HL_05993.1

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name for chain		1		2		3		4		5		6		7		8	1-8	2-6	3-6
1	HL_3PYO_010	3PYO	0.5621	0		A	LSU rRNA	U	305	U	306	G	307	G	308	G	309	A	310	A	311	G	312	cWW	tWH
2	HL_3ICQ_005	3ICQ	0.4702	1	T-loop with 2 stacked bulged bases	E	RNA (62-MER)	G	53	U	54	U	55	C	56	G	57	A	58	C	60	C	61	cWW	tWH
3	HL_1O0C_003	1O0C	0.4691	1		B	tRNA	G	953	U	954	U	955	C	956	G	957	A	958	U	960	C	961	cWW	tWH
4	HL_1S72_034	1S72	0.4281	1	T-loop with 2 stacked bulged bases (H)	0	LSU rRNA	G	1387	U	1388	G	1389	A	1390	G	1391	A	1392	C	1394	C	1395	cWW	tWH
5	HL_2ZNI_006	2ZNI	0.4420	1		D	bacterial tRNA	G	53	U	54	G	55	A	56	A	57	A	58	U	60	C	61	cWW	tWH
6	HL_1GAX_003	1GAX	0.4214	1		C	tRNA	G	952	U	953	U	954	C	955	A	956	A	957	U	959	C	960	cWW	tWH
7	HL_1WZ2_008	1WZ2	0.5375	1	T-loop with 2 stacked bulged bases	D	tRNA	G	965	U	966	U	967	C	968	G	969	A	970	U	972	C	973	cWW	tWH
8	HL_2DR8_001	2DR8	0.4396	1		B	tRNA (33-MER)	G	12	U	13	U	14	C	15	G	16	A	17	U	19	C	20	cWW	tWH
9	HL_2DU3_003	2DU3	0.3886	1	T-loop with 2 stacked bulged bases	D	tRNA	G	952	U	953	U	954	C	955	G	956	A	957	U	959	C	960	cWW	tWH
10	HL_2ZUE_003	2ZUE	0.3762	1	T-loop with 2 stacked bulged bases	B	tRNA	G	953	U	954	U	955	C	956	A	957	A	958	U	960	C	961	cWW	tWH
11	HL_2QBG_034	2QBG	0.4714	1		B	LSU rRNA	G	1281	U	1282	G	1283	A	1284	A	1285	A	1286	G	1288	C	1289	cWW	tWH
12	HL_2NR0_004	2NR0	0.4410	1		E	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
13	HL_3OVA_001	3OVA	0.4939	1		C	RNA (34-MER)	G	12	U	13	U	14	C	15	A	16	A	17	U	19	C	20	cWW	tWH
14	HL_2NQP_004	2NQP	0.5024	1		F	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	ntWH
15	HL_2ZNI_003	2ZNI	0.4783	1	T-loop with 2 stacked bulged bases	C	bacterial tRNA	G	53	U	54	G	55	A	56	A	57	A	58	U	60	C	61	cWW	tWH
16	HL_3A2K_003	3A2K	0.4251	1		C	tRNA	G	54	U	55	U	56	C	57	G	58	A	59	U	61	C	62	cWW	tWH
17	HL_2DER_006	2DER	0.4611	1	T-loop with 2 stacked bulged bases	D	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	U	60	C	61	cWW	tWH
18	HL_2QBG_011	2QBG	0.5130	0		B	LSU rRNA	C	305	U	306	G	307	G	308	A	309	A	310	A	311	G	312	cWW	tWH
19	HL_1S72_010	1S72	0.5123	0	T-loop with 2 stacked bulged bases (H)	0	LSU rRNA	U	312	U	313	G	314	G	315	A	316	A	317	C	318	A	319	cWW	tWH
20	HL_2CSX_003	2CSX	0.3932	1	T-loop with 2 stacked bulged bases	C	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	U	60	C	61	cWW	tWH
21	HL_2BTE_008	2BTE	0.3722	1	T-loop with 2 stacked bulged bases	E	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
22	HL_1J2B_004	1J2B	0.3362	1		D	tRNA	G	954	U	955	U	956	C	957	A	958	A	959	U	961	C	962	ncWW	tWH
23	HL_2ZJR_009	2ZJR	0.2888	0	T-loop with 2 stacked bulged bases (H)	X	LSU rRNA	C	316	U	317	G	318	G	319	A	320	A	321	A	322	G	323	cWW	tWH
24	HL_3ADC_004	3ADC	0.2988	1	T-loop with 2 stacked bulged bases (H)	C	Selenocysteine transfer RNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
25	HL_1J2B_002	1J2B	0.3204	1	T-loop with 2 stacked bulged bases	C	tRNA	G	954	U	955	U	956	C	957	A	958	A	959	U	961	C	962	cWW	tWH
26	HL_1J1U_003	1J1U	0.3303	1	T-loop with 2 stacked bulged bases	B	tRNA	G	554	U	555	U	556	C	557	A	558	A	559	U	561	C	562	cWW	tWH
27	HL_2AKE_003	2AKE	0.3334	1		B	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	U	60	C	61	cWW	tWH
28	HL_1QU2_003	1QU2	0.2984	1	T-loop with 2 stacked bulged bases	T	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
29	HL_2AZX_003	2AZX	0.3044	1		C	tRNA	G	553	U	554	U	555	C	556	G	557	A	558	U	560	C	561	cWW	tWH
30	HL_2ZZN_006	2ZZN	0.2664	1	T-loop with 2 stacked bulged bases	D	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
31	HL_1U0B_003	1U0B	0.2801	1	T-loop with 2 stacked bulged bases	A	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	U	60	C	61	cWW	tWH
32	HL_2A64_002	2A64	0.2632	0	T-loop with 2 stacked bulged bases	A	RNase P class B	C	69	U	70	G	71	A	72	G	73	A	74	U	75	G	76	cWW	tWH
33	HL_3DHS_002	3DHS	0.2474	0		A	RNase P class B	C	69	U	70	G	71	A	72	G	73	A	74	U	75	G	76	cWW	tWH
34	HL_2CV1_003	2CV1	0.2510	1		C	tRNA	G	553	U	554	U	555	C	556	G	557	A	558	U	560	C	561	cWW	tWH
35	HL_2ZM5_003	2ZM5	0.2742	1	T-loop with 2 stacked bulged bases (H)	C	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	U	60	C	61	cWW	tWH
