Motif IL_27635.1 Version IL_27635.1 of this group appears in releases 3.77 to 3.81

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	1-5	2-3	2-4	3-4
1	IL_5J7L_264	5J7L	0.4229	0	Major groove platform	DA	LSU rRNA	G	738	A	739	C	740	*	G	757	C	758	cWW	cSH		cWW
2	IL_4WF9_026	4WF9	0.3954	0	Major groove platform	X	LSU rRNA	G	783	A	784	C	785	*	G	802	C	803	cWW	cSH		cWW
3	IL_7A0S_085	7A0S	0.1742	0	Major groove platform	X	LSU rRNA	U	2436	G	2437	A	2438	*	U	2472	G	2473	cWW		ntSH	cWW
4	IL_4WF9_091	4WF9	0.0000	0	Major groove platform	X	LSU rRNA	U	2484	U	2485	A	2486	*	U	2520	G	2521	cWW	cSH		cWW
5	IL_4LFB_024	4LFB	0.2515	0	Major groove platform	A	SSU rRNA	G	594	G	595	C	596	*	G	644	C	645	cWW	ncSH	ntSH	cWW
6	IL_7A0S_023	7A0S	0.3511	1	Major groove platform; stack outside cWW	X	LSU rRNA	U	857	G	858	U	860	*	A	944	G	945	cWW			cWW
7	IL_4V9F_044	4V9F	0.3954	1	Major groove platform	0	LSU rRNA	A	1191	A	1193	A	1194	*	U	1205	U	1206	cWW	cSH	ntSH	cWW
8	IL_3OXE_003	3OXE	0.2623	0	Major groove platform	A	domain II of glycine riboswitch	C	68	U	69	C	70	*	G	35	G	36	cWW	cSH		cWW
9	IL_3NKB_002	3NKB	0.2989	0	Major groove platform	B	Hepatitis delta virus ribozyme	G	55	U	56	A	57	*	U	47	C	48	cWW	cSH		cWW
10	IL_4OQU_002	4OQU	0.2461	0	Major groove platform	A	SAM-I/IV riboswitch	C	42	A	43	A	44	*	U	29	G	30	cWW	ncSH		cWW
11	IL_1S03_004	1S03	0.2598	0	Major groove platform	A	47-MER	C	34	A	35	A	36	*	U	16	G	17	cWW	cSH	tSH	cWW
12	IL_1S03_008	1S03	0.2552	0	Major groove platform	B	47-MER	C	34	A	35	A	36	*	U	16	G	17	cWW	cSH	tSH	cWW
13	IL_5J7L_028	5J7L	0.2835	0	Major groove platform	AA	SSU rRNA	U	594	A	595	A	596	*	U	644	G	645	cWW	cSH	ntSH	cWW
14	IL_1I6U_001	1I6U	0.2778	0	Major groove platform	C	16S RRNA FRAGMENT	U	9	A	10	A	11	*	U	28	G	29	cWW	cSH	ntSH	cWW
15	IL_5J7L_320	5J7L	0.2273	0	Major groove platform	DA	LSU rRNA	C	2050	A	2051	A	2052	*	U	2617	G	2618	cWW	cSH	tSH	cWW
16	IL_7RQB_078	7RQB	0.2448	0	Major groove platform	1A	LSU rRNA	C	2050	A	2051	G	2052	*	C	2617	G	2618	cWW	cSH		cWW
17	IL_4WF9_078	4WF9	0.2906	0	Major groove platform	X	LSU rRNA	C	2077	A	2078	G	2079	*	C	2644	G	2645	cWW	cSH		cWW
18	IL_7A0S_073	7A0S	0.2981	0	Major groove platform	X	LSU rRNA	C	2033	A	2034	G	2035	*	C	2596	G	2597	cWW	cSH		cWW
19	IL_5TBW_102	5TBW	0.4081	0	Major groove platform	1	LSU rRNA	U	2865	U	2866	C	2867	*	G	2823	G	2824	cWW	ncSH		cWW
20	IL_7A0S_084	7A0S	0.3749	0	Major groove platform	X	LSU rRNA	C	2475	A	2476	C	2477	*	G	2433	G	2434	cWW	cSH		cWW
21	IL_7RQB_092	7RQB	0.3228	0	Major groove platform	1A	LSU rRNA	C	2496	A	2497	C	2498	*	G	2454	G	2455	cWW	cSH		cWW
22	IL_4V9F_082	4V9F	0.3557	0	Major groove platform	0	LSU rRNA	U	2531	A	2532	C	2533	*	G	2489	A	2490	cWW	cSH		cWW
23	IL_4WF9_090	4WF9	0.3663	0	Major groove platform	X	LSU rRNA	C	2523	A	2524	C	2525	*	G	2481	G	2482	cWW	cSH		cWW
24	IL_7A0S_082	7A0S	0.3904	0	Major groove platform	X	LSU rRNA	U	2380	A	2381	C	2382	*	G	2393	G	2394	cWW	cSH		cWW
25	IL_1XJR_002	1XJR	0.4655	0	Major groove platform	A	s2m RNA	U	37	A	38	C	39	*	G	13	G	14	cWW	cSH		cWW
26	IL_7RQB_009	7RQB	0.4538	0	Major groove platform	1A	LSU rRNA	U	363\|\|\|E	A	363\|\|\|F	C	364	*	G	272\|\|\|D	G	272\|\|\|E	cWW			cWW
27	IL_7RQB_090	7RQB	0.4108	0	Major groove platform	1A	LSU rRNA	U	2401	C	2402	C	2403	*	G	2414	G	2415	cWW	cSH		cWW
28	IL_7EOG_001	7EOG	0.4762	0	Major groove platform	A	Pepper (49-MER)	C	5	A	6	C	7	*	G	44	G	45	cWW	cSH		cWW
29	IL_1G1X_002	1G1X	0.5106	0	Major groove platform	E+D	16S RIBOSOMAL RNA	C	747	C	748	C	749	*	G	657	G	658	cWW	ncSH		cWW
30	IL_1G1X_005	1G1X	0.4756	0	Major groove platform	J+I	16S RIBOSOMAL RNA	C	747	C	748	C	749	*	G	657	G	658	cWW	ncSH		cWW
31	IL_4LFB_028	4LFB	0.4807	0	Major groove platform	A	SSU rRNA	C	747	C	748	C	749	*	G	657	G	658	cWW			cWW
32	IL_5Y85_005	5Y85	0.4028	0	Major groove platform	D+C	DNA/RNA (50-MER)	C	40	G	41	C	42	*	G	9	G	10	cWW			cWW
33	IL_5T5A_002	5T5A	0.4307	0	Major groove platform	A	DNA/RNA (71-MER)	C	50	G	51	C	52	*	G	10	G	11	cWW	ncSH		cWW
34	IL_6CZR_140	6CZR	0.5179	0	Major groove platform	1a	SSU rRNA	C	731	C	732	C	733	*	G	641	G	642	cWW			cWW
35	IL_3SUX_002	3SUX	0.6078	0	Major groove platform	X	THF riboswitch	U	47	G	48	U	49	*	G	37	A	38	ncWW			cWW
36	IL_6JOO_001	6JOO	0.9518	2		B	Guide RNA	G	61	U	64	C	65	*	G	57	C	58	cWW			cWW

