RNA 3D Hub //

9H9H Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_9H9H_0021/3/31:39tRNA anticodon loop
geometric
HL_4V90_033
NA
HL_9H9H_0041/A/12:22No text annotation
geometric
HL_4LFB_001
HL_73535.1
HL_9H9H_0061/A/158:163GNRA
geometric
HL_8CRE_215
HL_34789.2
HL_9H9H_0071/A/186:191GNRA
geometric
HL_2R8S_001
HL_34789.2
HL_9H9H_0081/A/207:212No text annotation
HL_9H9H_0091/A/259:267GNRA related
geometric
HL_5J7L_006
NA
HL_9H9H_0101/A/296:301GNRA
geometric
HL_5J7L_007
NA
HL_9H9H_0111/A/320:333No text annotation
geometric
HL_5J7L_008
NA
HL_9H9H_0121/A/342:347UNCG
geometric
HL_9DFE_040
HL_61337.2
HL_9H9H_0131/A/379:384GNRA
geometric
HL_5F9F_003
HL_34789.2
HL_9H9H_0141/A/419:424UNCG
geometric
HL_5J7L_030
NA
HL_9H9H_0151/A/462:470GNRA wlth extra near cWW
geometric
HL_5J7L_012
NA
HL_9H9H_0161/A/522:527GNRA variation
geometric
HL_4LFB_033
HL_34789.2
HL_9H9H_0171/A/617:623GNRA-like with tWH
geometric
HL_4LFB_014
HL_86621.1
HL_9H9H_0181/A/689:698No text annotation
geometric
HL_4LFB_015
HL_38491.2
HL_9H9H_0191/A/726:731GNRA
geometric
HL_8CRE_211
HL_34789.2
HL_9H9H_0201/A/786:796No text annotation
geometric
HL_5J7L_017
NA
HL_9H9H_0221/A/862:867GNRA
geometric
HL_4LFB_019
HL_34789.2
HL_9H9H_0231/A/897:902GNRA
geometric
HL_8CRE_215
HL_34789.2
HL_9H9H_0241/A/963:972No text annotation
geometric
HL_4LFB_021
HL_97521.1
HL_9H9H_0271/A/1076:1081GNRA
geometric
HL_8P9A_147
HL_34789.2
HL_9H9H_0281/A/1089:1096T-loop related
geometric
HL_4LFB_025
HL_63894.2
HL_9H9H_0311/A/1265:1270GNRA
geometric
HL_4V9F_033
HL_34789.2
HL_9H9H_0321/A/1314:1323T-loop with 3 stacked bulged bases
geometric
HL_4LFB_029
HL_93658.1
HL_9H9H_0331/A/1356:1366No text annotation
geometric
HL_5J7L_029
NA
HL_9H9H_0341/A/1449:1454UNCG
geometric
HL_8P9A_200
HL_61337.2
HL_9H9H_0351/A/1515:1520GNRA
geometric
HL_5J7L_031
NA

Problematic loops

#loop idProblemSequence
HL_9H9H_001tRNA D-loop
HL_9H9H_003No text annotation
HL_9H9H_005No text annotation
HL_9H9H_021No text annotation
HL_9H9H_025GNRA
HL_9H9H_026UNCG
HL_9H9H_029No text annotation
HL_9H9H_030GNRA

