Motif IL_38958.8 Version IL_38958.8 of this group appears in releases 3.87 to 3.87

Download

Csv

Json

Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2		3	break		4		5		6	1-5	1-6	2-5	3-4
1	IL_1L9A_004	1L9A	0.5950	0	Isolated tHS basepair with bulges	B	signal recognition particle RNA S domain	U	132	A	133	U	134	*	A	163	G	164	G	165	ncWWa	cWW	tHS	ncWW
2	IL_4V9F_076	4V9F	0.3030	1	Isolated tHS basepair with bulges	0	LSU rRNA	C	2122	A	2123	G	2124	*	C	2269	G	2270	G	2272		cWW	tHS	cWW
3	IL_8VTW_081	8VTW	0.2438	1	Isolated tHS basepair with bulges (H)	1A	LSU rRNA	C	2081	A	2082	G	2083	*	C	2236	G	2237	G	2239		cWW	tHS	cWW
4	IL_8VTW_011	8VTW	0.2651	1	Isolated tHS basepair with bulges (H)	1A	LSU rRNA	C	288	A	289	G	290	*	U	350	G	351	G	353		cWW	tHS	cWW
5	IL_5J7L_325	5J7L	0.1316	1	Isolated tHS basepair with bulges	DA	LSU rRNA	U	2081	A	2082	G	2083	*	U	2236	G	2237	G	2239		cWW	tHS	cWW
6	IL_8C3A_100	8C3A	0.0000	1	Isolated tHS basepair with bulges (H)	1	LSU rRNA	U	2401	A	2402	G	2403	*	U	2576	G	2577	G	2579		cWW	tHS	cWW
7	IL_5TBW_095	5TBW	0.0680	1	Isolated tHS basepair with bulges	1	LSU rRNA	U	2423	A	2424	G	2425	*	U	2604	G	2605	G	2607		cWW	tHS	cWW
8	IL_4WF9_082	4WF9	0.1779	1	Isolated tHS basepair with bulges	X	LSU rRNA	U	2108	A	2109	G	2110	*	C	2263	G	2264	G	2266		cWW	tHS	cWW
9	IL_7A0S_077	7A0S	0.1819	1	Isolated tHS basepair with bulges	X	LSU rRNA	U	2064	A	2065	G	2066	*	C	2215	G	2216	G	2218		cWW	ntHS	cWW
10	IL_5TBW_099	5TBW	0.3718	2	Isolated tHS basepair with bulges	1	LSU rRNA	C	2666	A	2667	U	2668	*	A	2686	G	2687	G	2690		cWW	tHS	cWW
11	IL_8C3A_108	8C3A	0.4076	2	Isolated tHS basepair with bulges (H)	1	LSU rRNA	C	2638	A	2639	U	2640	*	A	2658	G	2659	G	2662		cWW	tHS	cWW
12	IL_4WF9_086	4WF9	0.4108	2	Isolated tHS basepair with bulges	X	LSU rRNA	C	2324	A	2325	G	2326	*	C	2344	A	2345	G	2348		cWW	tHS	cWW
13	IL_4V9F_080	4V9F	0.4866	2	Isolated tHS basepair with bulges	0	LSU rRNA	C	2331	A	2332	G	2333	*	C	2351	G	2352	G	2355		cWW	tHS	cWW
14	IL_8VTW_087	8VTW	0.4758	2	Isolated tHS basepair with bulges (H)	1A	LSU rRNA	C	2297	A	2298	G	2299	*	C	2317	G	2318	G	2321		cWW	tHS	cWW
15	IL_7A0S_080	7A0S	0.4737	2	Isolated tHS basepair with bulges	X	LSU rRNA	C	2276	A	2277	A	2278	*	U	2296	G	2297	G	2300		cWW	ntHS	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
UAG*UGGG	3
CAG*CGGG	2
UAG*CGGG	2
CAU*AGUAG	2
UAU*AGG	1
CAG*UGGG	1
CAG*CAUAG	1
CAG*CGAAG	1
CAG*CGGAG	1
CAA*UGUAG	1

Non-Watson-Crick part of the motif

Sequence	Counts
A*GG	8
A*GUA	3
A*G	1
A*AUA	1
A*GAA	1
A*GGA	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: Isolated tHS basepair with bulges (10)
Isolated tHS basepair with bulges (H) (5)
Basepair signature: cWW-tHS-cWW
Heat map statistics: Min 0.07 | Avg 0.33 | Max 0.69

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__839010661170238__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__839010661170238__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://rna.bgsu.edu/rna3dhub/motif/view/IL_38958.8","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__839010661170238__","codePath":"https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"839010661170238","bgcolor":"white" }

setting document base to "https://rna.bgsu.edu/rna3dhub/motif/view/IL_38958.8"

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__839010661170238__ 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