HL_39895.1

#S	Loop id	PDB	Disc	#Non-core	Annotation	Chain(s)	Standardized name for chain		1		2		3		4		5	1-5	2-4
1	HL_3V2F_049	3V2F	0.8163	1	UNCG (H)	A	LSU rRNA	C	2143	U	2144	C	2146	G	2147	G	2148	ncWW
2	HL_4A1B_014	4A1B	0.6048	1		1	LSU rRNA	C	626	U	627	A	629	G	630	G	631	cWW	ncWW
3	HL_2NUE_001	2NUE	0.6279	1	UNCG variation	C	46-MER	C	21	G	22	A	24	A	25	G	26	cWW	ncSW
4	HL_3U5H_012	3U5H	0.6856	1		5	LSU rRNA	C	543	C	544	C	546	G	547	G	548	cWW
5	HL_3U5F_005	3U5F	0.6612	1		6	SSU rRNA	C	230	U	231	C	233	G	234	G	235	ncWW
6	HL_2AW7_023	2AW7	0.3851	1		A	SSU rRNA	C	1028	U	1029	C	1031	G	1032	G	1033	cWW
7	HL_2AW7_005	2AW7	0.3311	1		A	SSU rRNA	C	207	U	208	C	210	G	211	G	212	cWW	ntSW
8	HL_1YKV_002	1YKV	0.1795	1		D	Diels-Alder ribozyme	C	220	U	221	C	223	G	224	G	225	ncWW	tSW
9	HL_1F7Y_002	1F7Y	0.2237	1		B	16S RIBOSOMAL RNA FRAGMENT	C	32	U	33	C	35	G	36	G	37	cWW	tSW
10	HL_1FJG_009	1FJG	0.1660	1	UNCG (H)	A	SSU rRNA	C	342	U	343	C	345	G	346	G	347	cWW	tSW
11	HL_1FJG_031	1FJG	0.1679	1	UNCG (H)	A	SSU rRNA	C	1449	U	1450	C	1452	G	1453	G	1454	cWW	tSW
12	HL_1F7Y_001	1F7Y	0.1539	1		B	16S RIBOSOMAL RNA FRAGMENT	C	8	U	9	C	11	G	12	G	13	cWW	tSW
13	HL_1S72_044	1S72	0.1243	1	UNCG (H)	0	LSU rRNA	C	1769	U	1770	C	1772	G	1773	G	1774	cWW	tSW
14	HL_2AW7_009	2AW7	0.1384	1		A	SSU rRNA	C	342	U	343	C	345	G	346	G	347	cWW	tSW
15	HL_1UN6_003	1UN6	0.1242	1	UNCG	F	5S RIBOSOMAL RNA	C	15	U	16	C	18	G	19	G	64	cWW	tSW
16	HL_1FJG_011	1FJG	0.1350	1	UNCG (H)	A	SSU rRNA	C	419	U	420	C	422	G	423	G	424	cWW	tSW
17	HL_3U5H_043	3U5H	0.1424	1		5	LSU rRNA	C	1923	U	1924	C	1926	G	1927	G	1928	cWW	tSW
18	HL_4A1B_042	4A1B	0.1374	1		1	LSU rRNA	C	1947	U	1948	C	1950	G	1951	G	1952	cWW	tSW
19	HL_2QBG_044	2QBG	0.0883	1		B	LSU rRNA	C	1691	U	1692	C	1694	G	1695	G	1696	cWW	tSW
20	HL_1I6U_002	1I6U	0.0000	1		D	16S RRNA FRAGMENT	C	16	U	17	C	19	G	20	G	21	cWW	tSW
21	HL_3V2F_040	3V2F	0.0874	1		A	LSU rRNA	C	1691	U	1692	C	1694	G	1695	G	1696	cWW	tSW
22	HL_2ZJR_042	2ZJR	0.1003	1		X	LSU rRNA	C	1708	U	1709	C	1711	G	1712	G	1713	cWW	tSW
23	HL_3U5F_011	3U5F	0.1327	1		6	SSU rRNA	C	414	C	415	A	417	G	418	G	419	cWW	tSW
24	HL_1NBS_006	1NBS	0.1825	1	UNCG	B	RNase P class B	C	152	U	153	C	155	G	156	G	157	cWW	tSW
25	HL_2AW7_031	2AW7	0.1420	1		A	SSU rRNA	C	1449	U	1450	C	1452	G	1453	G	1454	cWW	tSW
26	HL_2HW8_001	2HW8	0.0973	1	UNCG	B	36-MER	C	15	U	16	C	18	G	19	G	20	cWW	tSW
27	HL_3U4M_001	3U4M	0.1347	1	UNCG	B	LSU rRNA	C	2143	U	2144	C	2146	G	2147	G	2148	cWW	tSW
28	HL_2AW7_011	2AW7	0.1776	1		A	SSU rRNA	C	419	U	420	C	422	G	423	G	424	cWW	tSW
29	HL_2QBG_040	2QBG	0.2072	1		B	LSU rRNA	C	1533	U	1534	C	1536	G	1537	G	1538	cWW	tSW
30	HL_2XZM_011	2XZM	0.2649	1		A	SSU rRNA	C	405	U	406	C	408	G	409	G	410	cWW	tSW
31	HL_3V7E_005	3V7E	0.4203	1	UNCG (H)	D	SAM-I riboswitch	C	265	U	266	C	268	G	269	G	270	cWW
32	HL_3G78_008	3G78	0.4265	1		A	Group II catalytic intron D1-D4-3	G	338	U	339	C	341	G	342	C	343	cWW	tSW
33	HL_2QBG_006	2QBG	0.7219	1		B	LSU rRNA	U	137	U	138	C	140	G	141	A	142	cWW	tSW

