RNA 3D Hub //

3J7A Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_3J7A_0011/A/7:17No text annotation
homologous
HL_4V88_186
NA
HL_3J7A_0021/A/152:158GNRA
geometric
HL_7RQB_047
NA
HL_3J7A_0041/A/245:252T-loop with 1 bulged base
geometric
HL_4V88_191
NA
HL_3J7A_0061/A/336:344GNRA related
homologous
HL_4V88_193
NA
HL_3J7A_0071/A/374:379GNRA
geometric
HL_3RG5_007
HL_34789.1
HL_3J7A_0081/A/399:410No text annotation
homologous
HL_4V88_195
NA
HL_3J7A_0091/A/420:425UNCG
homologous
HL_4V88_196
NA
HL_3J7A_0101/A/456:462No text annotation
homologous
HL_4V88_197
NA
HL_3J7A_0121/A/528:538No text annotation
geometric
HL_4UYK_001
HL_14063.1
HL_3J7A_0131/A/576:581GNRA variation
homologous
HL_4V88_200
NA
HL_3J7A_0151/A/814:822No text annotation
homologous
HL_4V88_203
NA
HL_3J7A_0201/A/1066:1076No text annotation
homologous
HL_4V88_208
NA
HL_3J7A_0211/A/1185:1190GNRA
homologous
HL_4V88_210
NA

Problematic loops

#loop idProblemSequence
HL_3J7A_035No text annotation
HL_3J7A_036No text annotation
HL_3J7A_037No text annotation
HL_3J7A_038T-loop with 2 stacked bulged bases
HL_3J7A_003No text annotation
HL_3J7A_005No text annotation
HL_3J7A_011No text annotation
HL_3J7A_014No text annotation
HL_3J7A_016No text annotation
HL_3J7A_017No text annotation
HL_3J7A_018No text annotation
HL_3J7A_019GNRA
HL_3J7A_022GNRA
HL_3J7A_023No text annotation
HL_3J7A_024No text annotation
HL_3J7A_025Externally structured
HL_3J7A_026No text annotation
HL_3J7A_027No text annotation
HL_3J7A_028GNRA
HL_3J7A_029No text annotation
HL_3J7A_030GNRA
HL_3J7A_031No text annotation
HL_3J7A_032No text annotation
HL_3J7A_033No text annotation
HL_3J7A_034GNRA variation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_3J7A_0011/A/24:26,
1/A/607:608		Single bulged C
homologous
IL_4V88_384
NA
IL_3J7A_0021/A/37:41,
1/A/472:477		Triple sheared related
homologous
IL_4V88_386
NA
IL_3J7A_0031/A/42:48,
1/A/437:439		No text annotation
homologous
IL_4V88_387
NA
IL_3J7A_0041/A/50:52,
1/A/434:435		Minor groove platform
homologous
IL_4V88_388
NA
IL_3J7A_0051/A/58:63,
1/A/89:91		No text annotation
IL_3J7A_0061/A/64:68,
1/A/84:88		No text annotation
homologous
IL_4V88_390
NA
IL_3J7A_0081/A/111:114,
1/A/308:311		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_3J7A_0091/A/115:118,
1/A/306:307		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_3J7A_0101/A/119:123,
1/A/302:305		UAA/GAN related
geometric
IL_3LOA_001
NA
IL_3J7A_0111/A/141:147,
1/A/163:170		tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA
IL_3J7A_0141/A/266:268,
1/A/294:295		Single bulged A
homologous
IL_4V88_399
NA
IL_3J7A_0151/A/270:272,
1/A/291:292		No text annotation
IL_3J7A_0161/A/317:322,
1/A/354:361		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_3J7A_0181/A/369:371,
1/A/382:387		No text annotation
homologous
IL_4V88_404
NA
IL_3J7A_0191/A/395:397,
1/A/412:414		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_3J7A_0201/A/417:419,
1/A/426:428		Isolated near basepair
homologous
IL_4V88_406
NA
IL_3J7A_0211/A/445:447,
1/A/469:470		Single bulged U
homologous
IL_4V88_407
NA
IL_3J7A_0861/A/449:453,
1/A/466:467		C-loop
homologous
IL_8P9A_397
IL_26900.1
IL_3J7A_0871/A/453:454,
1/A/464:466		Single bulged G
homologous
IL_8P9A_398
IL_28408.1
IL_3J7A_0881/A/521:523,
1/A/543:550		No text annotation
homologous
IL_8CRE_418
IL_02511.1
IL_3J7A_0241/A/557:564,
1/A/594:595		SSU/LSU pseudoknot
homologous
IL_4V88_413
NA
IL_3J7A_0251/A/564:566,
1/A/593:594		Single bulged U
geometric
IL_4V88_407
NA
IL_3J7A_0261/A/569:575,
1/A/582:590		Kink-turn related
homologous
IL_4V88_415
NA
IL_3J7A_0271/A/623:629,
1/A/1205:1206		No text annotation
homologous
IL_4V88_416
NA
IL_3J7A_0321/A/798:800,
1/A/862:864		Isolated non-canonical cWW pair
homologous
IL_4V88_424
NA
IL_3J7A_0331/A/801:809,
1/A/854:861		No text annotation
homologous
IL_4V88_425
NA
IL_3J7A_0341/A/827:835,
1/A/845:846		No text annotation
IL_3J7A_0351/A/877:880,
1/A/922:926		No text annotation
IL_3J7A_0501/A/1212:1219,
1/A/1230:1235		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_3J7A_0511/A/1247:1248,
1/A/1927:1929		Single bulged A
homologous
IL_4V88_441
NA
IL_3J7A_0521/A/1250:1252,
1/A/1924:1925		Single bulged G
homologous
IL_4V88_442
NA
IL_3J7A_0561/A/1369:1371,
1/A/1686:1687		Single bulged U
homologous
IL_4V88_449
NA
IL_3J7A_0841/A/1373:1379,
1/A/1676:1684		No text annotation
homologous
IL_8P9A_439
IL_99893.1
IL_3J7A_0581/A/1377:1379,
1/A/1676:1682		Minor groove platform with extra cWW
homologous
IL_4V88_451
NA
IL_3J7A_0731/A/1941:1943,
1/A/2046:2049		Isolated non-canonical cWW pair
geometric
IL_5J7L_009
NA
IL_3J7A_0751/A/1950:1953,
1/A/2036:2039		Double sheared
homologous
IL_4V88_468
NA
IL_3J7A_0761/A/1953:1955,
1/A/2035:2036		Single bulged U
geometric
IL_4V88_469
NA
IL_3J7A_0771/A/1962:1964,
1/A/2026:2028		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_3J7A_0781/A/1966:1969,
1/A/2021:2024		Double sheared
homologous
IL_4V88_471
NA
IL_3J7A_0791/A/1970:1972,
1/A/2018:2020		Isolated non-canonical cWW pair
geometric
IL_7A0S_107
IL_71625.1
IL_3J7A_0801/A/1975:1979,
1/A/2011:2015		Triple sheared
homologous
IL_4V88_474
NA
IL_3J7A_0811/A/1979:1983,
1/A/2007:2011		No text annotation
geometric
IL_5TBW_121
NA