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_9H9H_0011/A/30:32,
1/A/552:553		Single bulged G
geometric
IL_5J7L_001
NA
IL_9H9H_0021/A/44:45,
1/A/396:398		Single bulged A
geometric
IL_5J7L_002
NA
IL_9H9H_0031/A/47:52,
1/A/359:361		No text annotation
geometric
IL_5J7L_003
NA
IL_9H9H_0041/A/54:56,
1/A/356:357		Minor groove platform
geometric
IL_8P9A_377
IL_34520.2
IL_9H9H_0051/A/63:66,
1/A/103:104		Multiple bulged bases
geometric
IL_5J7L_005
NA
IL_9H9H_0061/A/67:69,
1/A/99:102		Minor groove platform with extra cWW
geometric
IL_5J7L_006
NA
IL_9H9H_0071/A/70:73,
1/A/97:98		Minor groove platform
geometric
IL_5J7L_007
NA
IL_9H9H_0091/A/128:131,
1/A/231:233		Isolated non-canonical cWW pair
geometric
IL_5J7L_009
NA
IL_9H9H_0101/A/132:136,
1/A/227:230		No text annotation
geometric
IL_4LFB_008
IL_60988.2
IL_9H9H_0111/A/144:146,
1/A/176:178		Isolated cWH basepair
geometric
IL_4WF9_045
IL_10892.2
IL_9H9H_0121/A/147:153,
1/A/168:175		tWH-tWH-tHW-tHW
geometric
IL_5J7L_012
NA
IL_9H9H_0141/A/242:247,
1/A/277:284		Kink-turn with non-sequential stacking
geometric
IL_5J7L_014
NA
IL_9H9H_0151/A/249:252,
1/A/274:275		No text annotation
geometric
IL_4LFB_012
IL_22002.1
IL_9H9H_0161/A/292:293,
1/A/304:308		C-loop
geometric
IL_4LFB_013
IL_06671.1
IL_9H9H_0171/A/367:369,
1/A/392:393		Single bulged U
geometric
IL_5J7L_017
NA
IL_9H9H_0181/A/371:375,
1/A/389:390		C-loop
geometric
IL_5J7L_018
NA
IL_9H9H_0191/A/375:376,
1/A/387:389		Single bulged G
geometric
IL_5J7L_019
NA
IL_9H9H_0201/A/409:416,
1/A/427:433		No text annotation
geometric
IL_5J7L_020
NA
IL_9H9H_0211/A/440:442,
1/A/492:497		No text annotation
geometric
IL_5J7L_021
NA
IL_9H9H_0221/A/446:450,
1/A/483:488		tSH-tHW-tWW
geometric
IL_5J7L_022
NA
IL_9H9H_0231/A/450:455,
1/A/477:483		No text annotation
geometric
IL_5J7L_023
NA
IL_9H9H_0241/A/504:511,
1/A/540:541		SSU/LSU pseudoknot
geometric
IL_4LFB_020
IL_11411.1
IL_9H9H_0251/A/515:521,
1/A/528:536		No text annotation
geometric
IL_8P9A_404
IL_52042.1
IL_9H9H_0261/A/569:575,
1/A/880:881		No text annotation
geometric
IL_4LFB_022
IL_20847.1
IL_9H9H_0271/A/580:584,
1/A/757:761		tSH-tHW-tHS
geometric
IL_5J7L_027
NA
IL_9H9H_0281/A/594:596,
1/A/644:645		Major groove platform
geometric
IL_3NKB_002
IL_48076.8
IL_9H9H_0291/A/597:598,
1/A/640:643		Major groove minor groove platform; mini C-loop
geometric
IL_5J7L_029
NA
IL_9H9H_0301/A/605:612,
1/A/628:633		No text annotation
geometric
IL_5J7L_030
NA
IL_9H9H_0311/A/654:655,
1/A/751:754		Major groove platform; stack outside cWW
geometric
IL_4LFB_027
IL_74641.2
IL_9H9H_0321/A/659:660,
1/A/745:747		Single stack bend
geometric
IL_8CRE_091
NA
IL_9H9H_0331/A/662:666,
1/A/740:743		Tandem non-canonical cWW pairs
geometric
IL_5J7L_033
NA
IL_9H9H_0341/A/673:677,
1/A/713:717		Triple non-canonical cWW pairs
