Annotating tertiary motifs in RNA structures

2J00 - 30S ribosomal subunit

Statistics of tertiary motifs

Annotated diagram (PDF, EPS)

Structure information of tertiary motifs

• Coaxial helix

ID	Strand 1		Strand 2
	Seq num	Chain	Seq num	Chain
1	9-12,916-925,927-933,935-936	A	15-19,22-25,1379-1380,1384-1393,1395-1396	A
2	27-30,32-36	A	548-556	A
3	60-63,66-72,76-78	A	91-93,97-107	A
4	332-343	A	316-321,346-351	A
5	112-115,289-296	A	301-304,308-315	A
6	122-129,131-133,136-143,198-201	A	216-227,229-239	A
7	189J,189K,189L,191-196,144-146,150-155,157-158	A	163-164,166-171,176-180,183-186,188-189	A
8	267-277	A	247-249,252-259	A
9	383-384,390-396,398-403	A	39-46,366-367,369-371,379-380	A
10	424-428,432-437,441-447,449-450,452-453,457-458	A	406-410,425-429,474-475,479-480,483-484,487-493	A
11	500-504,511-515	A	536-545	A
12	505-507,521-522	A	524-528	A
13	567-569,821-826	A	874-879,881-883	A
14	622-623,625-629,632-640,643-651,654-664,666-684,686-687	A	588-594,596-606,611-615,617-618,703-704,706-717,734-747,749-751	A
15	778-780,782-789	A	794-800,802-804	A
16	849-858,860-862	A	867-869,828-838	A
17	885-889,891-892,894-898	A	901-912	A
18	939-941,943-944	A	1339-1340,1342-1344	A
19	1225-1226,1228-1236	A	945-955,1337	A
20	1323-1334	A	1303-1314	A
21	984-990	A	1215-1221	A
22	997-1004,1027-1029	A	1031-1035,1037-1044	A
23	1006-1007,1009-1013	A	1016-1020,1022-1023	A
24	1047-1048,1050-1052,1055-1063	A	1193-1195,1197-1199,1203-1210	A
25	1068-1077	A	1080-1083,1102-1107	A
26	1241-1249,1253-1254	A	1283-1284,1288-1296	A
27	1345-1346,1349-1357	A	1366-1373,1375-1376	A
28	1401-1402,1404-1407,1409-1433,1435-1439,1445-1447	A	1454-1456,1462-1491,1494-1497,1500-1501	A
29	1507-1510,1512-1516	A	1519-1523,1525-1528	A
30	755-764	A	577-586	A



