RNA 3D Hub //

5WLC Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_5WLC_0011/L0/120:125GNRA
geometric
HL_6CB3_004
HL_34789.2
HL_5WLC_0031/L0/251:257Mini UNCG with extended bulge
geometric
HL_7A0S_017
HL_90436.2
HL_5WLC_0041/L0/301:305Mini UNCG
geometric
HL_5TBW_071
NA
HL_5WLC_0061/L0/424:433GNRA related
geometric
HL_8C3A_199
NA
HL_5WLC_0071/L0/514:521GNRA wlth tandem sheared
geometric
HL_3HHN_010
HL_87306.1
HL_5WLC_0091/L1/154:160GNRA related
homologous
HL_4V88_188
NA
HL_5WLC_0361/L1/330:338No text annotation
homologous
HL_8P9A_197
HL_87268.1
HL_5WLC_0141/L1/364:380No text annotation
geometric
HL_5TBW_226
NA
HL_5WLC_0151/L1/393:404No text annotation
homologous
HL_4V88_195
NA
HL_5WLC_0161/L1/414:419UNCG
homologous
HL_4V88_196
NA
HL_5WLC_0181/L1/491:496GNRA variation
geometric
HL_1JID_001
HL_34789.2
HL_5WLC_0341/L1/517:535No text annotation
HL_5WLC_0191/L1/520:532No text annotation
geometric
HL_4V88_199
NA
HL_5WLC_0201/L1/561:566No text annotation
geometric
HL_4V9F_011
HL_75660.7
HL_5WLC_0251/L1/1129:1139No text annotation
geometric
HL_3IGI_004
HL_37569.2
HL_5WLC_0271/L1/1501:1506GNRA
homologous
HL_4V88_218
NA
HL_5WLC_0291/L1/1594:1602No text annotation
HL_5WLC_0301/L1/1629:1636Purine riboswitch
geometric
HL_4LX6_002
HL_46333.1

