	1319	G	1320	A	1321	G	1322	A	1323	C	1326	cWW	tWH
18	HL_8C3A_031	8C3A	0.3508	2		1	LSU rRNA	A	1458	U	1459	G	1460	A	1461	G	1462	A	1463	U	1466	cWW	tWH
19	HL_5TBW_031	5TBW	0.3369	2	T-loop with 2 stacked bulged bases	1	LSU rRNA	A	1462	U	1463	G	1464	A	1465	G	1466	A	1467	U	1470	cWW	tWH
20	HL_5J7L_165	5J7L	0.2923	2	T-loop with 2 stacked bulged bases	DA	LSU rRNA	G	1281	U	1282	G	1283	A	1284	A	1285	A	1286	C	1289	cWW	tWH
21	HL_6UFG_008	6UFG	0.2075	2	T-loop with 2 stacked bulged bases	B	tRNA	G	54	U	55	U	56	C	57	A	58	A	59	C	62	cWW	tWH
22	HL_3ICQ_005	3ICQ	0.2025	2	T-loop with 2 stacked bulged bases	E	RNA (62-MER)	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
23	HL_4V8Q_110	4V8Q	0.2182	2	T-loop with 2 stacked bulged bases	BY	SsrA	G	66	U	67	U	68	C	69	G	70	A	71	C	74	cWW	ntWH
24	HL_8SP9_004	8SP9	0.2544	2		C	tRNA scaffold,CVB3 Cloverleaf RNA	G	130	U	131	U	132	C	133	A	134	A	135	C	138	cWW	ntWH
25	HL_3AKZ_012	3AKZ	0.2022	2		E	tRNAGln	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
26	HL_3EPH_003	3EPH	0.1720	2	T-loop with 2 stacked bulged bases	E	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
27	HL_1N78_003	1N78	0.1573	2	T-loop with 2 stacked bulged bases	C	tRNA(Glu)	G	553	U	554	U	555	C	556	G	557	A	558	C	561	cWW	tWH
28	HL_3TUP_003	3TUP	0.1568	2	T-loop with 2 stacked bulged bases	T	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	ntWH
29	HL_4QEI_003	4QEI	0.1908	2	T-loop with 2 stacked bulged bases	C	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW
30	HL_5E6M_003	5E6M	0.1741	2	T-loop with 2 stacked bulged bases	C	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW
31	HL_3AM1_004	3AM1	0.1613	2	T-loop with 2 stacked bulged bases	B	ASL-truncated tRNA	G	59	U	60	U	61	C	62	G	63	A	64	C	67	cWW	tWH
32	HL_3FOZ_006	3FOZ	0.1309	2	T-loop with 2 stacked bulged bases	D	tRNA(Phe)	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
33	HL_2DER_006	2DER	0.1424	2	T-loop with 2 stacked bulged bases	D	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
34	HL_2DU3_003	2DU3	0.1007	2	T-loop with 2 stacked bulged bases	D	tRNA	G	952	U	953	U	954	C	955	G	956	A	957	C	960	cWW	tWH
35	HL_4X4V_001	4X4V	0.1153	2	T-loop with 2 stacked bulged bases	B	Human MenBeta minihelix ending in CCACC	G	12	U	13	U	14	C	15	G	16	A	17	C	20	cWW	tWH
36	HL_4MGN_004	4MGN	0.0907	2	T-loop with 2 stacked bulged bases	B	tRNA-glycine	G	52	U	53	U	54	C	55	G	56	A	57	C	60	cWW	tWH
37	HL_3ADD_004	3ADD	0.0947	2	T-loop with 2 stacked bulged bases	C	Selenocysteine transfer RNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
