HL_72498.17

#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_3Q1Q_011	3Q1Q	0.4801	2		C	TRNA (PHE)	G	63	U	64	U	65	C	66	G	67	A	68	C	71	cWW	tWH
2	HL_2AKE_003	2AKE	0.3994	2		B	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
3	HL_2ZNI_003	2ZNI	0.4454	2	T-loop with 2 stacked bulged bases	C	bacterial tRNA	G	53	U	54	G	55	A	56	A	57	A	58	C	61	cWW	tWH
4	HL_3VJR_002	3VJR	0.3486	2		D	tRNA CCA-acceptor	G	13	U	14	U	15	C	16	G	17	A	18	C	21	cWW	tWH
5	HL_3VJR_001	3VJR	0.3388	2	T-loop with 2 bulged bases not stacked	B	tRNA CCA-acceptor	G	13	U	14	U	15	C	16	G	17	A	18	C	21	cWW	tWH
6	HL_4QCN_017	4QCN	0.3405	3		A	23S Ribosomal RNA	U	589	A	590	U	591	U	592	G	593	A	594	A	598	cWW
7	HL_4IOA_017	4IOA	0.3421	3	T-loop with 2 stacked bulged bases	X	LSU rRNA	U	575	A	576	U	577	U	578	G	579	A	580	A	584	cWW
8	HL_1VW3_011	1VW3	0.2749	3		A	21S ribosomal RNA	U	465	U	466	U	467	U	468	G	469	U	470	A	474	cWW
9	HL_2QBG_019	2QBG	0.2222	3		B	23S rRNA	U	566	U	567	U	568	U	569	G	570	U	571	A	575	cWW
10	HL_1VX6_015	1VX6	0.3086	3		A	28S ribosomal RNA	U	718	C	719	U	720	U	721	G	722	A	723	A	727	cWW
11	HL_4CUV_014	4CUV	0.3086	3		1	25S RRNA	U	640	C	641	U	642	U	643	G	644	A	645	A	649	cWW
12	HL_4A1B_015	4A1B	0.2771	3		1	26S RRNA	U	664	C	665	U	666	U	667	G	668	A	669	A	673	cWW
13	HL_3U5H_014	3U5H	0.2701	3		5	25S rRNA	U	640	C	641	U	642	U	643	G	644	A	645	A	649	cWW
14	HL_4W21_014	4W21	0.3492	3		5	28S ribosomal RNA	U	1317	C	1318	U	1319	U	1320	G	1321	A	1322	A	1326	ncWW
15	HL_4GMA_002	4GMA	0.2976	2		Z	Adenosylcobalamin riboswitch	G	58	U	59	G	60	A	61	G	62	A	63	C	66	cWW
16	HL_4W21_031	4W21	0.2516	2		5	28S ribosomal RNA	A	2376	C	2377	G	2378	A	2379	G	2380	A	2381	U	2384	cWW	ntWH
17	HL_2QBG_034	2QBG	0.2259	2		B	23S rRNA	G	1281	U	1282	G	1283	A	1284	A	1285	A	1286	C	1289	cWW	tWH
18	HL_3U5H_031	3U5H	0.2316	2		5	25S rRNA	A	1462	U	1463	G	1464	A	1465	G	1466	A	1467	U	1470	cWW	tWH
19	HL_4IOA_031	4IOA	0.2231	2	T-loop with 2 stacked bulged bases	X	LSU rRNA	G	1294	U	1295	G	1296	A	1297	G	1298	A	1299	C	1302	cWW	tWH
20	HL_4QCN_031	4QCN	0.2226	2		A	23S Ribosomal RNA	G	1327	U	1328	G	1329	A	1330	G	1331	A	1332	C	1335	cWW	tWH
21	HL_1S72_034	1S72	0.2077	2	T-loop with 2 stacked bulged bases (H)	0	LSU rRNA	G	1387	U	1388	G	1389	A	1390	G	1391	A	1392	C	1395	cWW	tWH
22	HL_4CUV_031	4CUV	0.2016	2		1	25S RRNA	A	1462	U	1463	G	1464	A	1465	G	1466	A	1467	U	1470	cWW	tWH
23	HL_4A1B_030	4A1B	0.1551	2		1	26S RRNA	A	1488	U	1489	G	1490	A	1491	G	1492	A	1493	U	1496	cWW	tWH
24	HL_1VX6_030	1VX6	0.1606	2		A	28S ribosomal RNA	A	1611	U	1612	G	1613	A	1614	G	1615	A	1616	U	1619	cWW	tWH
25	HL_4FAW_001	4FAW	0.1333	2		A	Group II catalytic intron D1-D4-3	G	30	U	31	G	32	A	33	G	34	A	35	C	38	cWW	tWH
26	HL_4FRN_001	4FRN	0.1656	2		A	Cobalamin riboswitch aptamer domain	G	28	U	29	G	30	U	31	A	32	A	33	C	36	cWW	tWH
27	HL_3F4G_001	3F4G	0.2144	2		X	FMN riboswitch	G	17	U	18	G	19	A	20	A	21	A	22	C	25	cWW	tWH
