Motif IL_88739.5 Version IL_88739.5 of this group appears in releases 3.89 to 3.89

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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	2-5	3-4
1	IL_7A0S_066	7A0S	0.1712	1	Major groove outside cWW, minor groove, intercalation pocket	X	LSU rRNA	C	1829	G	1831	G	1832	*	C	1885	G	1886	cWW		cWW
2	IL_8C3A_089	8C3A	0.1725	1	Major groove outside cWW, minor groove, intercalation pocket (H)	1	LSU rRNA	C	2174	A	2176	G	2177	*	C	2223	G	2224	cWW		cWW
3	IL_5TBW_084	5TBW	0.1411	1	Major groove outside cWW, minor groove, intercalation pocket	1	LSU rRNA	C	2196	A	2198	G	2199	*	C	2245	G	2246	cWW		cWW
4	IL_8VTW_070	8VTW	0.1966	1	Major groove outside cWW, minor groove, intercalation pocket (H)	1A	LSU rRNA	C	1837	G	1839	G	1840	*	C	1902	G	1903	cWW		cWW
5	IL_4V9F_066	4V9F	0.1403	1	Major groove outside cWW, minor groove, intercalation pocket	0	LSU rRNA	C	1893	A	1895	G	1896	*	C	1943	G	1944	cWW		cWW
6	IL_5J7L_314	5J7L	0.0000	1	Major groove outside cWW, minor groove, intercalation pocket	DA	LSU rRNA	C	1837	G	1839	G	1840	*	C	1902	G	1903	cWW	ntHS	cWW
7	IL_1U9S_005	1U9S	0.1387	1	Major groove outside cWW, minor groove, intercalation pocket	A	RIBONUCLEASE P	C	136	G	138	C	139	*	G	161	G	162	cWW	ntHS	cWW
8	IL_8VTW_072	8VTW	0.2992	1	Minor groove platform (H)	1A	LSU rRNA	G	1846	A	1848	G	1849	*	C	1893	C	1894	cWW	ncWS	cWW
9	IL_4LFB_045	4LFB	0.5499	2	Minor groove platform	A	SSU rRNA	U	1199	G	1202	C	1203	*	G	1057	G	1058	cWW	tHS	cWW
10	IL_5J7L_048	5J7L	0.5774	2	Minor groove platform	AA	SSU rRNA	U	1199	U	1202	C	1203	*	G	1057	G	1058	cWW	tHS	cWW
11	IL_6CZR_155	6CZR	0.5248	2	Minor groove platform	1a	SSU rRNA	U	1181	G	1184	C	1185	*	G	1040	G	1041	cWW	ntHS	cWW
12	IL_3RW6_003	3RW6	0.7181	1	Minor groove platform	H	constitutive transport element(CTE)of Mason-Pfizer monkey virus RNA	U	38	A	40	U	41	*	A	20	G	21	cWW	tHS	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CCGG*CG	3
CCAG*CG	3
UCAGC*GG	2
CAGC*GG	1
GAAG*CC	1
UCAUC*GG	1
UAAU*AG	1

Non-Watson-Crick part of the motif

Sequence	Counts
CG*	3
CA*	3
AA*	2
CAG*	2
AG*	1
CAU*	1

Release history

Release	3.89
Date	2024-10-09
Status	Updated, 2 parents

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: Major groove outside cWW, minor groove, intercalation pocket (5)
Minor groove platform (4)
Major groove outside cWW, minor groove, intercalation pocket (H) (2)
Minor groove platform (H) (1)
Basepair signature: cWW-L-cWW
Heat map statistics: Min 0.10 | Avg 0.38 | Max 0.85

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Coloring options: Nucleotide numbers

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