Motif HL_68304.2 Version HL_68304.2 of this group appears in releases 3.3 to 3.5

Download

Csv

Json

Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name		1		2		3		4		5		6	1-6	2-5
1	HL_3KTW_001	3KTW	0.8658	0	GNRA	C	SRP RNA	U	163	G	164	G	165	A	166	G	167	G	168	cWW
2	HL_4IOA_030	4IOA	0.7788	0	GNRA	X	LSU rRNA	C	1235	G	1236	G	1237	A	1238	A	1239	G	1240	cWW
3	HL_4LFB_012	4LFB	0.0000	1	GNRA	A	SSU rRNA	C	458	G	459	A	460	G	462	A	463	G	474	cWW	tSH
4	HL_5J7L_148	5J7L	0.3130	1	GNRA	DA	LSU rRNA	C	487	G	488	G	489	G	491	A	492	G	493	cWW	tSH
5	HL_5J7L_026	5J7L	0.4944	1	GNRA	AA	SSU rRNA	U	1165	G	1166	A	1167	A	1169	A	1170	A	1171	cWW	tSH

3D structures

Complete motif including flanking bases

Sequence	Counts
UGGAGG	1
CGGAAG	1
CGACGAG	1
CGGCGAG	1
UGAUAAA	1

Non-Watson-Crick part of the motif

Sequence	Counts
GGAG	1
GGAA	1
GACGA	1
GGCGA	1
GAUAA	1

Release history

Release	3.3	3.4	3.5
Date	2018-03-08	2018-04-06	2018-05-04
Status	Updated, 1 parent	Exact match	Exact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: GNRA (5)
Basepair signature: cWW-tSH-R-R
Heat map statistics: Min 0.31 | Avg 0.54 | Max 0.92

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__3635788568269267__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__3635788568269267__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://rna.bgsu.edu/rna3dhub/motif/view/HL_68304.2","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__3635788568269267__","codePath":"https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"3635788568269267","bgcolor":"white" }

setting document base to "https://rna.bgsu.edu/rna3dhub/motif/view/HL_68304.2"

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__3635788568269267__ 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