28	HL_4FRG_001	4FRG	0.2241	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
29	HL_3F4G_004	3F4G	0.2065	2		Y	FMN riboswitch	G	68	U	69	G	70	A	71	A	72	A	73	C	76	cWW	tWH
30	HL_4GXY_002	4GXY	0.1814	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
31	HL_4P5J_003	4P5J	0.1078	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
32	HL_2CV1_006	2CV1	0.1318	2		D	tRNA	G	553	U	554	U	555	C	556	G	557	A	558	C	561	cWW	tWH
33	HL_2AZX_003	2AZX	0.1515	2		C	72-MER	G	553	U	554	U	555	C	556	G	557	A	558	C	561	cWW	tWH
34	HL_3TUP_003	3TUP	0.1860	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
35	HL_3EPH_003	3EPH	0.1675	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
36	HL_1U0B_003	1U0B	0.1779	2	T-loop with 2 stacked bulged bases	A	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
37	HL_2D6F_006	2D6F	0.1891	2	T-loop with 2 stacked bulged bases	F	tRNA	G	953	U	954	U	955	C	956	G	957	A	958	C	961	cWW	tWH
38	HL_3AM1_004	3AM1	0.1507	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
39	HL_4GCW_002	4GCW	0.1411	2	T-loop with 2 stacked bulged bases	B	TRNA(THR)	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
40	HL_4TZZ_008	4TZZ	0.1664	2	T-loop with 2 stacked bulged bases (H)	E	tRNA	G	52	U	53	U	54	C	55	G	56	A	57	C	60	cWW	tWH
41	HL_4TZZ_003	4TZZ	0.1121	2	T-loop with 2 stacked bulged bases (H)	B	tRNA	G	52	U	53	U	54	C	55	G	56	A	57	C	60	cWW	tWH
42	HL_1QU2_003	1QU2	0.1239	2	T-loop with 2 stacked bulged bases	T	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
43	HL_2DU3_003	2DU3	0.1120	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
44	HL_1J1U_003	1J1U	0.0934	2	T-loop with 2 stacked bulged bases	B	tRNA(Tyr)	G	554	U	555	U	556	C	557	A	558	A	559	C	562	cWW	tWH
45	HL_4MGN_008	4MGN	0.0957	2		D	tRNA-glycine	G	52	U	53	U	54	C	55	G	56	A	57	C	60	cWW	tWH
46	HL_3RG5_004	3RG5	0.0000	2	T-loop with 2 stacked bulged bases (H)	A	Selenocysteine transfer RNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
47	HL_3ADD_004	3ADD	0.0787	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
48	HL_3ADC_004	3ADC	0.0930	2	T-loop with 2 stacked bulged bases (H)	C	Selenocysteine transfer RNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
49	HL_3W3S_004	3W3S	0.0996	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
50	HL_2ZUF_003	2ZUF	0.0868	2		B	tRNA-Arg	G	953	U	954	U	955	C	956	A	957	A	958	C	961	cWW	tWH
51	HL_2CSX_003	2CSX	0.1291	2	T-loop with 2 stacked bulged bases	C	RNA (75-MER)	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
52	HL_3WQY_003	3WQY	0.1249	2	T-loop with 2 stacked bulged bases	C	tRNA	G	1653	U	1654	U	1655	C	1656	A	1657	A	1658	C	1661	cWW	tWH
53	HL_2ZZM_004	2ZZM	0.1169	2	T-loop with 2 stacked bulged bases	B	RNA (84-MER)	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
54	HL_4AQ7_003	4AQ7	0.0967	2	T-loop with 2 stacked bulged bases (H)	B	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
