HL_72498.4

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name for chain		1		2		3		4		5		6		7	1-7	2-6
1	HL_3Q1Q_011	3Q1Q	0.4801	2		C	tRNA	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_3V2F_018	3V2F	0.3367	3		A	LSU rRNA	U	566	A	567	U	568	U	569	G	570	A	571	A	575	cWW
7	HL_2ZJR_017	2ZJR	0.3250	3	T-loop with 2 stacked bulged bases (H)	X	LSU rRNA	U	575	A	576	U	577	U	578	G	579	A	580	A	584	cWW
8	HL_2QBG_019	2QBG	0.2222	3		B	LSU rRNA	U	566	U	567	U	568	U	569	G	570	U	571	A	575	cWW
9	HL_3U5H_014	3U5H	0.2701	3		5	LSU rRNA	U	640	C	641	U	642	U	643	G	644	A	645	A	649	cWW
10	HL_4A1B_015	4A1B	0.2771	3		1	LSU rRNA	U	664	C	665	U	666	U	667	G	668	A	669	A	673	cWW
11	HL_4GMA_002	4GMA	0.2976	2		Z	Cobalamin riboswitch	G	58	U	59	G	60	A	61	G	62	A	63	C	66	cWW
12	HL_2QBG_034	2QBG	0.2259	2		B	LSU rRNA	G	1281	U	1282	G	1283	A	1284	A	1285	A	1286	C	1289	cWW	tWH
13	HL_2ZJR_032	2ZJR	0.2537	2		X	LSU rRNA	G	1294	U	1295	G	1296	A	1297	G	1298	A	1299	C	1302	cWW	tWH
14	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
15	HL_3V2F_030	3V2F	0.2207	2		A	LSU rRNA	G	1281	U	1282	G	1283	A	1284	G	1285	A	1286	C	1289	cWW	tWH
16	HL_3U5H_031	3U5H	0.2316	2		5	LSU rRNA	A	1462	U	1463	G	1464	A	1465	G	1466	A	1467	U	1470	cWW	tWH
17	HL_4GXY_002	4GXY	0.1814	2	T-loop with 2 stacked bulged bases	A	Cobalamin riboswitch	G	49	U	50	G	51	C	52	A	53	A	54	C	57	cWW	tWH
18	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
19	HL_4A1B_030	4A1B	0.1551	2		1	LSU rRNA	A	1488	U	1489	G	1490	A	1491	G	1492	A	1493	U	1496	cWW	tWH
20	HL_4FRN_001	4FRN	0.1656	2		A	Cobalamin riboswitch	G	28	U	29	G	30	U	31	A	32	A	33	C	36	cWW	tWH
21	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
22	HL_4FRG_001	4FRG	0.2241	2	T-loop with 2 bulged bases not stacked	B	Cobalamin riboswitch	G	28	U	29	G	30	A	31	A	32	A	33	C	36	cWW	tWH
23	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
24	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
25	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
26	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
27	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
28	HL_4GCW_002	4GCW	0.1411	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
29	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
30	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
31	HL_2AZX_003	2AZX	0.1515	2		C	tRNA	G	553	U	554	U	555	C	556	G	557	A	558	C	561	cWW	tWH
32	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
33	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
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_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
36	HL_2ZZN_003	2ZZN	0.1818	2		C	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
37	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
38	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
39	HL_3A2K_003	3A2K	0.1907	2		C	tRNA	G	54	U	55	U	56	C	57	G	58	A	59	C	62	cWW	tWH
40	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
41	HL_2ZZM_004	2ZZM	0.1169	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
42	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
43	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
44	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
45	HL_2ZUF_003	2ZUF	0.0868	2		B	tRNA	G	953	U	954	U	955	C	956	A	957	A	958	C	961	cWW	tWH
46	HL_1J1U_003	1J1U	0.0934	2	T-loop with 2 stacked bulged bases	B	tRNA	G	554	U	555	U	556	C	557	A	558	A	559	C	562	cWW	tWH
47	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
48	HL_3L0U_003	3L0U	0.1070	2	T-loop with 2 stacked bulged bases (H)	A	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	61	cWW	tWH
49	HL_2CSX_003	2CSX	0.1291	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	tWH
50	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
51	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
52	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
53	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
54	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
55	HL_2NRE_003	2NRE	0.2017	2		F	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	ntWH
56	HL_1GAX_006	1GAX	0.2131	2	T-loop with 2 stacked bulged bases	D	tRNA	G	952	U	953	U	954	C	955	A	956	A	957	C	960	cWW	tWH
57	HL_2NR0_004	2NR0	0.2217	2		E	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	C	61	cWW	tWH
58	HL_1J2B_002	1J2B	0.3081	2	T-loop with 2 stacked bulged bases	C	tRNA	G	954	U	955	U	956	C	957	A	958	A	959	C	962	cWW	tWH
59	HL_1J2B_004	1J2B	0.3582	2		D	tRNA	G	954	U	955	U	956	C	957	A	958	A	959	C	962	ncWW	tWH
60	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
61	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
62	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

