RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6RBD_0011/2/7:17No text annotation
homologous
HL_4V88_186
NA
HL_6RBD_0021/2/70:81No text annotation
homologous
HL_4V88_187
NA
HL_6RBD_0031/2/154:160GNRA related
homologous
HL_4V88_188
NA
HL_6RBD_0061/2/243:250T-loop with 1 bulged base
homologous
HL_4V88_191
NA
HL_6RBD_0081/2/330:338GNRA related
homologous
HL_4V88_193
NA
HL_6RBD_0091/2/368:373No text annotation
homologous
HL_4V88_194
NA
HL_6RBD_0101/2/393:404No text annotation
homologous
HL_4V88_195
NA
HL_6RBD_0111/2/414:419UNCG
homologous
HL_4V88_196
NA
HL_6RBD_0121/2/450:456No text annotation
homologous
HL_4V88_197
NA
HL_6RBD_0141/2/520:532No text annotation
homologous
HL_4V88_199
NA
HL_6RBD_0151/2/552:572No text annotation
HL_6RBD_0171/2/764:772No text annotation
homologous
HL_4V88_203
NA
HL_6RBD_0181/2/777:783No text annotation
homologous
HL_4V88_204
NA
HL_6RBD_0211/2/937:942GNRA
homologous
HL_4V88_207
NA
HL_6RBD_0241/2/1084:1089GNRA
homologous
HL_4V88_210
NA
HL_6RBD_0251/2/1121:1126GNRA
homologous
HL_4V88_211
NA
HL_6RBD_0361/2/1778:1783No text annotation
geometric
HL_3SKI_003
HL_97696.1