36	HL_3OUY_001	3OUY	0.2512	1		C	RNA (35-MER)	G	12	U	13	U	14	C	15	A	16	A	17	U	19	C	20	cWW	ntWH
37	HL_3AL0_003	3AL0	0.2732	1	T-loop with 2 stacked bulged bases	E	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	U	60	C	61	cWW	tWH
38	HL_2NRE_003	2NRE	0.2968	1		F	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	ntWH
39	HL_2D6F_003	2D6F	0.2926	1		E	tRNA	G	953	U	954	U	955	C	956	G	957	A	958	U	960	C	961	cWW	tWH
40	HL_2DER_003	2DER	0.4559	1		C	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	U	60	C	61	cWW	tWH
41	HL_3G78_001	3G78	0.3412	1		A	Group II catalytic intron D1-D4-3	G	30	U	31	G	32	A	33	G	34	A	35	U	37	C	38	cWW	tWH
42	HL_3A2K_006	3A2K	0.2643	1		D	tRNA	G	54	U	55	U	56	C	57	G	58	A	59	U	61	C	62	cWW	tWH
43	HL_2AZX_006	2AZX	0.2950	1	T-loop with 2 stacked bulged bases	D	tRNA	G	553	U	554	U	555	C	556	G	557	A	558	U	560	C	561	ncWW	tWH
44	HL_2D6F_006	2D6F	0.2810	1	T-loop with 2 stacked bulged bases	F	tRNA	G	953	U	954	U	955	C	956	G	957	A	958	U	960	C	961	cWW	tWH
45	HL_3Q1Q_011	3Q1Q	0.2622	1		C	tRNA	G	63	U	64	U	65	C	66	G	67	A	68	U	70	C	71	cWW	tWH
46	HL_3O58_005	3O58	0.2557	0		1	LSU rRNA	U	194	U	195	G	196	G	197	A	198	A	199	C	200	A	201	cWW	ntWH
47	HL_2BTE_004	2BTE	0.2595	1	T-loop with 2 stacked bulged bases	B	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
48	HL_3O58_031	3O58	0.2542	1		1	LSU rRNA	A	1462	U	1463	G	1464	A	1465	G	1466	A	1467	C	1469	U	1470	cWW	tWH
49	HL_3EPH_006	3EPH	0.2519	1		F	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	60	C	61	cWW	ntWH
50	HL_3AM1_004	3AM1	0.3221	1	T-loop with 2 stacked bulged bases	B	ASL-truncated tRNA	G	59	U	60	U	61	C	62	G	63	A	64	U	66	C	67	cWW	tWH
51	HL_2ZJR_032	2ZJR	0.3632	1		X	LSU rRNA	G	1294	U	1295	G	1296	A	1297	G	1298	A	1299	U	1301	C	1302	cWW	tWH
52	HL_2NR0_010	2NR0	0.3991	1		G	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
53	HL_3ADD_004	3ADD	0.2707	1	T-loop with 2 stacked bulged bases	C	Selenocysteine transfer RNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
54	HL_2ZZM_004	2ZZM	0.2808	1	T-loop with 2 stacked bulged bases	B	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
55	HL_3PYO_032	3PYO	0.3174	1		A	LSU rRNA	G	1281	U	1282	G	1283	A	1284	G	1285	A	1286	U	1288	C	1289	cWW	tWH
56	HL_3O58_014	3O58	0.2556	2		1	LSU rRNA	U	640	C	641	U	642	U	643	G	644	A	645	A	647	A	649	cWW
57	HL_1WZ2_004	1WZ2	0.3219	1		C	tRNA	G	965	U	966	U	967	C	968	G	969	A	970	U	972	C	973	cWW	tWH
58	HL_3A3A_004	3A3A	0.3246	1	T-loop with 2 stacked bulged bases (H)	A	Selenocysteine transfer RNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
59	HL_2NR0_007	2NR0	0.2748	1		F	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	ncWW		ntWH
60	HL_2QBG_019	2QBG	0.2450	2		B	LSU rRNA	U	566	U	567	U	568	U	569	G	570	U	571	U	573	A	575	cWW
61	HL_2DU6_003	2DU6	0.2524	1		D	tRNA	G	952	U	953	U	954	C	955	G	956	A	957	U	959	C	960	cWW	ntWH
62	HL_2ZZN_003	2ZZN	0.2998	1		C	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
63	HL_2FK6_002	2FK6	0.2775	1		R	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	C	60	C	61	cWW	tWH
64	HL_3L0U_003	3L0U	0.2896	1	T-loop with 2 stacked bulged bases (H)	A	tRNA	G	53	U	54	U	55	C	56	G	57	A	58	U	60	C	61	cWW	tWH
65	HL_3ADC_008	3ADC	0.3274	1	T-loop with 2 stacked bulged bases (H)	D	Selenocysteine transfer RNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
66	HL_3ADD_008	3ADD	0.3299	1	T-loop with 2 stacked bulged bases (H)	D	Selenocysteine transfer RNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	tWH
67	HL_3F4G_004	3F4G	0.2936	1		Y	FMN riboswitch	G	68	U	69	G	70	A	71	A	72	A	73	U	75	C	76	cWW	tWH
68	HL_3F4G_001	3F4G	0.2807	1		X	FMN riboswitch	G	17	U	18	G	19	A	20	A	21	A	22	U	24	C	25	cWW	tWH
69	HL_2NR0_013	2NR0	0.0000	1		H	tRNA	G	53	U	54	U	55	C	56	A	57	A	58	U	60	C	61	cWW	ntWH
70	HL_2CV1_006	2CV1	0.2713	1		D	tRNA	G	553	U	554	U	555	C	556	G	557	A	558	U	560	C	561	cWW	tWH
71	HL_3ICQ_002	3ICQ	0.2930	1		D	RNA (62-MER)	G	53	U	54	U	55	C	56	G	57	A	58	C	60	C	61	cWW	ntWH
72	HL_1GAX_006	1GAX	0.3957	1	T-loop with 2 stacked bulged bases	D	tRNA	G	952	U	953	U	954	C	955	A	956	A	957	U	959	C	960	cWW	tWH

