Motif IL_48076.2 Version IL_48076.2 of this group appears in releases 3.91 to 3.92

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Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2		3	break		4		5	1-3	1-5	2-3	2-4	3-4
1	IL_8P9A_293	8P9A	0.5842	1	Major groove platform related	AR	LSU rRNA	U	1819	U	1820	C	1822	*	G	1623	G	1624		ncWW	ncSH		cWW
2	IL_5J7L_264	5J7L	0.4302	0	Major groove platform	DA	LSU rRNA	G	738	A	739	C	740	*	G	757	C	758		cWW	cSH		cWW
3	IL_4WF9_026	4WF9	0.3379	0	Major groove platform	X	LSU rRNA	G	783	A	784	C	785	*	G	802	C	803		cWW	cSH		cWW
4	IL_4V9F_044	4V9F	0.2995	1	Major groove platform	0	LSU rRNA	A	1191	A	1193	A	1194	*	U	1205	U	1206		cWW	cSH	ntSH	cWW
5	IL_5J7L_385	5J7L	0.3927	1	Major groove platform	DA	LSU rRNA	G	1087	A	1089	A	1090	*	U	1101	C	1102		cWW			ncWW
6	IL_3OXE_003	3OXE	0.2045	0	Major groove platform	A	domain II of glycine riboswitch	C	68	U	69	C	70	*	G	35	G	36		cWW	cSH		cWW
7	IL_6CZR_407	6CZR	0.2352	0	Major groove platform	1a	SSU rRNA	G	578	G	579	C	580	*	G	628	C	629		cWW		ntSH	ncWW
8	IL_4LFB_024	4LFB	0.2031	0	Major groove platform	A	SSU rRNA	G	594	G	595	C	596	*	G	644	C	645		cWW	ncSH	ntSH	cWW
9	IL_9DFE_093	9DFE	0.2834	0	Major groove platform	1A	LSU rRNA	U	2457	G	2458	A	2459	*	U	2493	G	2494		ncWW		tSH	cWW
10	IL_4WF9_091	4WF9	0.3208	0	Major groove platform	X	LSU rRNA	U	2484	U	2485	A	2486	*	U	2520	G	2521		cWW	cSH		cWW
11	IL_7A0S_085	7A0S	0.3004	0	Major groove platform	X	LSU rRNA	U	2436	G	2437	A	2438	*	U	2472	G	2473		cWW		ntSH	cWW
12	IL_5J7L_320	5J7L	0.1952	0	Major groove platform	DA	LSU rRNA	C	2050	A	2051	A	2052	*	U	2617	G	2618		cWW	cSH	tSH	cWW
13	IL_9DFE_078	9DFE	0.2164	0	Major groove platform	1A	LSU rRNA	C	2050	A	2051	G	2052	*	C	2617	G	2618		cWW	cSH		cWW
14	IL_4WF9_078	4WF9	0.2316	0	Major groove platform	X	LSU rRNA	C	2077	A	2078	G	2079	*	C	2644	G	2645		cWW	cSH		cWW
15	IL_7A0S_073	7A0S	0.2054	0	Major groove platform	X	LSU rRNA	C	2033	A	2034	G	2035	*	C	2596	G	2597		cWW	cSH		cWW
16	IL_5VOE_005	5VOE	0.2206	0	Major groove platform	A	Aptamer 11F7t (36-MER)	UFT	24	G	25	G	26	*	CFL	12	G	13		cWW	ncSH		cWW
17	IL_1I6U_001	1I6U	0.1639	0	Major groove platform	C	16S RRNA FRAGMENT	U	9	A	10	A	11	*	U	28	G	29		cWW	cSH	ntSH	cWW
18	IL_5J7L_028	5J7L	0.1646	0	Major groove platform	AA	SSU rRNA	U	594	A	595	A	596	*	U	644	G	645		cWW	cSH	ntSH	cWW
19	IL_8TSV_001	8TSV	0.1313	0	Major groove platform	A+B	Zika virus stem-loop A (SLA) top stem	U	6	G	7	C	8	*	G	19	A	20		cWW	ncSH	tSH	cWW
20	IL_1S03_008	1S03	0.2021	0	Major groove platform	B	47-MER	C	34	A	35	A	36	*	U	16	G	17		cWW	cSH	tSH	cWW
21	IL_1S03_004	1S03	0.1954	0	Major groove platform	A	47-MER	C	34	A	35	A	36	*	U	16	G	17		cWW	cSH	tSH	cWW
22	IL_4OQU_002	4OQU	0.1942	0	Major groove platform	A	SAM-I/IV riboswitch	C	42	A	43	A	44	*	U	29	G	30		cWW	ncSH		cWW
23	IL_9DFE_092	9DFE	0.0000	0	Major groove platform	1A	LSU rRNA	C	2496	A	2497	C	2498	*	G	2454	G	2455		cWW	cSH		cWW
24	IL_4V9F_082	4V9F	0.0993	0	Major groove platform	0	LSU rRNA	U	2531	A	2532	C	2533	*	G	2489	A	2490		cWW	cSH		cWW