Problematic loops

#loop idProblemSequence
HL_6RBD_004No text annotation
HL_6RBD_005No text annotation
HL_6RBD_007Mini UNCG
HL_6RBD_013No text annotation
HL_6RBD_016No text annotation
HL_6RBD_019Pseudoknot geometry
HL_6RBD_020No text annotation
HL_6RBD_038No text annotation
HL_6RBD_022No text annotation
HL_6RBD_023No text annotation
HL_6RBD_037No text annotation
HL_6RBD_026No text annotation
HL_6RBD_027No text annotation
HL_6RBD_028GNRA
HL_6RBD_029No text annotation
HL_6RBD_030No text annotation
HL_6RBD_031GNRA
HL_6RBD_032GNRA
HL_6RBD_033No text annotation
HL_6RBD_034No text annotation
HL_6RBD_035No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6RBD_0011/2/24:26,
1/2/600:601		Single bulged C
homologous
IL_4V88_384
NA
IL_6RBD_0021/2/35:37,
1/2/471:473		Isolated non-canonical cWW pair
geometric
IL_4V88_385
NA
IL_6RBD_0031/2/37:41,
1/2/466:471		Triple sheared related
homologous
IL_4V88_386
NA
IL_6RBD_0041/2/42:48,
1/2/431:433		No text annotation
homologous
IL_4V88_387
NA
IL_6RBD_0051/2/50:52,
1/2/428:429		Minor groove platform
homologous
IL_4V88_388
NA
IL_6RBD_0061/2/58:63,
1/2/87:89		No text annotation
homologous
IL_4V88_389
NA
IL_6RBD_0071/2/64:69,
1/2/82:86		No text annotation
homologous
IL_4V88_390
NA
IL_6RBD_0081/2/109:112,
1/2/302:305		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_6RBD_0091/2/113:116,
1/2/300:301		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_6RBD_0101/2/117:122,
1/2/295:299		No text annotation
homologous
IL_4V88_393
NA
IL_6RBD_0111/2/143:149,
1/2/165:172		tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA
IL_6RBD_0121/2/150:152,
1/2/162:164		Isolated non-canonical cWW pair
geometric
IL_6OL3_002
IL_01003.3
IL_6RBD_0141/2/204:206,
1/2/259:263		Major groove platform with extra cWW
homologous
IL_4V88_397
NA
IL_6RBD_0151/2/206:208,
1/2/257:259		Isolated non-canonical cWW pair
geometric
IL_4V88_398
NA
IL_6RBD_0161/2/265:267,
1/2/288:289		Single bulged A
homologous
IL_4V88_399
NA
IL_6RBD_0171/2/270:273,
1/2/283:285		No text annotation
homologous
IL_4V88_400
NA
IL_6RBD_0191/2/311:316,
1/2/348:355		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_6RBD_0201/2/318:323,
1/2/345:346		No text annotation
geometric
IL_5Y58_001
IL_37738.1
IL_6RBD_0211/2/363:365,
1/2/376:381		No text annotation
homologous
IL_4V88_404
NA
IL_6RBD_0221/2/389:391,
1/2/406:408		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_6RBD_0231/2/411:413,
1/2/420:422		Isolated near basepair
homologous
IL_4V88_406
NA
IL_6RBD_0241/2/439:441,
1/2/463:464		Single bulged U
geometric
IL_4V88_407
NA
IL_6RBD_0251/2/443:447,
1/2/460:461		C-loop
geometric
IL_5J7L_018
NA
IL_6RBD_0261/2/447:448,
1/2/458:460		Single bulged G
geometric
IL_5J7L_019
NA
IL_6RBD_0271/2/481:482,
1/2/505:507		Single bulged A
homologous
IL_4V88_409
NA
IL_6RBD_0281/2/514:516,
1/2/536:543		No text annotation
IL_6RBD_0291/2/517:518,
1/2/533:535		Minor groove platform
geometric
IL_4V88_388
NA
IL_6RBD_0301/2/518:520,
1/2/532:533		Minor groove platform
geometric
IL_4V88_412
NA
IL_6RBD_0311/2/550:551,
1/2/573:588		No text annotation
IL_6RBD_0321/2/616:622,
1/2/1104:1105		No text annotation
homologous
IL_4V88_416
NA
IL_6RBD_0331/2/624:626,
1/2/973:975		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_6RBD_0341/2/627:631,
1/2/968:972		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_6RBD_0401/2/746:747,
1/2/802:805		Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA
IL_6RBD_0411/2/748:750,
1/2/799:801		Isolated non-canonical cWW pair
homologous
IL_4V88_424
NA
IL_6RBD_0421/2/751:759,
1/2/791:798		No text annotation
homologous
IL_4V88_425
NA
IL_6RBD_0451/2/865:866,
1/2/962:965		Major groove platform; stack outside cWW
homologous
IL_4V88_428
NA
IL_6RBD_0891/2/868:869,
1/2/958:960		Single bulged U
geometric
IL_3NDB_005
NA
IL_6RBD_0901/2/871:873,
1/2/954:956		Isolated non-canonical cWW pair
geometric
IL_2R8S_001
IL_01003.3
IL_6RBD_0481/2/874:878,
1/2/950:953		Tandem non-canonical cWW pairs
homologous
IL_4V88_431
NA
IL_6RBD_0491/2/885:888,
1/2/924:927		Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA
IL_6RBD_0501/2/893:899,
1/2/910:919		Kink-turn related
homologous
IL_8C3A_440
NA
IL_6RBD_0511/2/985:990,
1/2/1014:1016		Other IL
geometric
IL_4V88_435
NA
IL_6RBD_0521/2/990:994,
1/2/1010:1014		tSH-tHW-tHS
homologous
IL_4V88_436
NA
IL_6RBD_0531/2/1034:1036,
1/2/1095:1101		No text annotation
homologous
IL_4V88_437
NA
IL_6RBD_0541/2/1041:1044,
1/2/1074:1077		Tandem non-canonical cWW pairs
homologous
IL_4V88_438
NA
IL_6RBD_0551/2/1051:1053,
1/2/1066:1067		Single bulged U
homologous
IL_4V88_439
NA
IL_6RBD_0561/2/1111:1118,
1/2/1129:1134		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_6RBD_0811/2/1665:1667,
1/2/1734:1736		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_6RBD_0821/2/1669:1672,
1/2/1729:1732		Double sheared
geometric
IL_4V88_471
NA
IL_6RBD_0831/2/1672:1674,
1/2/1727:1729		Isolated non-canonical cWW pair
homologous
IL_4V88_472
NA
IL_6RBD_0841/2/1675:1678,
1/2/1723:1726		Tandem non-canonical cWW pairs
geometric
IL_4V88_473
NA
IL_6RBD_0851/2/1678:1682,
1/2/1719:1723		Triple sheared
homologous
IL_4V88_474
NA