3D structures

Complete motif including flanking bases

Sequence	Counts
GUUCAAGUC	15
GUUCGAAUC	10
GUUCGAUUC	7
GUUCAAAUC	5
GUUCAAUUC	5
GUUCGAGUC	4
GUUCGAUCC	3
GUUCGACUC	3
GUGAAACUC	2
CUGGAAAG	2
UUGGAACA	2
CUGAGAUG	2
GUGAGAAUC	2
GUGAAAUUC	2
UUGGGAAG	1
GUGAGAACC	1
GUGAAAAGC	1
GUGAGAGUC	1
AUGAGAACU	1
UCUUGAAACA	1
UUUUGUAUAA	1
GUUCGAGCC	1

Non-Watson-Crick part of the motif

Sequence	Counts
UUCAAGU	15
UUCGAAU	10
UUCGAUU	7
UUCAAAU	5
UUCAAUU	5
UUCGAGU	4
UUCGAUC	3
UUCGACU	3
UGAGAAC	2
UGAAACU	2
UGGAAA	2
UGGAAC	2
UGAGAU	2
UGAGAAU	2
UGAAAUU	2
UGGGAA	1
UGAAAAG	1
UGAGAGU	1
CUUGAAAC	1
UUUGUAUA	1
UUCGAGC	1

Release history

Release	0.1	0.2
Date	2011-12-08	2011-12-08
Status	New id, no parents	Exact match

Parent motifs

This motif has no parent motifs.