3D structures

Complete motif including flanking bases

Sequence	Counts
CAA*UG	4
CAC*GG	4
CCC*GG	4
CAG*CG	3
UAC*GG	3
GAC*GC	2
UAA*UG	2
CGC*GG	2
UGA*UG	1
UUA*UG	1
GGC*GC	1
UGUU*AG	1
AAAA*UU	1
CUC*GG	1
GUA*UC	1
UUC*GG	1
UAC*GA	1
UCC*GG	1
UGU*GA	1
GUUUC*GC	1

Non-Watson-Crick part of the motif

Sequence	Counts
A*	19
G*	5
C*	5
U*	4
GU*	1
AA*	1
UUU*	1

Release history

Release	3.77	3.78	3.79	3.80	3.81
Date	2023-12-06	2024-01-03	2024-01-03	2024-01-31	2024-02-28
Status	New id, > 2 parents	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: Major groove platform (34)
(1)
Major groove platform; stack outside cWW (1)
Basepair signature: cWW-cSH-cWW
Heat map statistics: Min 0.04 | Avg 0.32 | Max 1.00

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__721339492417961__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__721339492417961__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://rna.bgsu.edu/rna3dhub/motif/view/IL_27635.1","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__721339492417961__","codePath":"https://rna.bgsu.edu/rna3dhub//js/jsmol/j2s//","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"721339492417961","bgcolor":"white" }

setting document base to "https://rna.bgsu.edu/rna3dhub/motif/view/IL_27635.1"

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__721339492417961__ 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