Motif IL_27635.4 Version IL_27635.4 of this group appears in releases 3.87 to 3.87

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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	1-5	2-3	2-4	3-4
1	IL_5J7L_264	5J7L	0.4229	0	Major groove platform	DA	LSU rRNA	G	738	A	739	C	740	*	G	757	C	758	cWW	cSH		cWW
2	IL_4WF9_026	4WF9	0.3954	0	Major groove platform	X	LSU rRNA	G	783	A	784	C	785	*	G	802	C	803	cWW	cSH		cWW
3	IL_7A0S_085	7A0S	0.1742	0	Major groove platform	X	LSU rRNA	U	2436	G	2437	A	2438	*	U	2472	G	2473	cWW		ntSH	cWW
4	IL_4WF9_091	4WF9	0.0000	0	Major groove platform	X	LSU rRNA	U	2484	U	2485	A	2486	*	U	2520	G	2521	cWW	cSH		cWW
5	IL_4OQU_002	4OQU	0.2461	0	Major groove platform	A	SAM-I/IV riboswitch	C	42	A	43	A	44	*	U	29	G	30	cWW	ncSH		cWW
6	IL_1S03_004	1S03	0.2598	0	Major groove platform	A	47-MER	C	34	A	35	A	36	*	U	16	G	17	cWW	cSH	tSH	cWW
7	IL_1S03_008	1S03	0.2552	0	Major groove platform	B	47-MER	C	34	A	35	A	36	*	U	16	G	17	cWW	cSH	tSH	cWW
8	IL_5J7L_028	5J7L	0.2835	0	Major groove platform	AA	SSU rRNA	U	594	A	595	A	596	*	U	644	G	645	cWW	cSH	ntSH	cWW
9	IL_1I6U_001	1I6U	0.2778	0	Major groove platform	C	16S RRNA FRAGMENT	U	9	A	10	A	11	*	U	28	G	29	cWW	cSH	ntSH	cWW
10	IL_7A0S_073	7A0S	0.2981	0	Major groove platform	X	LSU rRNA	C	2033	A	2034	G	2035	*	C	2596	G	2597	cWW	cSH		cWW
11	IL_4WF9_078	4WF9	0.2906	0	Major groove platform	X	LSU rRNA	C	2077	A	2078	G	2079	*	C	2644	G	2645	cWW	cSH		cWW
12	IL_8VTW_077	8VTW	0.2488	0	Major groove platform	1A	LSU rRNA	C	2050	A	2051	G	2052	*	C	2617	G	2618	cWW	cSH		cWW
13	IL_5J7L_320	5J7L	0.2273	0	Major groove platform	DA	LSU rRNA	C	2050	A	2051	A	2052	*	U	2617	G	2618	cWW	cSH	tSH	cWW
14	IL_8TSV_001	8TSV	0.2730	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
15	IL_3NKB_002	3NKB	0.2989	0	Major groove platform	B	Hepatitis delta virus ribozyme	G	55	U	56	A	57	*	U	47	C	48	cWW	cSH		cWW
16	IL_3OXE_003	3OXE	0.2623	0	Major groove platform	A	domain II of glycine riboswitch	C	68	U	69	C	70	*	G	35	G	36	cWW	cSH		cWW
17	IL_4LFB_024	4LFB	0.2515	0	Major groove platform	A	SSU rRNA	G	594	G	595	C	596	*	G	644	C	645	cWW	ncSH	ntSH	cWW
18	IL_4V9F_044	4V9F	0.3954	1	Major groove platform	0	LSU rRNA	A	1191	A	1193	A	1194	*	U	1205	U	1206	cWW	cSH	ntSH	cWW
19	IL_7A0S_023	7A0S	0.3511	1	Major groove platform; stack outside cWW	X	LSU rRNA	U	857	G	858	U	860	*	A	944	G	945	cWW			cWW
20	IL_5TBW_102	5TBW	0.4081	0	Major groove platform	1	LSU rRNA	U	2865	U	2866	C	2867	*	G	2823	G	2824	cWW	ncSH		cWW
21	IL_7A0S_084	7A0S	0.3749	0	Major groove platform	X	LSU rRNA	C	2475	A	2476	C	2477	*	G	2433	G	2434	cWW	cSH		cWW