3D structures

Complete motif including flanking bases

Sequence	Counts
CUUCGG	19
CUACGG	6
CUCCGG	2
CUAAGG	1
CGCAAG	1
CCUCGG	1
CCAAGG	1
GUUCGC	1
UUUCGA	1

Non-Watson-Crick part of the motif

Sequence	Counts
UUCG	21
UACG	6
UCCG	2
UAAG	1
GCAA	1
CUCG	1
CAAG	1

Release history

Release	0.3	0.4
Date	2013-02-17	2013-02-17
Status	> 2 parents	Exact match

Parent motifs

Parent motif	Common motif instances	Only in HL_39895.1	Only in the parent motif
HL_72657.1 Compare	HL_1UN6_003, HL_1I6U_002, HL_2HW8_001, HL_1S72_044, HL_2AW7_009, HL_2QBG_006, HL_1FJG_011, HL_1F7Y_001, HL_1F7Y_002, HL_2ZJR_042, HL_2AW7_011, HL_1FJG_031, HL_2AW7_031, HL_2QBG_040, HL_2XZM_011, HL_2QBG_044, HL_3G78_008, HL_1NBS_006, HL_1FJG_009, HL_2AW7_005, HL_1YKV_002	HL_2NUE_001, HL_3V2F_049, HL_3U5F_005, HL_3U5H_012, HL_3V2F_040, HL_4A1B_014, HL_2AW7_023, HL_3V7E_005, HL_3U5H_043, HL_4A1B_042, HL_3U4M_001, HL_3U5F_011	HL_1I6U_001, HL_1UN6_001, HL_3O30_005, HL_3PYO_042, HL_3O58_043, HL_1FJG_026, HL_1S72_005, HL_1YKV_001
HL_95074.2 Compare	HL_2NUE_001	HL_1UN6_003, HL_4A1B_014, HL_2HW8_001, HL_1FJG_009, HL_1F7Y_001, HL_1F7Y_002, HL_3V7E_005, HL_3U5F_011, HL_2AW7_009, HL_1FJG_011, HL_1NBS_006, HL_1FJG_031, HL_2AW7_005, HL_1YKV_002, HL_1I6U_002, HL_3V2F_049, HL_3V2F_040, HL_2XZM_011, HL_3U5H_043, HL_4A1B_042, HL_3U4M_001, HL_3G78_008, HL_2AW7_023, HL_3U5F_005, HL_1S72_044, HL_2QBG_006, HL_3U5H_012, HL_2ZJR_042, HL_2QBG_040, HL_2QBG_044, HL_2AW7_011, HL_2AW7_031	HL_1P6V_003, HL_1P6V_001, HL_2CZJ_007, HL_2CZJ_003, HL_3O58_015, HL_2ZJR_016
HL_95727.2 Compare	HL_2AW7_023	HL_1UN6_003, HL_4A1B_014, HL_2HW8_001, HL_1FJG_009, HL_1F7Y_001, HL_1F7Y_002, HL_3V7E_005, HL_2NUE_001, HL_2AW7_009, HL_1FJG_011, HL_1NBS_006, HL_1FJG_031, HL_2AW7_005, HL_1YKV_002, HL_1I6U_002, HL_3V2F_049, HL_3V2F_040, HL_3U5F_011, HL_2XZM_011, HL_3U5H_043, HL_4A1B_042, HL_3U4M_001, HL_3G78_008, HL_3U5F_005, HL_1S72_044, HL_2QBG_006, HL_3U5H_012, HL_2ZJR_042, HL_2QBG_040, HL_2QBG_044, HL_2AW7_011, HL_2AW7_031	HL_2QUX_005, HL_2QUX_004, HL_2QUX_006, HL_2QUX_001, HL_2QUX_003, HL_2QUX_002, HL_3O30_010

Children motifs

Child motif	Common motif instances	Only in HL_39895.1	Only in the child motif
HL_39895.2 Compare	HL_1UN6_003, HL_4A1B_014, HL_2HW8_001, HL_1FJG_009, HL_1F7Y_001, HL_1F7Y_002, HL_3V7E_005, HL_2NUE_001, HL_2AW7_009, HL_1FJG_011, HL_1NBS_006, HL_1FJG_031, HL_2AW7_005, HL_1YKV_002, HL_1I6U_002, HL_3V2F_049, HL_3V2F_040, HL_3U5F_011, HL_2XZM_011, HL_3U5H_043, HL_4A1B_042, HL_3U4M_001, HL_3G78_008, HL_2AW7_023, HL_3U5F_005, HL_1S72_044, HL_2QBG_006, HL_3U5H_012, HL_2ZJR_042, HL_2QBG_040, HL_2QBG_044, HL_2AW7_011, HL_2AW7_031		HL_4AY2_001

Motif HL_39895.1 Version HL_39895.1 of this group appears in releases 0.3 to 0.4 Download Csv Json

3D structures

Complete motif including flanking bases

Non-Watson-Crick part of the motif

Release history

Parent motifs

Children motifs

Motif HL_39895.1 Version HL_39895.1 of this group appears in releases 0.3 to 0.4

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Csv

Json