RNA 3D Hub //

6NQB Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6NQB_0011/A/12:22No text annotation
homologous
HL_5J7L_001
HL_89881.5
HL_6NQB_0021/A/82:87No text annotation
HL_6NQB_0031/A/158:163GNRA
homologous
HL_4LFB_003
HL_37824.7
HL_6NQB_0041/A/186:191GNRA
homologous
HL_5J7L_004
HL_37824.7
HL_6NQB_0051/A/207:212UNCG
homologous
HL_5J7L_005
HL_34617.5
HL_6NQB_0331/A/259:267GNRA related
homologous
HL_5J7L_006
HL_84299.4
HL_6NQB_0071/A/296:301GNRA
homologous
HL_5J7L_007
HL_37824.7
HL_6NQB_0311/A/321:333No text annotation
HL_6NQB_0091/A/342:347UNCG
homologous
HL_5J7L_009
HL_34617.5
HL_6NQB_0101/A/379:384GNRA
homologous
HL_5J7L_010
HL_37824.7
HL_6NQB_0111/A/419:424UNCG
homologous
HL_5J7L_011
HL_34617.5
HL_6NQB_0121/A/459:473No text annotation
HL_6NQB_0131/A/522:527No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_6NQB_0141/A/617:623No text annotation
homologous
HL_4LFB_014
HL_10453.3
HL_6NQB_0151/A/726:731GNRA
homologous
HL_4LFB_016
HL_37824.7
HL_6NQB_0341/A/840:846No text annotation
HL_6NQB_0181/A/897:902GNRA
homologous
HL_6CZR_091
NA
HL_6NQB_0191/A/962:973No text annotation
geometric
HL_4V9F_003
HL_75660.5
HL_6NQB_0201/A/1010:1019No text annotation
geometric
HL_8KAL_008
NA
HL_6NQB_0211/A/1028:1033No text annotation
geometric
HL_4V88_198
NA
HL_6NQB_0221/A/1076:1081GNRA
homologous
HL_5J7L_023
HL_37824.7
HL_6NQB_0231/A/1089:1096T-loop related
homologous
HL_5J7L_024
HL_77436.5
HL_6NQB_0241/A/1134:1140No text annotation
homologous
HL_6CZR_097
NA
HL_6NQB_0251/A/1165:1171GNRA
homologous
HL_4LFB_027
HL_37824.7
HL_6NQB_0261/A/1264:1271No text annotation
geometric
HL_4V88_215
NA
HL_6NQB_0271/A/1314:1323T-loop with 3 stacked bulged bases
homologous
HL_6CZR_100
NA
HL_6NQB_0351/A/1356:1366No text annotation
homologous
HL_4LFB_030
HL_06226.4