Problematic loops

#loop idProblemSequence
IL_6RBD_013Double sheared
IL_6RBD_018Single bulged U
IL_6RBD_035Isolated non-canonical cWW pair
IL_6RBD_036No text annotation
IL_6RBD_037Self complementary
IL_6RBD_088No text annotation
IL_6RBD_038Tandem non-canonical cWW pairs
IL_6RBD_039Tandem non-canonical cWW pairs
IL_6RBD_043Isolated non-canonical cWW pair
IL_6RBD_044Isolated cWH basepair
IL_6RBD_046Tandem non-canonical cWW pairs
IL_6RBD_047Tandem non-canonical cWW pairs
IL_6RBD_057C-loop
IL_6RBD_058Isolated non-canonical cWW pair
IL_6RBD_059Minor groove platform
IL_6RBD_060Isolated non-canonical cWW pair
IL_6RBD_091No text annotation
IL_6RBD_061No text annotation
IL_6RBD_062Isolated non-canonical cWW pair
IL_6RBD_063Single stack bend
IL_6RBD_092Isolated non-canonical cWW pair
IL_6RBD_064No text annotation
IL_6RBD_065Single bulged U
IL_6RBD_066Isolated cWH basepair
IL_6RBD_067Minor groove platform
IL_6RBD_068Isolated non-canonical cWW pair
IL_6RBD_069Minor groove platform
IL_6RBD_070Isolated non-canonical cWW pair
IL_6RBD_071Major groove platform; stack outside cWW
IL_6RBD_072No text annotation
IL_6RBD_073180 degree turn
IL_6RBD_074Tandem non-canonical cWW pairs
IL_6RBD_075No text annotation
IL_6RBD_094No text annotation
IL_6RBD_076No text annotation
IL_6RBD_077Isolated non-canonical cWW pair
IL_6RBD_078Tandem non-canonical cWW pairs
IL_6RBD_079Isolated non-canonical cWW pair
IL_6RBD_093Isolated non-canonical cWW pair
IL_6RBD_080No text annotation
IL_6RBD_086Isolated cWH basepair
IL_6RBD_087Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6RBD_0011/2/41:42,
1/2/433:439,
1/2/464:466		No text annotation
homologous
J3_8P9A_068
J3_58657.1
J3_6RBD_0171/2/213:228,
1/2/237:243,
1/2/250:252		No text annotation
J3_6RBD_0021/2/633:635,
1/2/861:865,
1/2/965:966		No text annotation
geometric
J3_4V88_080
NA
J3_6RBD_0141/2/633:635,
1/2/861:866,
1/2/962:966		No text annotation
homologous
J3_8P9A_072
J3_17385.5
J3_6RBD_0031/2/760:763,
1/2/773:775,
1/2/785:790		No text annotation
homologous
J3_4V88_032
NA
J3_6RBD_0041/2/881:884,
1/2/928:936,
1/2/943:947		No text annotation
homologous
J3_4V88_033
NA
J3_6RBD_0051/2/1037:1039,
1/2/1079:1083,
1/2/1090:1094		No text annotation
homologous
J3_4V88_034
NA
J4_6RBD_0011/2/99:107,
1/2/307:309,
1/2/357:361,
1/2/383:384		No text annotation
homologous
J4_8P9A_021
J4_15241.2
J4_6RBD_0021/2/622:624,
1/2/975:980,
1/2/1021:1032,
1/2/1103:1104		No text annotation
homologous
J4_8C3A_022
NA
J5_6RBD_0011/2/31:35,
1/2/473:479,
1/2/509:514,
1/2/543:547,
1/2/591:595		No text annotation
J5_6RBD_0021/2/31:35,
1/2/473:479,
1/2/509:516,
1/2/536:547,
1/2/591:595		No text annotation
J5_6RBD_0031/2/54:57,
1/2/90:97,
1/2/386:388,
1/2/409:411,
1/2/422:426		No text annotation
homologous
J5_8C3A_020
NA
J5_6RBD_0041/2/124:143,
1/2/172:182,
1/2/203:204,
1/2/263:265,
1/2/289:293		No text annotation
J5_6RBD_0051/2/124:143,
1/2/172:182,
1/2/203:204,
1/2/263:267,
1/2/288:293		No text annotation
J5_6RBD_0071/2/636:641,
1/2/693:698,
1/2/740:744,
1/2/807:817,
1/2/854:860		No text annotation

Problematic loops

#loop idProblemSequence
J3_6RBD_013No text annotation
J3_6RBD_006No text annotation
J3_6RBD_007No text annotation
J3_6RBD_008No text annotation
J3_6RBD_009No text annotation
J3_6RBD_015No text annotation
J3_6RBD_018No text annotation
J3_6RBD_019No text annotation
J3_6RBD_010No text annotation
J3_6RBD_011No text annotation
J3_6RBD_016No text annotation
J3_6RBD_012No text annotation
J5_6RBD_006No text annotation

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