Motif HL_08002.9 Version HL_08002.9 of this group appears in releases 3.83 to 3.86

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2		3		4		5		6	1-6	2-3
1	HL_8UIW_002	8UIW	0.2772	4	T-loop with unstacked turn	N	azaaromatic riboswitch aptamer (yjdF RNA)	G	50	U	51	A	56	G	57	U	58	C	59	cWW	tWH
2	HL_4FRN_007	4FRN	0.2095	3	T-loop with unstacked turn	B	Cobalamin riboswitch aptamer domain	G	56	U	57	A	61	C	62	U	63	C	64	cWW	tWH
3	HL_4FRG_003	4FRG	0.1421	3	T-loop with unstacked turn	B	cobalamin riboswitch aptamer domain	G	58	U	59	A	63	C	64	U	65	C	66	cWW	tWH
4	HL_6DN2_004	6DN2	0.0736	2	T-loop with unstacked turn	Y	RNA (56-MER)	G	88	U	89	A	92	G	93	U	94	C	95	cWW	tWH
5	HL_3F2X_005	3F2X	0.0637	2	T-loop with unstacked turn	X	FMN riboswitch	G	88	U	89	A	92	G	93	U	94	C	95	cWW	tWH
6	HL_5C45_004	5C45	0.0000	2	T-loop with unstacked turn	Y	FMN Riboswitch	G	88	U	89	A	92	G	93	U	94	C	95	cWW	tWH
7	HL_5C45_002	5C45	0.1458	2	T-loop with unstacked turn	X	FMN Riboswitch	G	36	U	37	A	40	G	41	U	42	C	43	cWW	tWH
8	HL_3F2X_002	3F2X	0.1815	2	T-loop with unstacked turn	X	FMN riboswitch	G	36	U	37	A	40	G	41	U	42	C	43	cWW	tWH
9	HL_6DN2_002	6DN2	0.1906	2	T-loop with unstacked turn	X	RNA RIBOSWITCH	G	36	U	37	A	40	G	41	U	42	C	43	cWW	tWH
10	HL_4OJI_002	4OJI	0.3573	4	T-loop with unstacked turn	A	RNA (52-MER)	G	23	U	24	A	29	G	30	C	31	C	32	cWW	tWH
11	HL_4RGE_003	4RGE	0.3573	4	T-loop with unstacked turn	C	env22 twister ribozyme	G	29	U	30	A	35	G	36	C	37	C	38	cWW	tWH
12	HL_5J7L_144	5J7L	0.3698	3	T-loop with unstacked turn	DA	LSU rRNA	G	327	U	328	A	332	G	333	C	334	C	335	cWW	tWH
13	HL_5TBW_007	5TBW	0.4056	3	T-loop with unstacked turn	1	LSU rRNA	G	216	U	217	A	221	A	222	U	223	C	224	cWW	tWH
14	HL_8C3A_007	8C3A	0.4189	3	T-loop with unstacked turn	1	LSU rRNA	G	215	U	216	A	220	A	221	U	222	C	223	cWW	tWH
15	HL_7RQB_012	7RQB	0.4068	3	T-loop with unstacked turn	1A	LSU rRNA	G	327	U	328	A	332	G	333	C	334	C	335	cWW	tWH
16	HL_4V9F_012	4V9F	0.4223	3	T-loop with unstacked turn	0	LSU rRNA	G	334	U	335	A	339	A	340	C	341	C	342	cWW	tWH
17	HL_4WF9_012	4WF9	0.4282	3	T-loop with unstacked turn	X	LSU rRNA	G	370	U	371	A	375	A	376	U	377	C	378	cWW	ntWH
18	HL_4QJD_004	4QJD	0.3807	4	T-loop with unstacked turn	D	Twister RNA sequence	G	43	U	44	A	49	G	50	C	51	C	52	cWW	ntWW
19	HL_7A0S_012	7A0S	0.5792	3	T-loop with unstacked turn	X	LSU rRNA	G	338	U	339	A	343	G	344	U	345	C	346	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
GUAGAGUC	3
GUAUAGUC	3
GUUAUACUC	2
GUCCCAAGCC	2
GUGAGAAUC	2
GUAGGUAGUC	1
GUCCUAAGCC	1
GUGACAGCC	1
GUGAAAGCC	1
GUGACAACC	1
GUAAUAAUC	1
GUGAGAGUC	1

Non-Watson-Crick part of the motif

Sequence	Counts
UAGAGU	3
UAUAGU	3
UUAUACU	2
UCCCAAGC	2
UGAGAAU	2
UAGGUAGU	1
UCCUAAGC	1
UGACAGC	1
UGAAAGC	1
UGACAAC	1
UAAUAAU	1
UGAGAGU	1

Release history

Release	3.83	3.84	3.85	3.86
Date	2024-04-24	2024-05-22	2024-06-19	2024-07-17
Status	Updated, 1 parent	Exact match	Exact match	Exact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: T-loop with unstacked turn (19)
Basepair signature: cWW-tWH-F-F
Heat map statistics: Min 0.06 | Avg 0.30 | Max 0.90

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Coloring options: Nucleotide numbers

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