Motif HL_87939.2 Version HL_87939.2 of this group appears in releases 3.85 to 3.86

Download

Csv

Json

Pairwise interactions
Sequence variants
History

#S	Loop id	PDB	Disc	#Non-core	Chain(s)	Standardized name		1		2		3		4		5		6	1-6
1	HL_7A0S_069	7A0S	0.3377	1	Y	5S rRNA	C	40	A	41	U	42	C	44	C	45	G	46	cWW
2	HL_4WF9_066	4WF9	0.2252	1	Y	5S rRNA	C	36	A	37	U	38	C	40	C	41	G	42	cWW
3	HL_4V9F_071	4V9F	0.0917	1	9	5S rRNA	C	37	A	38	U	39	C	41	C	42	G	43	cWW
4	HL_7RQB_070	7RQB	0.0740	1	1B	5S rRNA	C	38	A	39	U	40	C	42	C	43	G	44	cWW
5	HL_5J7L_203	5J7L	0.0000	1	DB	5S rRNA	C	38	A	39	U	40	C	42	C	43	G	44	cWW
6	HL_1MJI_002	1MJI	0.0858	1	D	5S rRNA fragment	C	38	A	39	U	40	C	42	C	43	G	44	cWW
7	HL_5TBW_185	5TBW	0.2329	0	AS	5S rRNA	C	36	G	37	U	38	C	39	C	40	G	41	cWW
8	HL_8C3A_073	8C3A	0.2346	0	3	5S rRNA	C	36	G	37	U	38	U	39	C	40	G	41	cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CAUGCCG	4
CAUCCCG	1
CAUUCCG	1
CGUCCG	1
CGUUCG	1

Non-Watson-Crick part of the motif

Sequence	Counts
AUGCC	4
AUCCC	1
AUUCC	1
GUCC	1
GUUC	1

Release history

Release	3.85	3.86
Date	2024-06-19	2024-07-17
Status	Updated, 1 parent	Exact match

Parent motifs

This motif has no parent motifs.

Children motifs

This motif has no children motifs.

Annotations: (8)
Basepair signature: cWW-F-F-F-F
Heat map statistics: Min 0.07 | Avg 0.21 | Max 0.46

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__205880827543754__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__205880827543754__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://rna.bgsu.edu/rna3dhub/motif/view/HL_87939.2","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__205880827543754__","codePath":"https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"205880827543754","bgcolor":"white" }

setting document base to "https://rna.bgsu.edu/rna3dhub/motif/view/HL_87939.2"

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__205880827543754__ 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