55	HL_2BTE_004	2BTE	0.1166	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
56	HL_2BTE_008	2BTE	0.1567	2	T-loop with 2 stacked bulged bases (H)	E	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
57	HL_4MGM_004	4MGM	0.1437	2		B	tRNA glycine	G	52	U	53	U	54	C	55	G	56	A	57	C	60	cWW	tWH
58	HL_1QRS_003	1QRS	0.1374	2	T-loop with 2 stacked bulged bases (H)	B	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
59	HL_3AL0_003	3AL0	0.1652	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
60	HL_2DU6_003	2DU6	0.1948	2		D	tRNA	G	952	U	953	U	954	C	955	G	956	A	957	C	960	cWW	ntWH
61	HL_2ZM5_003	2ZM5	0.1653	2	T-loop with 2 stacked bulged bases (H)	C	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
62	HL_2DER_006	2DER	0.1920	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
63	HL_2ZZN_003	2ZZN	0.1818	2		C	RNA (71-MER)	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
64	HL_1WZ2_008	1WZ2	0.1544	2	T-loop with 2 stacked bulged bases	D	tRNA	G	965	U	966	U	967	C	968	G	969	A	970	C	973	cWW	tWH
65	HL_3A2K_003	3A2K	0.1907	2		C	bacterial tRNA	G	54	U	55	U	56	C	57	G	58	A	59	C	62	cWW	tWH
66	HL_2NRE_003	2NRE	0.2017	2		F	leucyl tRNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	ntWH
67	HL_1GAX_006	1GAX	0.2131	2	T-loop with 2 stacked bulged bases	D	TRNA(VAL)	G	952	U	953	U	954	C	955	A	956	A	957	C	960	cWW	tWH
68	HL_2NR0_004	2NR0	0.2217	2		E	leucyl tRNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
69	HL_3AMU_003	3AMU	0.1982	2	T-loop with 2 stacked bulged bases	B	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
70	HL_3WFS_003	3WFS	0.2350	2	T-loop with 2 stacked bulged bases	A	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
71	HL_3ICQ_005	3ICQ	0.2158	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
72	HL_4R0D_001	4R0D	0.2212	2		A	Group II catalytic intron	G	31	U	32	G	33	A	34	A	35	A	36	C	39	cWW	tWH
73	HL_1J2B_002	1J2B	0.3081	2	T-loop with 2 stacked bulged bases	C	tRNA(Val)	G	954	U	955	U	956	C	957	A	958	A	959	C	962	cWW	tWH
74	HL_1J2B_004	1J2B	0.3582	2		D	tRNA(Val)	G	954	U	955	U	956	C	957	A	958	A	959	C	962	ncWW	tWH
75	HL_2DR8_001	2DR8	0.4480	2		B	tRNA (33-MER)	G	12	U	13	U	14	C	15	G	16	A	17	C	20	cWW	tWH
76	HL_3OVA_001	3OVA	0.4413	2		C	RNA (34-MER)	G	12	U	13	U	14	C	15	A	16	A	17	C	20	cWW	tWH
77	HL_3OUY_001	3OUY	0.4585	2		C	RNA (35-MER)	G	12	U	13	U	14	C	15	A	16	A	17	C	20	cWW	ntWH
78	HL_4KR2_003	4KR2	0.4740	2	T-loop with 2 stacked bulged bases (H)	C	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
GUUCAAGUC	11
GUUCGAAUC	10
GUUCGAUUC	9
UCUUGAAACA	5
GUUCAAAUC	5
GUUCGAGUC	5
GUUCGAUCC	4
AUGAGAACU	4
GUGAGAAUC	3
GUGAAAUUC	3
GUUCAAUUC	3
UAUUGAAGCA	2
UUUUGUAUAA	2
GUUCGACUC	2
GUGAAACUC	1
ACGAGAACU	1
GUGAAAAGC	1
GUGAGAACC	1
GUGAGAGUC	1
GUGUAAUUC	1
GUGCAAGUC	1
GUGCAACUC	1
GUUCGAGCC	1
GUGAAAGUC	1