Problematic loops

#loop idProblemSequence
HL_6NQB_029No text annotation
HL_6NQB_030No text annotation
HL_6NQB_006No text annotation
HL_6NQB_008No text annotation
HL_6NQB_016No text annotation
HL_6NQB_017No text annotation
HL_6NQB_032GNRA with near cWW
HL_6NQB_028No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6NQB_0011/A/30:32,
1/A/552:553		Single bulged G
homologous
IL_5J7L_001
IL_00225.13
IL_6NQB_0021/A/43:45,
1/A/396:399		Isolated non-canonical cWW pair
geometric
IL_5TBW_008
NA
IL_6NQB_0031/A/54:56,
1/A/356:357		Minor groove platform
homologous
IL_4LFB_004
IL_51454.3
IL_6NQB_0041/A/63:66,
1/A/103:104		Multiple bulged bases
homologous
IL_6CZR_117
NA
IL_6NQB_0461/A/67:69,
1/A/99:102		Minor groove platform with extra cWW
homologous
IL_5J7L_006
IL_90351.1
IL_6NQB_0591/A/70:73,
1/A/97:98		Minor groove platform
homologous
IL_5J7L_007
IL_15052.4
IL_6NQB_0071/A/75:76,
1/A/93:95		Single bulged G
geometric
IL_5DEA_002
IL_00225.13
IL_6NQB_0601/A/128:131,
1/A/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
IL_57744.1
IL_6NQB_0091/A/132:136,
1/A/227:230		No text annotation
geometric
IL_4LFB_008
IL_64231.5
IL_6NQB_0101/A/144:146,
1/A/176:178		Isolated cWH basepair
homologous
IL_5J7L_011
IL_10167.6
IL_6NQB_0111/A/147:153,
1/A/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
IL_80604.6
IL_6NQB_0611/A/203:206,
1/A/213:214		No text annotation
IL_6NQB_0131/A/242:247,
1/A/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
IL_46174.3
IL_6NQB_0141/A/249:252,
1/A/274:275		No text annotation
homologous
IL_4LFB_012
IL_47074.2
IL_6NQB_0491/A/290:295,
1/A/302:310		No text annotation
IL_6NQB_0151/A/292:295,
1/A/302:308		No text annotation
IL_6NQB_0501/A/319:321,
1/A/333:334		Single stack bend
geometric
IL_7A0S_054
IL_26793.1
IL_6NQB_0161/A/367:375,
1/A/389:393		No text annotation
IL_6NQB_0621/A/371:376,
1/A/387:390		No text annotation
IL_6NQB_0171/A/375:376,
1/A/387:389		Single bulged G
homologous
IL_5J7L_019
IL_00225.13
IL_6NQB_0181/A/409:416,
1/A/427:433		No text annotation
homologous
IL_5J7L_020
IL_28026.3
IL_6NQB_0191/A/440:442,
1/A/492:497		No text annotation
homologous
IL_5J7L_021
IL_33323.1
IL_6NQB_0201/A/445:450,
1/A/483:489		No text annotation
IL_6NQB_0211/A/450:455,
1/A/477:483		No text annotation
geometric
IL_5J7L_023
IL_70801.1
IL_6NQB_0221/A/504:511,
1/A/540:541		SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_41203.4
IL_6NQB_0231/A/515:521,
1/A/528:536		Kink-turn related
geometric
IL_4V88_415
NA
IL_6NQB_0241/A/578:584,
1/A/757:763		No text annotation
IL_6NQB_0251/A/594:598,
1/A/640:645		No text annotation
IL_6NQB_0261/A/605:612,
1/A/628:633		No text annotation
homologous
IL_5J7L_030
IL_78349.3
IL_6NQB_0271/A/654:655,
1/A/751:754		Major groove platform; stack outside cWW
homologous
IL_4LFB_027
IL_50694.7
IL_6NQB_0281/A/658:660,
1/A/745:748		No text annotation
geometric
IL_4P3T_002
NA
IL_6NQB_0291/A/662:666,
1/A/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
IL_85033.2
IL_6NQB_0311/A/824:829,
1/A/857:876		No text annotation
IL_6NQB_0321/A/887:894,
1/A/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4LFB_034
IL_41756.4
IL_6NQB_0331/A/925:930,
1/A/1387:1391		No text annotation
IL_6NQB_0341/A/933:936,
1/A/1379:1384		No text annotation
homologous
IL_6CZR_149
NA
IL_6NQB_0541/A/955:984,
1/A/1221:1225		No text annotation
IL_6NQB_0641/A/997:1000,
1/A/1040:1044		No text annotation
IL_6NQB_0361/A/1051:1058,
1/A/1199:1207		No text annotation
IL_6NQB_0651/A/1060:1061,
1/A/1195:1197		Single bulged U
homologous
IL_4LFB_046
IL_89505.4
IL_6NQB_0381/A/1061:1063,
1/A/1193:1195		Isolated non-canonical cWW pair
homologous
IL_5J7L_050
IL_28037.2
IL_6NQB_0391/A/1121:1129,
1/A/1143:1152		No text annotation
IL_6NQB_0571/A/1129:1132,
1/A/1142:1143		Minor groove platform
homologous
IL_5J7L_052
IL_15052.4
IL_6NQB_0411/A/1158:1161,
1/A/1175:1181		No text annotation
homologous
IL_5J7L_053
IL_42032.1
IL_6NQB_0421/A/1246:1253,
1/A/1284:1291		No text annotation
IL_6NQB_0431/A/1255:1258,
1/A/1277:1282		No text annotation
IL_6NQB_0441/A/1259:1263,
1/A/1272:1276		Triple sheared
homologous
IL_5J7L_056
IL_17948.2
IL_6NQB_0451/A/1303:1308,
1/A/1329:1334		No text annotation
homologous
IL_5J7L_057
IL_85536.2
IL_6NQB_0581/A/1303:1314,
1/A/1323:1334		No text annotation