• A-minor

ID	Residue 1			Residue 2			Residue 3
	Seq	Seq num	Chain	Seq	Seq num	Chain	Seq	Seq num	Chain
1	A	171	A	G	102	A	C	67	A
2	A	959	A	G	1221	A	C	984	A
3	A	1251	A	G	1353	A	C	1369	A
4	A	621	A	G	41	A	C	401	A
5	A	1375	A	C	1344	A	G	939	A
6	A	509	A	G	502	A	C	543	A
7	A	1332	A	G	947	A	C	1234	A
8	A	969	A	U	952	A	A	1229	A
9	A	482	A	G	391	A	C	370	A
10	A	195	A	A	141	A	U	222	A
11	A	909	A	G	1487	A	A	1413	A
12	A	572	A	C	19	A	G	916	A
13	A	696	A	C	796	A	G	786	A
14	A	1014	A	A	986	A	U	1219	A
15	A	1288	A	G	1370	A	C	1352	A
16	A	1433	A	G	318	A	C	335	A
17	A	915	A	C	912	A	G	885	A
18	A	1169	A	G	1088	A	C	1097	A
19	A	1287	A	C	1369	A	G	1353	A
20	A	766	A	U	1510	A	G	1525	A
21	A	1015	A	G	987	A	C	1218	A
22	A	622	A	G	42	A	C	400	A
23	A	865	A	U	17	A	A	918	A
24	A	510	A	C	503	A	G	542	A
25	A	1492	A	A	35	Y	U	20	X
26	A	1250	A	C	1352	A	G	1370	A
27	A	282	A	G	247	A	C	277	A
28	A	574	A	G	568	A	C	882	A
29	A	1252	A	C	1367	A	G	1355	A
30	A	363	A	U	551	A	A	33	A
31	A	1398	A	G	922	A	C	1395	A
32	A	1339	A	G	30	V	C	40	V
33	A	1434	A	G	319	A	C	334	A
34	A	1333	A	U	1235	A	A	946	A
35	A	1339	A	C	39	V	G	31	V
36	A	1016	A	G	988	A	C	1217	A
37	A	864	A	G	917	A	C	18	A
38	A	196	A	G	142	A	C	221	A
39	A	573	A	G	567	A	C	883	A
40	A	262	A	G	231	A	C	131	A
41	A	1170	A	G	1089	A	C	1096	A
42	A	728	A	G	763	A	C	578	A
43	A	1493	A	A	36	Y	U	19	X
44	A	1191	A	G	1068	A	C	1107	A
45	A	1080	A	A	919	A	A	16	A
46	A	768	A	G	1523	A	U	1512	A
47	A	729	A	C	764	A	G	577	A
48	A	151	A	C	67	A	G	102	A
49	A	958	A	G	1220	A	C	985	A
50	A	1269	A	G	1312	A	C	1325	A
51	A	1519	A	G	1497	A	C	1404	A
52	A	172	A	C	103	A	G	66	A
53	A	353	A	C	314	A	G	113	A



• Ribose zipper

ID	Strand 1			Strand 2
	Seq	Seq num	Chain	Seq	Seq num	Chain
1	5′-GG-3′	112,113	A	5′-AG-3′	353,354	A
2	5′-AA-3′	1169,1170	A	5′-CC-3′	1096,1097	A
3	5′-AA-3′	1015,1016	A	5′-CC-3′	1217,1218	A
4	5′-AA-3′	621,622	A	5′-CC-3′	400,401	A
5	5′-AA-3′	958,959	A	5′-CC-3′	984,985	A
6	5′-AA-3′	1433,1434	A	5′-CC-3′	334,335	A
7	5′-AA-3′	766,767	A	5′-CG-3′	1524,1525	A
8	5′-AU-3′	696,697	A	5′-GG-3′	785,786	A
9	5′-AA-3′	728,729	A	5′-GC-3′	577,578	A
10	5′-AA-3′	171,172	A	5′-GC-3′	66,67	A
11	5′-AA-3′	195,196	A	5′-CU-3′	221,222	A
12	5′-AA-3′	1268,1269	A	5′-CC-3′	1325,1326	A
13	5′-AA-3′	509,510	A	5′-GC-3′	542,543	A
14	5′-AA-3′	1518,1519	A	5′-CG-3′	1404,1405	A
15	5′-GA-3′	1079,1080	A	5′-AU-3′	16,17	A
16	5′-AA-3′	573,574	A	5′-CC-3′	882,883	A
17	5′-AU-3′	1375,1376	A	5′-AG-3′	938,939	A
18	5′-AA-3′	1287,1288	A	5′-CG-3′	1352,1353	A
19	5′-AA-3′	1250,1251	A	5′-CG-3′	1369,1370	A
20	5′-AA-3′	1492,1493	A	5′-UU-3′	19,20	X



• Pseudoknot

ID	Seq num	Chain
1	505-507,521-522,524-528	A
2	570-571,865-869	A
3	293-296,299-304	A
4	9-12,17-19,22-25,916-918	A



• Loop-loop receptor

ID	Loop		Receptor
	Seq num	Chain	Seq num	Chain
1	618-621	A	40-43,398-401	A
2	692-695	A	785-788,794-797	A
3	1167-1170	A	1087-1090,1095-1098	A
4	1013-1016	A	986-989,1217-1220	A
5	1266-1269	A	1310-1313,1324-1327	A