Non-Watson-Crick part of the motif

Sequence	Counts
UUCAAGU	11
UUCGAAU	10
UUCGAUU	9
CUUGAAAC	5
UGAGAAC	5
UUCAAAU	5
UUCGAGU	5
UUCGAUC	4
UGAGAAU	3
UGAAAUU	3
UUCAAUU	3
AUUGAAGC	2
UUUGUAUA	2
UUCGACU	2
UGAAACU	1
CGAGAAC	1
UGAAAAG	1
UGAGAGU	1
UGUAAUU	1
UGCAAGU	1
UGCAACU	1
UUCGAGC	1
UGAAAGU	1

Release history

Release	1.18
Date	2014-10-09
Status	Updated, 1 parent

Parent motifs

Parent motif	Common motif instances	Only in HL_72498.17	Only in the parent motif
HL_72498.16 Compare	HL_4A1B_015, HL_2CSX_003, HL_4QCN_017, HL_3F4G_001, HL_3TUP_003, HL_3VJR_001, HL_4A1B_030, HL_4GXY_002, HL_3OVA_001, HL_2DU3_003, HL_3ADC_004, HL_2ZUF_003, HL_2DER_006, HL_4FAW_001, HL_4GMA_002, HL_1VX6_030, HL_3AMU_003, HL_3AL0_003, HL_2ZM5_003, HL_1QU2_003, HL_3W3S_004, HL_3U5H_014, HL_2QBG_034, HL_1S72_034, HL_2QBG_019, HL_3RG5_004, HL_2NR0_004, HL_1U0B_003, HL_2AZX_003, HL_3ICQ_005, HL_2ZZN_003, HL_3VJR_002, HL_4MGM_004, HL_3A2K_003, HL_2CV1_006, HL_3AM1_004, HL_1WZ2_008, HL_1QRS_003, HL_3OUY_001, HL_3EPH_003, HL_3U5H_031, HL_2NRE_003, HL_1VX6_015, HL_1J1U_003, HL_4GCW_002, HL_3F4G_004, HL_2AKE_003, HL_1VW3_011, HL_2ZZM_004, HL_2ZNI_003, HL_1J2B_004, HL_4AQ7_003, HL_1J2B_002, HL_2D6F_006, HL_4IOA_031, HL_4P5J_003, HL_3WQY_003, HL_3WFS_003, HL_4CUV_031, HL_2DR8_001, HL_4KR2_003, HL_2BTE_008, HL_3Q1Q_011, HL_4FRN_001, HL_4MGN_008, HL_4CUV_014, HL_1GAX_006, HL_3ADD_004, HL_4IOA_017, HL_4QCN_031, HL_2BTE_004, HL_2DU6_003, HL_4FRG_001	HL_4W21_031, HL_4TZZ_003, HL_4R0D_001, HL_4W21_014, HL_4TZZ_008	HL_4LCK_003, HL_1VWW_014, HL_1VWW_031

Children motifs

This motif has no children motifs.

Motif HL_72498.17 Version HL_72498.17 of this group appears in releases 1.18 to 1.18 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_72498.17 Version HL_72498.17 of this group appears in releases 1.18 to 1.18

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Csv

Json