38	HL_3W3S_004	3W3S	0.0903	2	T-loop with 2 stacked bulged bases	B	Selenocysteine transfer RNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
39	HL_3RG5_008	3RG5	0.0934	2	T-loop with 2 stacked bulged bases	B	Selenocysteine transfer RNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
40	HL_6JXM_003	6JXM	0.1004	2	T-loop with 2 stacked bulged bases	B	tRNA	G	74	U	75	U	76	C	77	G	78	A	79	C	82	cWW	tWH
41	HL_8G9Z_004	8G9Z	0.1036	2		E	Selenocysteine transfer RNA	G	53\|\|A	U	54\|\|A	U	55\|\|A	C	56\|\|A	A	57\|\|A	A	58\|\|A	C	61\|\|A	cWW	tWH
42	HL_4LCK_003	4LCK	0.0000	2	T-loop with 2 stacked bulged bases	B	tRNA	G	52	U	53	U	54	C	55	G	56	A	57	C	60	cWW	tWH
43	HL_3ZGZ_003	3ZGZ	0.0761	2	T-loop with 2 stacked bulged bases	B	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
44	HL_4P5J_003	4P5J	0.1270	2	T-loop with 2 stacked bulged bases	A	tRNA-like 3' UTR element	G	46	U	47	G	48	C	49	A	50	A	51	C	54	cWW	tWH
45	HL_5WT1_003	5WT1	0.1341	2	T-loop with 2 stacked bulged bases	C	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
46	HL_8V1I_006	8V1I	0.0946	2		B	mascRNA	G	38	U	39	U	40	C	41	A	42	A	43	C	46	cWW	tWH
47	HL_5WWT_002	5WWT	0.0994	2	T-loop with 2 stacked bulged bases	C	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
48	HL_3IGI_001	3IGI	0.1351	2	T-loop with 2 stacked bulged bases	A	Group IIC intron	G	30	U	31	G	32	A	33	G	34	A	35	C	38	cWW	tWH
49	HL_6JQ5_003	6JQ5	0.1785	2	T-loop with 2 stacked bulged bases	B	RNA (82-MER)	G	6	U	7	G	8	A	9	G	10	A	11	C	14	cWW	tWH
50	HL_6JQ5_001	6JQ5	0.1790	2	T-loop with 2 stacked bulged bases	A	RNA (82-MER)	G	6	U	7	G	8	A	9	G	10	A	11	C	14	cWW	tWH
51	HL_6JQ6_003	6JQ6	0.1701	2	T-loop with 2 stacked bulged bases	U	RNA (81-MER)	G	6	U	7	G	8	A	9	G	10	A	11	C	14	cWW	tWH
52	HL_4GXY_002	4GXY	0.2727	2	T-loop with 2 stacked bulged bases	A	Adenosylcobalamin riboswitch	G	49	U	50	G	51	C	52	A	53	A	54	C	57	cWW	tWH
53	HL_5TBW_005	5TBW	0.2614	1	T-loop with 1 bulged base	1	LSU rRNA	U	194	U	195	G	196	G	197	A	198	A	199	A	201	cWW	tWH
54	HL_8C3A_005	8C3A	0.2417	1		1	LSU rRNA	U	193	U	194	G	195	G	196	A	197	A	198	A	200	cWW	tWH
55	HL_4V9F_010	4V9F	0.2072	1	T-loop with 1 bulged base	0	LSU rRNA	U	312	U	313	G	314	G	315	A	316	A	317	A	319	cWW	tWH
56	HL_6MJ0_009	6MJ0	0.2023	2	T-loop with 2 stacked bulged bases	B	tRNA-like 3' UTR element	G	66	U	67	G	68	C	69	A	70	A	71	C	74	cWW	tWH
57	HL_4FRG_001	4FRG	0.2437	2	T-loop with 2 bulged bases not stacked	B	cobalamin riboswitch aptamer domain	G	28	U	29	G	30	A	31	A	32	A	33	C	36	cWW	tWH
58	HL_3F2X_004	3F2X	0.2331	2	T-loop with 2 bulged bases not stacked	X	FMN riboswitch	G	68	U	69	G	70	A	71	A	72	A	73	C	76	cWW	tWH