Problematic loops

#loop idProblemSequence
IL_6NQB_005No text annotation
IL_6NQB_006No text annotation
IL_6NQB_008Tandem non-canonical cWW pairs
IL_6NQB_047No text annotation
IL_6NQB_048No text annotation
IL_6NQB_012No text annotation
IL_6NQB_051No text annotation
IL_6NQB_052No text annotation
IL_6NQB_030No text annotation
IL_6NQB_0539x7 Sarcin-Ricin with inserted C; G-bulge
IL_6NQB_063Isolated non-canonical cWW pair
IL_6NQB_055Tandem non-canonical cWW pairs
IL_6NQB_056No text annotation
IL_6NQB_035No text annotation
IL_6NQB_037Self complementary
IL_6NQB_040No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6NQB_0011/A/46:52,
1/A/359:367,
1/A/393:395		No text annotation
geometric
J3_5J7L_050
J3_46317.4
J3_6NQB_0091/A/46:52,
1/A/359:369,
1/A/392:395		No text annotation
J3_6NQB_0021/A/586:588,
1/A/651:654,
1/A/754:755		No text annotation
geometric
J3_4LFB_011
J3_56052.5
J3_6NQB_0171/A/586:588,
1/A/651:655,
1/A/751:755		No text annotation
homologous
J3_4LFB_015
J3_17385.4
J3_6NQB_0181/A/933:939,
1/A/1344:1350,
1/A/1372:1384		No text annotation
J3_6NQB_0131/A/943:954,
1/A/1226:1237,
1/A/1337:1340		No text annotation
J3_6NQB_0031/A/955:962,
1/A/973:984,
1/A/1221:1225		No text annotation
homologous
J3_4LFB_004
J3_83516.4
J3_6NQB_0041/A/990:997,
1/A/1044:1051,
1/A/1207:1215		No text annotation
J3_6NQB_0191/A/1003:1006,
1/A/1023:1027,
1/A/1034:1037		No text annotation
J3_6NQB_0061/A/1063:1068,
1/A/1107:1113,
1/A/1187:1193		No text annotation
homologous
J3_4LFB_007
J3_08394.3
J3_6NQB_0201/A/1073:1075,
1/A/1082:1086,
1/A/1099:1102		No text annotation
J3_6NQB_0211/A/1116:1121,
1/A/1152:1158,
1/A/1181:1184		No text annotation
J3_6NQB_0221/A/1116:1121,
1/A/1152:1161,
1/A/1175:1184		No text annotation
J3_6NQB_0161/A/1237:1242,
1/A/1295:1303,
1/A/1334:1337		No text annotation
J4_6NQB_0011/A/141:144,
1/A/178:184,
1/A/193:198,
1/A/219:222		No text annotation
J5_6NQB_0011/A/36:45,
1/A/396:406,
1/A/436:440,
1/A/497:500,
1/A/545:548		No text annotation
J5_6NQB_0021/A/36:45,
1/A/396:406,
1/A/436:442,
1/A/492:500,
1/A/545:548		No text annotation
J7_6NQB_0021/A/58:61,
1/A/106:123,
1/A/238:240,
1/A/286:289,
1/A/311:316,
1/A/337:339,
1/A/350:354		No text annotation

Problematic loops

#loop idProblemSequence
J3_6NQB_010No text annotation
J3_6NQB_011No text annotation
J3_6NQB_012No text annotation
J3_6NQB_005No text annotation
J3_6NQB_014No text annotation
J3_6NQB_007No text annotation
J3_6NQB_008No text annotation
J3_6NQB_015No text annotation
J7_6NQB_001No text annotation

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