RNA 3D Hub //

8JSH Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8JSH_0061/g/259:267GNRA related
homologous
HL_5J7L_006
NA
HL_8JSH_0081/g/320:333No text annotation
homologous
HL_4LFB_008
HL_39665.1
HL_8JSH_0131/g/522:527No text annotation
geometric
HL_4WF9_003
HL_75660.7
HL_8JSH_0141/g/616:624tRNA anticodon loop
geometric
HL_8H1B_001
HL_86621.1
HL_8JSH_0161/g/726:731GNRA
homologous
HL_4LFB_016
HL_34789.2
HL_8JSH_0191/g/862:867GNRA
homologous
HL_5J7L_019
NA

Problematic loops

#loop idProblemSequence
HL_8JSH_001No text annotation
HL_8JSH_024No text annotation
HL_8JSH_002No text annotation
HL_8JSH_003GNRA
HL_8JSH_004GNRA
HL_8JSH_005UNCG
HL_8JSH_007GNRA
HL_8JSH_009No text annotation
HL_8JSH_025UNCG
HL_8JSH_010GNRA
HL_8JSH_011UNCG
HL_8JSH_012GNRA wlth extra near cWW
HL_8JSH_015No text annotation
HL_8JSH_017No text annotation
HL_8JSH_018No text annotation
HL_8JSH_020GNRA
HL_8JSH_021No text annotation
HL_8JSH_022UNCG
HL_8JSH_023GNRA

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8JSH_0021/g/30:32,
1/g/552:553		Single bulged G
homologous
IL_5J7L_001
NA
IL_8JSH_0031/g/44:45,
1/g/396:398		Single bulged A
homologous
IL_5J7L_002
NA
IL_8JSH_0041/g/47:52,
1/g/359:361		No text annotation
geometric
IL_5J7L_003
NA
IL_8JSH_0061/g/63:66,
1/g/103:104		Multiple bulged bases
homologous
IL_5J7L_005
NA
IL_8JSH_0101/g/128:132,
1/g/230:233		No text annotation
IL_8JSH_0181/g/242:247,
1/g/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_8JSH_0191/g/249:252,
1/g/274:275		No text annotation
homologous
IL_5J7L_015
NA
IL_8JSH_0201/g/292:293,
1/g/304:308		C-loop
homologous
IL_4LFB_013
IL_06671.1
IL_8JSH_0211/g/367:369,
1/g/392:393		Single bulged U
homologous
IL_5J7L_017
NA
IL_8JSH_0221/g/371:375,
1/g/389:390		C-loop
homologous
IL_5J7L_018
NA
IL_8JSH_0591/g/371:376,
1/g/387:390		C-loop with extra cWW pair
geometric
IL_4V88_408
NA
IL_8JSH_0231/g/375:376,
1/g/387:389		Single bulged G
geometric
IL_5J7L_019
NA
IL_8JSH_0261/g/446:450,
1/g/483:488		No text annotation
IL_8JSH_0311/g/504:511,
1/g/540:541		SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_11411.1
IL_8JSH_0321/g/515:521,
1/g/528:536		Kink-turn related
geometric
IL_4V88_415
NA
IL_8JSH_0631/g/569:575,
1/g/880:881		No text annotation
homologous
IL_4LFB_022
IL_20847.1
IL_8JSH_0371/g/654:655,
1/g/751:754		Major groove platform; stack outside cWW
homologous
IL_4LFB_027
IL_74641.2
IL_8JSH_0461/g/887:894,
1/g/905:910		No text annotation
IL_8JSH_0481/g/1399:1401,
1/g/1501:1504		No text annotation
homologous
IL_4LFB_056
IL_18228.1