geometric
IL_4LFB_065
IL_71154.2
IL_9H9H_0351/A/684:688,
1/A/699:706		Kink-turn
geometric
IL_5J7L_035
NA
IL_9H9H_0361/A/774:778,
1/A/804:805		Left turn
geometric
IL_4LFB_032
IL_29346.3
IL_9H9H_0371/A/779:783,
1/A/799:803		tSH-tHW-tHS
geometric
IL_8CRE_438
IL_05821.1
IL_9H9H_0381/A/887:894,
1/A/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
geometric
IL_5J7L_038
NA
IL_9H9H_0391/A/922:923,
1/A/1393:1395		Single bulged A
geometric
IL_8CRE_443
IL_14190.2
IL_9H9H_0401/A/925:927,
1/A/1390:1391		Single bulged G
geometric
IL_5J7L_040
NA
IL_9H9H_0411/A/933:935,
1/A/1380:1384		Minor groove platform
geometric
IL_4LFB_037
IL_61370.1
IL_9H9H_0421/A/953:954,
1/A/1226:1228		Minor groove platform
geometric
IL_4LFB_038
IL_34520.2
IL_9H9H_0431/A/993:997,
1/A/1044:1045		Minor groove platform
geometric
IL_5J7L_043
NA
IL_9H9H_0441/A/998:999,
1/A/1041:1043		Single stack bend
geometric
IL_7KGA_003
IL_15011.2
IL_9H9H_0451/A/1048:1050,
1/A/1208:1209		Single bulged U
geometric
IL_5J7L_046
NA
IL_9H9H_0461/A/1052:1056,
1/A/1204:1206		Isolated cWS basepair
geometric
IL_4LFB_044
IL_82453.1
IL_9H9H_0471/A/1057:1058,
1/A/1199:1203		Minor groove platform
geometric
IL_5J7L_048
NA
IL_9H9H_0481/A/1060:1061,
1/A/1195:1197		Single bulged A
geometric
IL_5J7L_049
NA
IL_9H9H_0491/A/1061:1063,
1/A/1193:1195		Isolated non-canonical cWW pair
geometric
IL_5J7L_050
NA
IL_9H9H_0501/A/1124:1128,
1/A/1144:1149		No text annotation
geometric
IL_5J7L_051
NA
IL_9H9H_0511/A/1129:1132,
1/A/1142:1143		Minor groove platform
geometric
IL_5J7L_052
NA
IL_9H9H_0521/A/1158:1161,
1/A/1175:1181		No text annotation
geometric
IL_5J7L_053
NA
IL_9H9H_0531/A/1247:1253,
1/A/1284:1290		No text annotation
geometric
IL_5J7L_054
NA
IL_9H9H_0541/A/1255:1258,
1/A/1277:1282		180 degree turn
geometric
IL_5J7L_055
NA
IL_9H9H_0551/A/1259:1263,
1/A/1272:1276		Double sheared with non-canonical cWW
geometric
IL_5J7L_056
NA
IL_9H9H_0561/A/1303:1308,
1/A/1329:1334		No text annotation
geometric
IL_5J7L_057
NA
IL_9H9H_0571/A/1399:1401,
1/A/1501:1504		No text annotation
geometric
IL_8CRE_466
IL_18228.1
IL_9H9H_0581/A/1401:1404,
1/A/1497:1501		No text annotation
geometric
IL_4LFB_068
IL_25873.2
IL_9H9H_0591/A/1405:1407,
1/A/1494:1496		Isolated non-canonical cWW pair
geometric
IL_1UN6_005
IL_01003.2
IL_9H9H_0601/A/1407:1409,
1/A/1491:1494		No text annotation
geometric
IL_8UO6_002
IL_53541.1
IL_9H9H_0611/A/1412:1416,
1/A/1484:1488		No text annotation
IL_9H9H_0621/A/1416:1419,
1/A/1481:1484		Double sheared
geometric
IL_6YML_002
IL_58355.2
IL_9H9H_0631/A/1430:1435,
1/A/1466:1470		Triple sheared related
geometric
IL_5J7L_063
NA
IL_9H9H_0641/A/1440:1442,
1/A/1460:1461		No text annotation
IL_9H9H_0651/A/1445:1448,
1/A/1455:1457		No text annotation
geometric
IL_5J7L_065
NA

