Motif IL_61258.10 Version IL_61258.10 of this group appears in releases 3.62 to 3.76

Download

Csv

Json

Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2	break		3		4	1-4	2-3
1	IL_5KPY_001	5KPY	0.5728	1	Single bulged C	A	5-hydroxytryptophan RNA aptamer	U	25	G	27	*	C	43	A	44	cWW	cWW
2	IL_7RQB_108	7RQB	0.4433	1	Single bulged C	1A	LSU rRNA	U	2878	C	2880	*	G	2838	G	2839	cWW	cWW
3	IL_1KUQ_002	1KUQ	0.2910	1	Single bulged C	B	16S RIBOSOMAL RNA FRAGMENT	C	46	C	48	*	G	21	G	22	cWW	cWW
4	IL_6CK5_003	6CK5	0.3831	1	Single bulged C	A	Guanidine-I riboswitch	U	39	G	41	*	C	21	A	22	cWW	cWW
5	IL_7A0S_032	7A0S	0.2164	1	Single bulged C	X	LSU rRNA	U	1005	A	1007	*	U	1170	A	1171	cWW	cWW
6	IL_7RQB_035	7RQB	0.2293	1	Single bulged C	1A	LSU rRNA	C	994	A	996	*	U	1159	G	1160	cWW	cWW
7	IL_5J7L_276	5J7L	0.2799	1	Single bulged C	DA	LSU rRNA	C	994	A	996	*	U	1159	G	1160	cWW	cWW
8	IL_4WF9_035	4WF9	0.2531	1	Single bulged C	X	LSU rRNA	C	1038	A	1040	*	U	1203	G	1204	cWW	cWW
9	IL_1DQF_001	1DQF	0.1404	1	Single bulged C	B+A	RNA (10-mer)	U	15	G	17	*	C	3	A	4	cWW	cWW
10	IL_3SN2_001	3SN2	0.1468	1	Single bulged C	B	transferrin receptor iron regulatory element B RNA	U	7	G	9	*	C	24	A	25	cWW	cWW
11	IL_1S03_002	1S03	0.1238	1	Single bulged C	A	47-MER	G	9	G	11	*	C	39	C	40	cWW	cWW
12	IL_1DQH_001	1DQH	0.0000	1	Single bulged C	B+A	RNA (10-mer)	U	15	G	17	*	C	3	A	4	cWW	cWW
13	IL_1S03_006	1S03	0.0979	1	Single bulged C	B	47-MER	G	9	G	11	*	C	39	C	40	cWW	cWW
14	IL_5TBW_002	5TBW	0.2350	1	Single bulged C	4+1	5.8S rRNA	G	150	G	152	*	C	7	C	8	cWW	cWW
15	IL_5TBW_069	5TBW	0.1822	1	Single bulged C	1	LSU rRNA	G	1778	G	1780	*	C	1669	C	1670	cWW	cWW
16	IL_4V88_384	4V88	0.2057	1	Single bulged C	A6	SSU rRNA	U	24	A	26	*	U	600	A	601	cWW	cWW
17	IL_3D0U_001	3D0U	0.2319	1	Single bulged C	A	Lysine Riboswitch RNA	C	75	C	76	*	G	9	G	11	cWW	cWW
18	IL_3DIL_001	3DIL	0.2600	1	Single bulged C	A	RNA (174-MER)	C	78	C	79	*	G	12	G	14	cWW	cWW
19	IL_4C7O_003	4C7O	0.4972	1	Single bulged C	E	SRP RNA	C	12	G	13	*	C	31	G	33	cWW	cWW
20	IL_7A0S_010	7A0S	0.3572	1	Single bulged C	X	LSU rRNA	C	552	C	553	*	G	558	G	560	cWW	cWW
21	IL_5J7L_311	5J7L	0.4762	1	Single bulged C	DA	LSU rRNA	G	1731	G	1733	*	C	1727	C	1728	ncWW	cWW
22	IL_3W3S_001	3W3S	0.4184	1	Single bulged C	B	Selenocysteine transfer RNA	G	11	C	12	*	G	23	C	24	cWW	cWW
23	IL_3SNP_003	3SNP	0.4295	1	Single bulged C	D	ferritin H IRE RNA	G	7	U	9	*	A	24	C	25	cWW	cWW
24	IL_5F5H_002	5F5H	0.4044	1	Single bulged C	D	RNA (21-mer)	G	18	U	20	*	A	4	C	5	cWW	cWW
25	IL_5F5H_001	5F5H	0.3830	1	Single bulged C	C	RNA (21-mer)	G	18	U	20	*	A	4	C	5	cWW	cWW
26	IL_7KGA_004	7KGA	0.3488	1	Single bulged C	B	Flavivirus DB element	A	44	U	46	*	A	10	U	11	cWW	cWW
27	IL_7A0S_055	7A0S	0.3853	1	Single bulged C	X	LSU rRNA	G	1488	U	1490	*	A	1534	C	1535	cWW	cWW
28	IL_7A0S_025	7A0S	0.4160	1	Single bulged C	X	LSU rRNA	G	938	G	940	*	C	863	C	864	cWW	ncWW
29	IL_7KGA_001	7KGA	0.2856	1	Single bulged C	A	Flavivirus DB element	A	44	U	46	*	A	10	U	11	cWW	cWW
30	IL_3HHN_003	3HHN	0.3593	1	Single bulged C	E	Class I ligase ribozyme, self-ligation product	G	46	U	48	*	A	112	C	113	cWW	cWW
31	IL_6ZDP_001	6ZDP	0.3178	1	Single bulged C	B	Chains: B	A	1346	U	1348	*	A	1290	U	1291	cWW	cWW
32	IL_3IVK_001	3IVK	0.5153	1	Single bulged C	M	class I ligase product	G	46	U	48	*	A	112	C	113	ncWW	cWW
33	IL_3SN2_002	3SN2	0.6702	1	Single bulged C	B	transferrin receptor iron regulatory element B RNA	G	13	C	14	*	G	18	C	20	cWW	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
GCG*CC	6
GCU*AC	6
UCG*CA	5
CCA*UG	3
CC*GCG	3
ACU*AU	3
UCA*UA	2
UCC*GG	1
CCC*GG	1
CG*CCG	1
GCC*GC	1
GC*GCC	1