Problematic loops

#loop idProblemSequence
HL_5WLC_002GNRA with extra cWW
HL_5WLC_033GNRA
HL_5WLC_005No text annotation
HL_5WLC_008No text annotation
HL_5WLC_010No text annotation
HL_5WLC_011No text annotation
HL_5WLC_012Mini UNCG
HL_5WLC_013No text annotation
HL_5WLC_017No text annotation
HL_5WLC_021No text annotation
HL_5WLC_035No text annotation
HL_5WLC_022No text annotation
HL_5WLC_023GNRA
HL_5WLC_024No text annotation
HL_5WLC_026No text annotation
HL_5WLC_028No text annotation
HL_5WLC_031GNRA variation
HL_5WLC_032No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_5WLC_0011/L0/17:18,
1/L0/62:64		Single bulged G
geometric
IL_5TBW_037
NA
IL_5WLC_0021/L0/94:95,
1/L0/149:156		Multiple bulged bases
geometric
IL_7Q80_003
IL_05670.1
IL_5WLC_0031/L0/97:99,
1/L0/145:147		Isolated cWH basepair
geometric
IL_3R1C_012
IL_10892.2
IL_5WLC_0041/L0/100:104,
1/L0/140:144		No text annotation
IL_5WLC_0051/L0/107:110,
1/L0/136:137		Single stack bend
geometric
IL_5TBW_070
NA
IL_5WLC_0691/L0/168:171,
1/L0/225:227		No text annotation
IL_5WLC_0861/L0/187:189,
1/L0/208:210		Isolated non-canonical cWW pair
geometric
IL_4M4O_002
IL_01003.2
IL_5WLC_0101/L0/245:246,
1/L0/266:268		Single bulged U
geometric
IL_4O26_001
IL_97561.2
IL_5WLC_0111/L0/250:251,
1/L0/257:262		Multiple bulged bases
geometric
IL_1R3E_002
IL_05670.1
IL_5WLC_0121/L0/337:340,
1/L0/386:387		Major groove minor groove platform; mini C-loop
geometric
IL_4V9F_068
IL_73108.2
IL_5WLC_0721/L0/337:341,
1/L0/384:387		No text annotation
IL_5WLC_0131/L0/340:341,
1/L0/384:386		Single bulged A
geometric
IL_1JZV_002
IL_14190.2
IL_5WLC_0731/L0/342:343,
1/L0/381:383		Single bulged U
geometric
IL_8F5G_001
IL_97561.2
IL_5WLC_0151/L0/346:349,
1/L0/375:378		Tandem non-canonical cWW pairs
geometric
IL_5TBW_128
NA
IL_5WLC_0871/L0/402:407,
1/L0/449:455		No text annotation
IL_5WLC_0171/L0/413:414,
1/L0/441:443		Single stack bend
geometric
IL_5J7L_032
NA
IL_5WLC_0181/L0/414:415,
1/L0/439:441		Single bulged U
geometric
IL_3WBM_001
IL_97561.2
IL_5WLC_0191/L0/465:467,
1/L2/50:51		Single stack bend
geometric
IL_5TBW_070
NA
IL_5WLC_0881/L0/467:470,
1/L2/48:50		Isolated non-canonical cWW pair
geometric
IL_6CZR_118
NA
IL_5WLC_0221/L0/501:503,
1/L0/533:537		No text annotation
IL_5WLC_0231/L0/505:507,
1/L0/529:531		Isolated non-canonical cWW pair
geometric
IL_5TBW_068
NA
IL_5WLC_0261/L1/50:52,
1/L1/428:429		Single stack bend
geometric
IL_4V9F_005
IL_15011.2
IL_5WLC_0291/L1/117:122,
1/L1/295:299		No text annotation
homologous
IL_4V88_393
NA
IL_5WLC_0301/L1/150:152,
1/L1/162:164		Isolated non-canonical cWW contact
homologous
IL_4V88_395
NA
IL_5WLC_0391/L1/389:391,
1/L1/406:408		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_5WLC_0401/L1/411:413,
1/L1/420:422		Isolated near basepair
homologous
IL_4V88_406
NA
IL_5WLC_0891/L1/443:447,
1/L1/460:461		C-loop
homologous
IL_8P9A_397
IL_26900.1
IL_5WLC_0901/L1/447:448,
1/L1/458:460		Single bulged G
homologous
IL_8P9A_398
IL_28408.2
IL_5WLC_0431/L1/482:483,
1/L1/504:506		Single bulged A
homologous
IL_4V88_409
NA
IL_5WLC_0441/L1/517:520,
1/L1/532:535		Tandem non-canonical cWW pairs
geometric
IL_4UYK_003
IL_71194.2
IL_5WLC_0451/L1/551:552,
1/L1/584:587		Multiple bulged bases
geometric
IL_7A0S_090
IL_44609.2
IL_5WLC_0781/L1/551:559,
1/L1/568:587		No text annotation
IL_5WLC_0461/L1/552:559,
1/L1/568:584		No text annotation
IL_5WLC_0561/L1/1117:1119,
1/L2/6:7		Single bulged G
geometric
IL_3IGI_004
IL_28408.2
IL_5WLC_0831/L1/1150:1151,
1/L1/1627:1640		No text annotation
IL_5WLC_0571/L1/1157:1160,
1/L1/1617:1621		C-loop
homologous
IL_4V88_443
NA
IL_5WLC_0581/L1/1173:1176,
1/L1/1463:1466		Tandem non-canonical cWW pairs
geometric
IL_5EW4_001
IL_76776.1
IL_5WLC_0621/L1/1495:1498,
1/L1/1509:1512		Tandem non-canonical cWW pairs
homologous
IL_4V88_461
NA
IL_5WLC_0631/L1/1650:1652,
1/L1/1748:1750		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_5WLC_0641/L2/78:85,
1/L2/325:329		No text annotation
IL_5WLC_0851/L2/78:96,
1/L2/320:329		No text annotation
IL_5WLC_0651/L2/97:98,
1/L2/317:319		No text annotation
IL_5WLC_0661/L2/111:115,
1/L2/252:259		No text annotation

