Motif HL_40210.2 Version HL_40210.2 of this group appears in releases 3.86 to 3.86

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	1-5	2-4
1	HL_4V9F_022	4V9F	0.5076	1	GNRA	0	LSU rRNA	U	733	U	734	A	736	A	737	G	738	cWW
2	HL_7Z4D_003	7Z4D	0.5026	1	GNRA	A	tracrRNA	U	72	G	73	A	75	A	76	A	77	cWW
3	HL_4QLM_001	4QLM	0.4103	1	GNRA	A	cyclic di-AMP riboswitch	C	54	G	55	A	57	A	58	G	59	cWW	ntSH
4	HL_4LFB_002	4LFB	0.4288	2		A	SSU rRNA	G	80	U	81	U	84	A	88	C	89	cWW
5	HL_8DP3_003	8DP3	0.4892	1	GNRA	R	Enterovirus 5' cloverleaf cis-acting replication element	U	62	C	63	C	65	C	66	G	67	cWW
6	HL_6ASO_001	6ASO	0.4608	2	GNRA	I	U6 snRNA	U	70	G	71	U	74	A	75	A	76	ncWW	tSH
7	HL_3IGI_004	3IGI	0.2656	2		A	Group IIC intron	G	135	G	136	C	139	A	140	C	141	cWW	ntSH
8	HL_7A0S_005	7A0S	0.3401	1	GNRA	X	LSU rRNA	C	146	G	147	A	149	A	150	G	151	cWW	ntSH
9	HL_5J7L_192	5J7L	0.1278	5		DA	LSU rRNA	U	2404	G	2405	A	2411	A	2412	G	2413	cWW	tSH
10	HL_7RQB_059	7RQB	0.0000	5		1A	LSU rRNA	C	2404	G	2405	A	2411	A	2412	G	2413	cWW	tSH
11	HL_4WF9_055	4WF9	0.1416	5		X	LSU rRNA	C	2431	G	2432	A	2438	A	2439	G	2440	cWW	tSH
12	HL_7A0S_058	7A0S	0.1716	5		X	LSU rRNA	C	2383	G	2384	A	2390	A	2391	G	2392	cWW	tSH

3D structures

Complete motif including flanking bases

Sequence	Counts
CGUGUGGAAG	2
UUCAAG	1
UGAAAA	1
CGAAAG	1
GUUUUAC	1
UCACCG	1
UGCAUAA	1
GGAACAC	1
CGCAAG	1
UGAAUGGAAG	1
CGCAUGGAAG	1

Non-Watson-Crick part of the motif

Sequence	Counts
GAAA	2
GUGUGGAA	2
UCAA	1
UUUUA	1
CACC	1
GCAUA	1
GAACA	1
GCAA	1
GAAUGGAA	1
GCAUGGAA	1

Release history

Release	3.86
Date	2024-07-17
Status	Updated, 2 parents

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: (6)
GNRA (6)
Basepair signature: cWW-tSH-F
Heat map statistics: Min 0.13 | Avg 0.36 | Max 0.61

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__0757047725354885__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__0757047725354885__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://rna.bgsu.edu/rna3dhub/motif/view/HL_40210.2","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__0757047725354885__","codePath":"https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"0757047725354885","bgcolor":"white" }

setting document base to "https://rna.bgsu.edu/rna3dhub/motif/view/HL_40210.2"

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__0757047725354885__ 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