Problematic loops

#loop idProblemSequence
IL_3J7A_083Isolated non-canonical cWW pair
IL_3J7A_007No text annotation
IL_3J7A_012Isolated non-canonical cWW contact
IL_3J7A_013No text annotation
IL_3J7A_017No text annotation
IL_3J7A_022C-loop with extra cWW pair
IL_3J7A_023No text annotation
IL_3J7A_028Isolated non-canonical cWW pair
IL_3J7A_029tSH-tHW-tHS
IL_3J7A_030Tandem non-canonical cWW pairs
IL_3J7A_031Minor groove platform
IL_3J7A_036Isolated non-canonical cWW pair
IL_3J7A_037Tandem non-canonical cWW pairs
IL_3J7A_038Isolated non-canonical cWW contact
IL_3J7A_039Isolated non-canonical cWW pair
IL_3J7A_040Major groove platform; stack outside cWW
IL_3J7A_041Single bulged U
IL_3J7A_042Isolated non-canonical cWW pair
IL_3J7A_043Isolated non-canonical cWW pair
IL_3J7A_044Tandem non-canonical cWW pairs
IL_3J7A_045Kink-turn related
IL_3J7A_046Left turn
IL_3J7A_047tSH-tHW-tHS
IL_3J7A_048No text annotation
IL_3J7A_049Isolated non-canonical cWW pair
IL_3J7A_053C-loop
IL_3J7A_054Isolated non-canonical cWW pair
IL_3J7A_055Minor groove platform
IL_3J7A_057Isolated cWS basepair
IL_3J7A_059Single bulged A
IL_3J7A_060Minor groove platform
IL_3J7A_061No text annotation
IL_3J7A_062No text annotation
IL_3J7A_063No text annotation
IL_3J7A_064No text annotation
IL_3J7A_065No text annotation
IL_3J7A_085No text annotation
IL_3J7A_066Isolated non-canonical cWW pair
IL_3J7A_067Tandem non-canonical cWW pairs
IL_3J7A_068No text annotation
IL_3J7A_069Isolated non-canonical cWW pair
IL_3J7A_070No text annotation
IL_3J7A_071No text annotation
IL_3J7A_072Isolated non-canonical cWW pair
IL_3J7A_074Isolated non-canonical cWW pair
IL_3J7A_082Single stack bend

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_3J7A_0121/A/41:42,
1/A/439:445,
1/A/470:472		No text annotation
geometric
J3_8C3A_082
NA
J3_3J7A_0161/A/41:48,
1/A/437:445,
1/A/470:472		No text annotation
homologous
J3_8P9A_069
J3_63856.1
J4_3J7A_0011/A/101:109,
1/A/313:315,
1/A/363:367,
1/A/389:390		No text annotation
homologous
J4_8P9A_021
J4_15241.2
J5_3J7A_0011/A/31:35,
1/A/479:485,
1/A/516:521,
1/A/550:553,
1/A/599:602		No text annotation
homologous
J5_8C3A_018
NA
J5_3J7A_0041/A/31:35,
1/A/479:485,
1/A/516:523,
1/A/543:553,
1/A/599:602		No text annotation
J5_3J7A_0031/A/54:57,
1/A/92:99,
1/A/392:394,
1/A/415:417,
1/A/428:432		No text annotation
homologous
J5_8C3A_020
NA
J5_3J7A_0051/A/643:648,
1/A/752:755,
1/A/792:793,
1/A/871:880,
1/A/922:928		No text annotation

Problematic loops

#loop idProblemSequence
J3_3J7A_015No text annotation
J3_3J7A_013No text annotation
J3_3J7A_017No text annotation
J3_3J7A_001No text annotation
J3_3J7A_002No text annotation
J3_3J7A_003No text annotation
J3_3J7A_004No text annotation
J3_3J7A_005No text annotation
J3_3J7A_006No text annotation
J3_3J7A_007No text annotation
J3_3J7A_018No text annotation
J3_3J7A_008No text annotation
J3_3J7A_014No text annotation
J3_3J7A_009No text annotation
J3_3J7A_019No text annotation
J3_3J7A_010No text annotation
J3_3J7A_011No text annotation
J4_3J7A_002No text annotation
J5_3J7A_002No text annotation

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