Problematic loops

#loop idProblemSequence
IL_5WLC_068No text annotation
IL_5WLC_006Isolated cWH basepair
IL_5WLC_007No text annotation
IL_5WLC_008Isolated non-canonical cWW pair
IL_5WLC_070Triple non-canonical cWW pairs
IL_5WLC_009Tandem non-canonical cWW pairs
IL_5WLC_071Isolated non-canonical cWW pair
IL_5WLC_014Isolated non-canonical cWW pair
IL_5WLC_016No text annotation
IL_5WLC_020Tandem non-canonical cWW pairs
IL_5WLC_021Single bulged U
IL_5WLC_074No text annotation
IL_5WLC_075Tandem non-canonical cWW pairs
IL_5WLC_076Single bulged U
IL_5WLC_024Single bulged G, near cWW
IL_5WLC_025Isolated non-canonical cWW pair
IL_5WLC_077No text annotation
IL_5WLC_027Tandem non-canonical cWW pairs
IL_5WLC_028Multiple bulged bases
IL_5WLC_031Double sheared
IL_5WLC_032Isolated non-canonical cWW pair
IL_5WLC_033C-loop
IL_5WLC_034Single bulged A
IL_5WLC_035No text annotation
IL_5WLC_036Single bulged U
IL_5WLC_037Kink-turn with non-sequential stacking
IL_5WLC_038No text annotation
IL_5WLC_041Single bulged U
IL_5WLC_042C-loop with extra cWW pair
IL_5WLC_047Isolated non-canonical cWW pair
IL_5WLC_048tSH-tHW-tHS
IL_5WLC_079Isolated non-canonical cWW pair
IL_5WLC_049Tandem non-canonical cWW pairs
IL_5WLC_080Isolated non-canonical cWW pair
IL_5WLC_050Tandem non-canonical cWW pairs
IL_5WLC_051Tandem non-canonical cWW pairs
IL_5WLC_081Partly complementary
IL_5WLC_052Tandem non-canonical cWW pairs
IL_5WLC_053No text annotation
IL_5WLC_082Kink-turn related
IL_5WLC_054Other IL
IL_5WLC_055tSH-tHW-tHS
IL_5WLC_084No text annotation
IL_5WLC_059Isolated non-canonical cWW pair
IL_5WLC_060Single bulged U
IL_5WLC_091Single bulged A
IL_5WLC_061Tandem non-canonical cWW pairs
IL_5WLC_067No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_5WLC_0031/L1/1150:1151,
1/L1/1627:1629,
1/L1/1636:1640		No text annotation
J3_5WLC_0091/L1/1161:1164,
1/L1/1581:1587,
1/L1/1609:1616		No text annotation
homologous
J3_8C3A_038
NA
J3_5WLC_0041/L1/1168:1171,
1/L1/1468:1470,
1/L1/1574:1577		No text annotation
homologous
J3_4V88_036
NA
J4_5WLC_0011/L1/99:107,
1/L1/307:309,
1/L1/357:363,
1/L1/381:384		No text annotation
J5_5WLC_0011/L0/291:299,
1/L0/307:333,
1/L0/391:397,
1/L0/460:462,
1/L2/54:62		No text annotation
J5_5WLC_0021/L1/31:37,
1/L1/471:479,
1/L1/509:516,
1/L1/536:546,
1/L1/592:595		No text annotation

Problematic loops

#loop idProblemSequence
J3_5WLC_007No text annotation
J3_5WLC_001No text annotation
J3_5WLC_008No text annotation
J3_5WLC_002No text annotation
J3_5WLC_010No text annotation
J3_5WLC_005No text annotation
J3_5WLC_006No text annotation

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