22	IL_8VTW_091	8VTW	0.3128	0	Major groove platform	1A	LSU rRNA	C	2496	A	2497	C	2498	*	G	2454	G	2455	cWW	cSH		cWW
23	IL_4V9F_082	4V9F	0.3557	0	Major groove platform	0	LSU rRNA	U	2531	A	2532	C	2533	*	G	2489	A	2490	cWW	cSH		cWW
24	IL_4WF9_090	4WF9	0.3663	0	Major groove platform	X	LSU rRNA	C	2523	A	2524	C	2525	*	G	2481	G	2482	cWW	cSH		cWW
25	IL_7A0S_082	7A0S	0.3904	0	Major groove platform	X	LSU rRNA	U	2380	A	2381	C	2382	*	G	2393	G	2394	cWW	cSH		cWW
26	IL_1XJR_002	1XJR	0.4655	0	Major groove platform	A	s2m RNA	U	37	A	38	C	39	*	G	13	G	14	cWW	cSH		cWW
27	IL_8VTW_089	8VTW	0.4278	0	Major groove platform	1A	LSU rRNA	U	2401	C	2402	C	2403	*	G	2414	G	2415	cWW	cSH		cWW
28	IL_8VTW_008	8VTW	0.4328	0	Major groove platform	1A	LSU rRNA	U	363\|\|\|E	A	363\|\|\|F	C	364	*	G	272\|\|\|D	G	272\|\|\|E	cWW			cWW
29	IL_5Y85_005	5Y85	0.4028	0	Major groove platform	D+C	DNA/RNA (50-MER)	C	40	G	41	C	42	*	G	9	G	10	cWW			cWW
30	IL_4LFB_028	4LFB	0.4807	0	Major groove platform	A	SSU rRNA	C	747	C	748	C	749	*	G	657	G	658	cWW			cWW
31	IL_1G1X_005	1G1X	0.4756	0	Major groove platform	J+I	16S RIBOSOMAL RNA	C	747	C	748	C	749	*	G	657	G	658	cWW	ncSH		cWW
32	IL_1G1X_002	1G1X	0.5106	0	Major groove platform	E+D	16S RIBOSOMAL RNA	C	747	C	748	C	749	*	G	657	G	658	cWW	ncSH		cWW
33	IL_5T5A_002	5T5A	0.4307	0	Major groove platform	A	DNA/RNA (71-MER)	C	50	G	51	C	52	*	G	10	G	11	cWW	ncSH		cWW
34	IL_6CZR_140	6CZR	0.5179	0	Major groove platform	1a	SSU rRNA	C	731	C	732	C	733	*	G	641	G	642	cWW			cWW
35	IL_7EOG_001	7EOG	0.4762	0	Major groove platform	A	Pepper (49-MER)	C	5	A	6	C	7	*	G	44	G	45	cWW	cSH		cWW
36	IL_7EOM_001	7EOM	0.4557	0	Major groove platform	A	Pepper (49-MER)	C	5	A	6	C	7	*	G	44	G	45	cWW	ncSH		cWW
37	IL_3SUX_002	3SUX	0.6078	0	Major groove platform	X	THF riboswitch	U	47	G	48	U	49	*	G	37	A	38	ncWW			cWW
38	IL_6JOO_001	6JOO	0.9518	2		B	Guide RNA	G	61	U	64	C	65	*	G	57	C	58	cWW			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
UAA*UG	2
CGC*GG	2
UGA*UG	1
UUA*UG	1
UGC*GA	1
GUA*UC	1
CUC*GG	1
GGC*GC	1
AAAA*UU	1
UGUU*AG	1
UUC*GG	1
UAC*GA	1
UCC*GG	1
UGU*GA	1
GUUUC*GC	1

Non-Watson-Crick part of the motif

Sequence	Counts
A*	20
G*	6
C*	5
U*	4
AA*	1
GU*	1
UUU*	1

Release history

Release	3.87
Date	2024-08-14
Status	Updated, 1 parent

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: Major groove platform (36)
(1)
Major groove platform; stack outside cWW (1)
Basepair signature: cWW-cSH-cWW
Heat map statistics: Min 0.04 | Avg 0.32 | Max 1.00

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