59	HL_6DN2_003	6DN2	0.2390	2	T-loop with 2 bulged bases not stacked	Y	RNA (56-MER)	G	68	U	69	G	70	A	71	A	72	A	73	C	76	cWW	tWH
60	HL_5C45_003	5C45	0.2348	2	T-loop with 2 bulged bases not stacked	Y	FMN Riboswitch	G	68	U	69	G	70	A	71	A	72	A	73	C	76	cWW	tWH
61	HL_6DN2_001	6DN2	0.2287	2	T-loop with 2 bulged bases not stacked	X	RNA RIBOSWITCH	G	17	U	18	G	19	A	20	A	21	A	22	C	25	cWW	tWH
62	HL_3F2X_001	3F2X	0.2008	2	T-loop with 2 bulged bases not stacked	X	FMN riboswitch	G	17	U	18	G	19	A	20	A	21	A	22	C	25	cWW	tWH
63	HL_5C45_001	5C45	0.2266	2	T-loop with 2 bulged bases not stacked	X	FMN Riboswitch	G	17	U	18	G	19	A	20	A	21	A	22	C	25	cWW	tWH
64	HL_4WF9_018	4WF9	0.3505	3	T-loop with 2 stacked bulged bases	X	LSU rRNA	U	609	U	610	U	611	U	612	G	613	U	614	A	618	cWW
65	HL_5J7L_150	5J7L	0.3408	3	T-loop with 2 stacked bulged bases	DA	LSU rRNA	U	566	U	567	U	568	U	569	G	570	U	571	A	575	cWW
66	HL_7RQB_018	7RQB	0.3820	3		1A	LSU rRNA	U	566	A	567	U	568	U	569	G	570	A	571	A	575	cWW
67	HL_7A0S_018	7A0S	0.3705	3		X	LSU rRNA	U	575	A	576	U	577	U	578	G	579	A	580	A	584	cWW
68	HL_8C3A_014	8C3A	0.3443	3		1	LSU rRNA	U	638	C	639	U	640	U	641	G	642	A	643	A	647	cWW
69	HL_5TBW_014	5TBW	0.3622	3	T-loop with 2 stacked bulged bases	1	LSU rRNA	U	640	C	641	U	642	U	643	G	644	A	645	A	649	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
GUUCGAUUC	7
GUGAAAUUC	7
GUGAGAAUC	6
GUUCGAGUC	4
CUGGAAAG	3
GUUCAAGUC	3
GUUCGAAUC	3
GUUCAAUUC	3
GUUCAAAUC	3
CUGCAACCCG	2
GUGCAAGUC	2
AUGAGAACU	2
GUUCGAUCC	2
GUGCAACUC	2
UUGGAACA	2
UAUUGAAGCA	2
UCUUGAAACA	2
CAGUAAAUG	1
CUGCAACUCG	1
CUGAGAUG	1
UUGGGAAG	1
GUGCAAGCC	1
CUGGGAUG	1
GUGUAAUUC	1
GUGAGAACC	1
GUGAAAAGC	1
GUUCGACUC	1
GUGAGAGUC	1
UUGGAAUA	1
UUUUGUAGAA	1
UUUUGUAUAA	1

Non-Watson-Crick part of the motif

Sequence	Counts
UUCGAUU	7
UGAAAUU	7
UGAGAAU	6
UUCGAGU	4
UGGAAA	3
UGAGAAC	3
UUCAAGU	3
UUCGAAU	3
UUCAAUU	3
UUCAAAU	3
UGCAACCC	2
UGCAAGU	2
UUCGAUC	2
UGCAACU	2
UGGAAC	2
AUUGAAGC	2
CUUGAAAC	2
AGUAAAU	1
UGCAACUC	1
UGAGAU	1
UGGGAA	1
UGCAAGC	1
UGGGAU	1
UGUAAUU	1
UGAAAAG	1
UUCGACU	1
UGAGAGU	1
UGGAAU	1
UUUGUAGA	1
UUUGUAUA	1

Release history

Release	3.86
Date	2024-07-17
Status	New id, > 2 parents

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Motif HL_41998.1 Version HL_41998.1 of this group appears in releases 3.86 to 3.86 Download Csv Json

3D structures

Complete motif including flanking bases

Non-Watson-Crick part of the motif

Release history

Parent motifs

Children motifs

Motif HL_41998.1 Version HL_41998.1 of this group appears in releases 3.86 to 3.86

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Csv

Json