Non-Watson-Crick part of the motif

Sequence	Counts
C*	28
*C	5

Release history

Release	3.62	3.63	3.64	3.65	3.66	3.67	3.68	3.69	3.70	3.71	3.72	3.73	3.74	3.75	3.76
Date	2022-10-12	2022-11-09	2022-12-07	2023-01-04	2023-02-01	2023-03-01	2023-03-29	2023-04-26	2023-05-24	2023-06-21	2023-07-19	2023-08-16	2023-09-13	2023-10-11	2023-11-08
Status	Updated, 1 parent	Exact match	Exact match	Exact match	Exact match	Exact match	Exact match	Exact match	Exact match	Exact match	Exact match	Exact match	Exact match	Exact match	Exact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: Single bulged C (33)
Basepair signature: cWW-cWW
Heat map statistics: Min 0.06 | Avg 0.42 | Max 0.93

Help

loadScript https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//core/package.js

loadScript https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//core/corejmol.z.js

JSmol exec jmolApplet0 start applet null

Jmol JavaScript applet jmolApplet0__508705142245305__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__508705142245305__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://rna.bgsu.edu/rna3dhub/motif/view/IL_61258.10","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__508705142245305__","codePath":"https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"508705142245305","bgcolor":"white" }

setting document base to "https://rna.bgsu.edu/rna3dhub/motif/view/IL_61258.10"

Jmol Version: 14.4.4_2016.04.25 2016-04-26 17:41

java.vendor: Java2Script (HTML5)

java.version: 2016-04-21 14:47:41 (JSmol/j2s)

os.name: Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)

Access: ALL

memory: 0.0/0.0

processors available: 1

useCommandThread: false

appletId:jmolApplet0 (signed)

loadScript https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//core/corescript.z.js

Jmol getValue emulate null

defaults = "Jmol"

Jmol getValue boxbgcolor null

Jmol getValue bgcolor white

backgroundColor = "white"

Jmol getValue ANIMFRAMECallback null

Jmol getValue APPLETREADYCallback Jmol._readyCallback

APPLETREADYCallback = "Jmol._readyCallback"

callback set for APPLETREADYCallback Jmol._readyCallback APPLETREADY

Jmol getValue ATOMMOVEDCallback null

Jmol getValue CLICKCallback null

Jmol getValue DRAGDROPCallback null

Jmol getValue ECHOCallback null

Jmol getValue ERRORCallback null

Jmol getValue EVALCallback null

Jmol getValue HOVERCallback null

Jmol getValue IMAGECallback null

Jmol getValue LOADSTRUCTCallback null

Jmol getValue MEASURECallback null

Jmol getValue MESSAGECallback null

Jmol getValue MINIMIZATIONCallback null

Jmol getValue SERVICECallback null

Jmol getValue PICKCallback null

Jmol getValue RESIZECallback null

Jmol getValue SCRIPTCallback null

Jmol getValue SYNCCallback null

Jmol getValue STRUCTUREMODIFIEDCallback null

Jmol getValue doTranslate null

language=en_US

Jmol getValue popupMenu null

Jmol getValue script null

Jmol getValue loadInline null

Jmol getValue load null

Jmol applet jmolApplet0__508705142245305__ ready

script 1 started

loadScript https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//core/coretext.z.js

Script completed

Jmol script terminated

script 2 started