Problematic loops

#loop idProblemSequence
IL_9H9H_008Single bulged G
IL_9H9H_013Minor groove platform

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_9H9H_0011/A/46:47,
1/A/361:367,
1/A/393:395		No text annotation
geometric
J3_4LFB_010
J3_58657.1
J3_9H9H_0021/A/46:52,
1/A/359:367,
1/A/393:395		No text annotation
geometric
J3_5J7L_050
NA
J3_9H9H_0031/A/586:588,
1/A/651:654,
1/A/754:755		No text annotation
geometric
J3_4LFB_011
J3_01633.1
J3_9H9H_0041/A/586:588,
1/A/651:655,
1/A/751:755		No text annotation
geometric
J3_4LFB_015
J3_17385.5
J3_9H9H_0051/A/672:673,
1/A/717:725,
1/A/732:734		No text annotation
geometric
J3_5J7L_003
NA
J3_9H9H_0061/A/826:829,
1/A/857:861,
1/A/868:874		No text annotation
geometric
J3_5J7L_004
NA
J3_9H9H_0071/A/936:939,
1/A/1344:1350,
1/A/1372:1379		No text annotation
geometric
J3_5J7L_052
NA
J3_9H9H_0081/A/943:946,
1/A/1235:1237,
1/A/1337:1340		No text annotation
geometric
J3_4LFB_003
J3_44359.1
J3_9H9H_0091/A/955:962,
1/A/973:984,
1/A/1221:1225		No text annotation
geometric
J3_5J7L_006
NA
J3_9H9H_0101/A/990:993,
1/A/1045:1047,
1/A/1210:1215		No text annotation
geometric
J3_4LFB_005
J3_84394.1
J3_9H9H_0111/A/990:997,
1/A/1044:1047,
1/A/1210:1215		No text annotation
geometric
J3_5J7L_053
NA
J3_9H9H_0131/A/1063:1068,
1/A/1107:1113,
1/A/1187:1193		No text annotation
geometric
J3_4LFB_007
J3_01343.1
J3_9H9H_0141/A/1073:1074,
1/A/1083:1086,
1/A/1099:1102		No text annotation
geometric
J3_4LFB_017
J3_11018.1
J3_9H9H_0151/A/1116:1118,
1/A/1155:1158,
1/A/1181:1184		No text annotation
geometric
J3_5J7L_010
NA
J3_9H9H_0161/A/1116:1118,
1/A/1155:1161,
1/A/1175:1184		No text annotation
geometric
J3_5J7L_054
NA
J3_9H9H_0171/A/1237:1241,
1/A/1296:1303,
1/A/1334:1337		No text annotation
geometric
J3_4LFB_009
J3_03192.1
J4_9H9H_0011/3/5:9,
1/3/25:27,
1/3/43:49,
1/3/65:67		No text annotation
J4_9H9H_0021/A/115:122,
1/A/239:240,
1/A/286:289,
1/A/311:312		No text annotation
J4_9H9H_0031/A/142:144,
1/A/178:184,
1/A/193:198,
1/A/219:221		No text annotation
J4_9H9H_0041/A/575:577,
1/A/764:769,
1/A/810:821,
1/A/879:880		No text annotation
J5_9H9H_0011/A/36:39,
1/A/403:406,
1/A/436:440,
1/A/497:500,
1/A/545:548		No text annotation
J5_9H9H_0021/A/36:39,
1/A/403:406,
1/A/436:442,
1/A/492:500,
1/A/545:548		No text annotation
J5_9H9H_0031/A/58:61,
1/A/106:113,
1/A/314:316,
1/A/337:339,
1/A/350:354		No text annotation

Problematic loops

#loop idProblemSequence
J3_9H9H_012No text annotation

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