3D structures

Complete motif including flanking bases

Sequence	Counts
GUUCAAGUC	11
GUUCGAAUC	8
GUUCGAUUC	7
GUUCGAUCC	4
GUUCAAAUC	4
GUGAGAAUC	3
GUGAAAUUC	3
GUUCGAGUC	3
GUUCAAUUC	3
UAUUGAAGCA	2
UCUUGAAACA	2
AUGAGAACU	2
GUUCGACUC	2
GUGAAACUC	1
UUUUGUAUAA	1
GUGAAAAGC	1
GUGAGAACC	1
GUGCAAGUC	1
GUGAGAGUC	1
GUGUAAUUC	1
GUUCGAGCC	1

Non-Watson-Crick part of the motif

Sequence	Counts
UUCAAGU	11
UUCGAAU	8
UUCGAUU	7
UUCGAUC	4
UUCAAAU	4
UGAGAAU	3
UGAGAAC	3
UGAAAUU	3
UUCGAGU	3
UUCAAUU	3
AUUGAAGC	2
CUUGAAAC	2
UUCGACU	2
UGAAACU	1
UUUGUAUA	1
UGAAAAG	1
UGCAAGU	1
UGAGAGU	1
UGUAAUU	1
UUCGAGC	1

Release history

Release	0.6	0.7	0.8
Date	2013-02-17	2013-02-17	2013-02-17
Status	Updated, 1 parent	Exact match	Exact match

Parent motifs

Parent motif	Common motif instances	Only in HL_72498.4	Only in the parent motif
HL_72498.3 Compare	HL_4A1B_015, HL_3L0U_003, HL_2AZX_003, HL_3F4G_001, HL_3V2F_018, HL_3VJR_001, HL_4A1B_030, HL_4GXY_002, HL_3V2F_030, HL_2DU3_003, HL_3ADC_004, HL_2ZUF_003, HL_2DER_006, HL_3TUP_003, HL_4GMA_002, HL_2D6F_006, HL_3AMU_003, HL_2ZJR_017, HL_3AL0_003, HL_2ZM5_003, HL_1QU2_003, HL_3U5H_014, HL_2QBG_034, HL_1S72_034, HL_2CSX_003, HL_2ZJR_032, HL_2NR0_004, HL_3ADD_004, HL_3ICQ_005, HL_2ZZN_003, HL_3VJR_002, HL_3A2K_003, HL_2CV1_006, HL_3AM1_004, HL_1WZ2_008, HL_3OUY_001, HL_3EPH_003, HL_3U5H_031, HL_2NRE_003, HL_1J1U_003, HL_3F4G_004, HL_2ZZM_004, HL_2ZNI_003, HL_1J2B_004, HL_4AQ7_003, HL_1U0B_003, HL_1J2B_002, HL_2QBG_019, HL_3RG5_004, HL_2DU6_003, HL_2DR8_001, HL_2BTE_008, HL_3Q1Q_011, HL_4FRN_001, HL_1GAX_006, HL_1QRS_003, HL_2AKE_003, HL_2BTE_004, HL_3OVA_001, HL_4FRG_001	HL_4GCW_002, HL_4FAW_001	HL_2FK6_002, HL_3G78_001

Children motifs

Child motif	Common motif instances	Only in HL_72498.4	Only in the child motif
HL_72498.5 Compare	HL_4A1B_015, HL_3L0U_003, HL_2AZX_003, HL_3F4G_001, HL_3V2F_018, HL_3VJR_001, HL_4A1B_030, HL_4GXY_002, HL_3V2F_030, HL_2DU3_003, HL_3ADC_004, HL_2ZUF_003, HL_2DER_006, HL_4FAW_001, HL_4GMA_002, HL_2D6F_006, HL_3AMU_003, HL_2ZJR_017, HL_3AL0_003, HL_2ZM5_003, HL_1QU2_003, HL_3U5H_014, HL_2QBG_034, HL_1S72_034, HL_2CSX_003, HL_2ZJR_032, HL_2NR0_004, HL_3TUP_003, HL_3ADD_004, HL_3ICQ_005, HL_2ZZN_003, HL_3VJR_002, HL_3A2K_003, HL_2CV1_006, HL_3AM1_004, HL_1WZ2_008, HL_3OUY_001, HL_3EPH_003, HL_3U5H_031, HL_2NRE_003, HL_1J1U_003, HL_4GCW_002, HL_3F4G_004, HL_2ZZM_004, HL_2ZNI_003, HL_1J2B_004, HL_4AQ7_003, HL_1U0B_003, HL_1J2B_002, HL_2QBG_019, HL_3RG5_004, HL_2DU6_003, HL_2DR8_001, HL_2BTE_008, HL_3Q1Q_011, HL_4FRN_001, HL_1GAX_006, HL_1QRS_003, HL_2AKE_003, HL_2BTE_004, HL_3OVA_001, HL_4FRG_001		HL_3W3S_004

Motif HL_72498.4 Version HL_72498.4 of this group appears in releases 0.6 to 0.8 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_72498.4 Version HL_72498.4 of this group appears in releases 0.6 to 0.8

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Csv

Json