Children motifs

Child motif	Common motif instances	Only in HL_05993.1	Only in the child motif
HL_72498.1 Compare	HL_3L0U_003, HL_2AZX_003, HL_3F4G_001, HL_3F4G_004, HL_2DU3_003, HL_3ADC_004, HL_2DER_006, HL_2D6F_006, HL_3AL0_003, HL_3ICQ_005, HL_1QU2_003, HL_2QBG_034, HL_1S72_034, HL_2CSX_003, HL_2ZJR_032, HL_2NR0_004, HL_3ADD_004, HL_2ZZN_003, HL_2FK6_002, HL_3A2K_003, HL_2CV1_006, HL_3AM1_004, HL_1WZ2_008, HL_3OUY_001, HL_2NRE_003, HL_1J1U_003, HL_3G78_001, HL_2ZZM_004, HL_2ZNI_003, HL_1J2B_004, HL_1U0B_003, HL_1J2B_002, HL_2QBG_019, HL_2DU6_003, HL_2DR8_001, HL_2BTE_008, HL_3Q1Q_011, HL_1GAX_006, HL_2AKE_003, HL_2BTE_004, HL_3OVA_001, HL_2ZM5_003	HL_2D6F_003, HL_2AZX_006, HL_2ZUE_003, HL_3A3A_004, HL_2DER_003, HL_3O58_031, HL_3O58_014, HL_1S72_010, HL_3ICQ_002, HL_3ADC_008, HL_2NR0_007, HL_3ADD_008, HL_2ZZN_006, HL_2QBG_011, HL_1WZ2_004, HL_3A2K_006, HL_2CV1_003, HL_3DHS_002, HL_1O0C_003, HL_2A64_002, HL_3EPH_006, HL_2ZJR_009, HL_3O58_005, HL_3PYO_032, HL_2NR0_010, HL_2NR0_013, HL_3PYO_010, HL_2ZNI_006, HL_2NQP_004, HL_1GAX_003	HL_3U5H_014, HL_3EPH_003, HL_4A1B_015, HL_3RG5_004, HL_3V2F_018, HL_4A1B_030, HL_3U5H_031, HL_3V2F_030, HL_2ZUF_003, HL_3TUP_003, HL_3AMU_003, HL_2ZJR_017, HL_4AQ7_003, HL_1QRS_003
HL_97270.1 Compare	HL_2ZJR_009, HL_1S72_010, HL_2QBG_011, HL_2A64_002, HL_3DHS_002	HL_2D6F_003, HL_2AZX_006, HL_2ZUE_003, HL_3A3A_004, HL_1U0B_003, HL_2AZX_003, HL_3F4G_001, HL_2QBG_019, HL_2DU3_003, HL_2DER_003, HL_3ADC_004, HL_2DER_006, HL_3O58_014, HL_3AL0_003, HL_3ICQ_002, HL_2ZM5_003, HL_3ADC_008, HL_1QU2_003, HL_2D6F_006, HL_2QBG_034, HL_1S72_034, HL_2NR0_007, HL_2CSX_003, HL_2ZJR_032, HL_2NR0_004, HL_2AKE_003, HL_2ZZN_006, HL_3ICQ_005, HL_2ZZN_003, HL_2FK6_002, HL_1WZ2_004, HL_3A2K_006, HL_3A2K_003, HL_3Q1Q_011, HL_3AM1_004, HL_2CV1_003, HL_1WZ2_008, HL_3OUY_001, HL_1O0C_003, HL_2NRE_003, HL_3EPH_006, HL_1J1U_003, HL_3F4G_004, HL_3G78_001, HL_3O58_005, HL_2ZZM_004, HL_2CV1_006, HL_1J2B_004, HL_3PYO_032, HL_1J2B_002, HL_3ADD_008, HL_2NR0_010, HL_3L0U_003, HL_2NR0_013, HL_2DU6_003, HL_2ZNI_003, HL_3PYO_010, HL_2ZNI_006, HL_2DR8_001, HL_2NQP_004, HL_2BTE_008, HL_1GAX_003, HL_1GAX_006, HL_3ADD_004, HL_3O58_031, HL_2BTE_004, HL_3OVA_001	HL_3V2F_010, HL_2GDI_002, HL_4A1B_005, HL_3U5F_006, HL_2HOJ_002, HL_2XZM_006, HL_4A1B_037, HL_1S72_039, HL_3U5H_005, HL_2GDI_004

Motif HL_05993.1 Version HL_05993.1 of this group appears in releases 0.1 to 0.2 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_05993.1 Version HL_05993.1 of this group appears in releases 0.1 to 0.2

Download

Csv

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