Problematic loops

#loop idProblemSequence
IL_8JSH_001Isolated non-canonical cWW pair
IL_8JSH_005No text annotation
IL_8JSH_007Minor groove platform with extra cWW
IL_8JSH_008No text annotation
IL_8JSH_057No text annotation
IL_8JSH_009No text annotation
IL_8JSH_011No text annotation
IL_8JSH_012Isolated cWH basepair
IL_8JSH_013tWH-tWH-tHW-tHW
IL_8JSH_058No text annotation
IL_8JSH_014Tandem non-canonical cWW pairs
IL_8JSH_015Isolated non-canonical cWW pair
IL_8JSH_016Tandem non-canonical cWW pairs
IL_8JSH_017Minor groove platform
IL_8JSH_024No text annotation
IL_8JSH_060No text annotation
IL_8JSH_025No text annotation
IL_8JSH_027No text annotation
IL_8JSH_061No text annotation
IL_8JSH_028No text annotation
IL_8JSH_029Isolated non-canonical cWW pair
IL_8JSH_062No text annotation
IL_8JSH_030Tandem non-canonical cWW pairs
IL_8JSH_070No text annotation
IL_8JSH_071tSH-tHW-tHS
IL_8JSH_033No text annotation
IL_8JSH_034Major groove platform with extra pair
IL_8JSH_072Major groove platform
IL_8JSH_073Major groove minor groove platform; mini C-loop
IL_8JSH_035No text annotation
IL_8JSH_036No text annotation
IL_8JSH_038Isolated non-canonical cWW pair
IL_8JSH_039Single stack bend
IL_8JSH_064Single stack bend
IL_8JSH_074Tandem non-canonical cWW pairs
IL_8JSH_040No text annotation
IL_8JSH_041No text annotation
IL_8JSH_065No text annotation
IL_8JSH_042No text annotation
IL_8JSH_043tSH-tHW-tHS
IL_8JSH_044Isolated non-canonical cWW pair
IL_8JSH_045No text annotation
IL_8JSH_047Isolated non-canonical cWW pair
IL_8JSH_049No text annotation
IL_8JSH_075No text annotation
IL_8JSH_050No text annotation
IL_8JSH_051No text annotation
IL_8JSH_076No text annotation
IL_8JSH_066No text annotation
IL_8JSH_067No text annotation
IL_8JSH_052No text annotation
IL_8JSH_053Isolated non-canonical cWW pair
IL_8JSH_054Single stack bend
IL_8JSH_068Multiple bulged bases with non-canonical cWW
IL_8JSH_055No text annotation
IL_8JSH_056No text annotation
IL_8JSH_069No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8JSH_0021/g/46:47,
1/g/361:369,
1/g/392:395		No text annotation
J3_8JSH_0031/g/46:52,
1/g/359:369,
1/g/392:395		No text annotation
J3_8JSH_0041/g/46:56,
1/g/356:369,
1/g/392:395		No text annotation
J3_8JSH_0051/g/586:588,
1/g/651:654,
1/g/754:755		No text annotation
geometric
J3_4LFB_011
J3_01633.1
J3_8JSH_0061/g/586:588,
1/g/651:655,
1/g/751:755		No text annotation
homologous
J3_5J7L_051
NA
J3_8JSH_0011/g/826:829,
1/g/857:861,
1/g/868:874		No text annotation
homologous
J3_5J7L_004
NA
J4_8JSH_0031/g/575:577,
1/g/764:769,
1/g/810:821,
1/g/879:880		No text annotation
homologous
J4_5J7L_003
NA
J5_8JSH_0011/g/36:39,
1/g/403:408,
1/g/434:440,
1/g/497:500,
1/g/545:548		No text annotation
J5_8JSH_0021/g/36:39,
1/g/403:408,
1/g/434:442,
1/g/492:500,
1/g/545:548		No text annotation
J5_8JSH_0031/g/58:61,
1/g/106:113,
1/g/314:316,
1/g/337:340,
1/g/349:354		No text annotation

Problematic loops

#loop idProblemSequence
J3_8JSH_008No text annotation
J3_8JSH_007No text annotation
J4_8JSH_001No text annotation
J4_8JSH_002No text annotation

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