25	IL_5J7L_392	5J7L	0.0849	0	Major groove platform	DA	LSU rRNA	C	2496	A	2497	OMC	2498	*	G	2454	G	2455		cWW	cSH		cWW
26	IL_4WF9_090	4WF9	0.1170	0	Major groove platform	X	LSU rRNA	C	2523	A	2524	C	2525	*	G	2481	G	2482		cWW	cSH		cWW
27	IL_7A0S_084	7A0S	0.1127	0	Major groove platform	X	LSU rRNA	C	2475	A	2476	C	2477	*	G	2433	G	2434		cWW	cSH		cWW
28	IL_7A0S_082	7A0S	0.1404	0	Major groove platform	X	LSU rRNA	U	2380	A	2381	C	2382	*	G	2393	G	2394		cWW	cSH		cWW
29	IL_8P9A_329	8P9A	0.1735	0	Major groove platform	AR	LSU rRNA	U	2865	U	2866	C	2867	*	G	2823	G	2824	ncSH	cWW			cWW
30	IL_9DFE_090	9DFE	0.1726	0	Major groove platform	1A	LSU rRNA	U	2401	C	2402	C	2403	*	G	2414	G	2415		cWW	ncSH		cWW
31	IL_1XJR_002	1XJR	0.1946	0	Major groove platform	A	s2m RNA	U	37	A	38	C	39	*	G	13	G	14		cWW	cSH		cWW
32	IL_9DFE_008	9DFE	0.2160	0	Major groove platform	1A	LSU rRNA	U	363\|\|\|E	A	363\|\|\|F	C	364	*	G	272\|\|\|D	G	272\|\|\|E		cWW	ncSH		cWW
33	IL_7EOG_001	7EOG	0.2236	0	Major groove platform	A	Pepper (49-MER)	C	5	A	6	C	7	*	G	44	G	45		cWW	cSH		cWW
34	IL_7EOM_001	7EOM	0.2207	0	Major groove platform	A	Pepper (49-MER)	C	5	A	6	C	7	*	G	44	G	45		cWW	ncSH		cWW
35	IL_5Y85_005	5Y85	0.2261	0	Major groove platform	D+C	DNA/RNA (50-MER)	C	40	G	41	C	42	*	G	9	G	10		cWW			cWW
36	IL_4LFB_028	4LFB	0.2647	0	Major groove platform	A	SSU rRNA	C	747	C	748	C	749	*	G	657	G	658		cWW			cWW
37	IL_5T5A_002	5T5A	0.1874	0	Major groove platform	A	DNA/RNA (71-MER)	C	50	G	51	C	52	*	G	10	G	11		cWW	ncSH		cWW
38	IL_1G1X_005	1G1X	0.2606	0	Major groove platform	J+I	16S RIBOSOMAL RNA	C	747	C	748	C	749	*	G	657	G	658		cWW	ncSH		cWW
39	IL_1G1X_002	1G1X	0.2578	0	Major groove platform	E+D	16S RIBOSOMAL RNA	C	747	C	748	C	749	*	G	657	G	658		cWW	ncSH		cWW
40	IL_6CZR_140	6CZR	0.3263	0	Major groove platform	1a	SSU rRNA	C	731	C	732	C	733	*	G	641	G	642		cWW			cWW
41	IL_3SUX_002	3SUX	0.4695	0	Major groove platform	X	THF riboswitch	U	47	G	48	U	49	*	G	37	A	38		ncWW			cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CAC*GG	5
CAA*UG	4
CCC*GG	4
CAG*CG	3
UAC*GG	3
GAC*GC	2
GGC*GC	2
UGA*UG	2
UAA*UG	2
CGC*GG	2
UUUC*GG	1
AAAA*UU	1
GAAA*UC	1
CUC*GG	1
UUA*UG	1
(UFT)GG*(CFL)G	1
UGC*GA	1
UAC*GA	1
CA(OMC)*GG	1
UUC*GG	1
UCC*GG	1
UGU*GA	1

Non-Watson-Crick part of the motif

Sequence	Counts
A*	21
G*	9
C*	5
U*	3
AA*	2
UU*	1

Release history

Release	3.91	3.92
Date	2024-12-04	2025-01-01
Status	Updated, 1 parent	Exact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: Major groove platform (40)
Major groove platform related (1)
Basepair signature: cWW-cSH-cWW
Heat map statistics: Min 0.04 | Avg 0.31 | Max 0.92

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Coloring options: Nucleotide numbers

Motif IL_48076.2 Version IL_48076.2 of this group appears in releases 3.91 to 3.92 Download Csv Json

3D structures

Complete motif including flanking bases

Non-Watson-Crick part of the motif

Release history

Parent motifs

Children motifs

Motif IL_48076.2 Version IL_48076.2 of this group appears in releases 3.91 to 3.92

Download

Csv

Json