RNA 3D Hub //

7AFL Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7AFL_0011/A/12:22No text annotation
homologous
HL_4LFB_001
HL_89881.5
HL_7AFL_0021/A/82:87No text annotation
HL_7AFL_0031/A/158:163GNRA
homologous
HL_5J7L_003
HL_37824.7
HL_7AFL_0041/A/186:191GNRA
homologous
HL_5J7L_004
HL_37824.7
HL_7AFL_0051/A/207:212UNCG
homologous
HL_5J7L_005
HL_34617.5
HL_7AFL_0061/A/259:267GNRA related
homologous
HL_5J7L_006
HL_84299.4
HL_7AFL_0251/A/296:301GNRA
homologous
HL_4LFB_007
HL_37824.7
HL_7AFL_0081/A/320:333No text annotation
homologous
HL_5J7L_008
HL_81205.3
HL_7AFL_0091/A/342:347UNCG
homologous
HL_6CZR_080
NA
HL_7AFL_0101/A/379:384GNRA
homologous
HL_5J7L_010
HL_37824.7
HL_7AFL_0111/A/419:424UNCG
homologous
HL_4LFB_011
HL_34617.5
HL_7AFL_0121/A/462:470GNRA related
homologous
HL_5J7L_012
HL_81538.2
HL_7AFL_0231/A/522:527GNRA variation
homologous
HL_5J7L_205
HL_37824.7
HL_7AFL_0141/A/617:623No text annotation
homologous
HL_5J7L_014
HL_10453.3
HL_7AFL_0151/A/689:698No text annotation
geometric
HL_5TBW_015
NA
HL_7AFL_0161/A/726:731GNRA
homologous
HL_5J7L_016
HL_37824.7
HL_7AFL_0171/A/786:796No text annotation
geometric
HL_7KI3_001
HL_75660.5
HL_7AFL_0181/A/840:846No text annotation
geometric
HL_2Y9H_003
HL_75660.5
HL_7AFL_0191/A/862:867GNRA
homologous
HL_4LFB_019
HL_37824.7
HL_7AFL_0201/A/897:902GNRA
homologous
HL_5J7L_020
HL_37824.7
HL_7AFL_0211/A/1449:1454UNCG
homologous
HL_5J7L_030
HL_34617.5
HL_7AFL_0221/A/1515:1520GNRA
homologous
HL_5J7L_031
HL_37824.7

Problematic loops

#loop idProblemSequence
HL_7AFL_007GNRA with extra cWW
HL_7AFL_013No text annotation
HL_7AFL_024GNRA with near cWW

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7AFL_0011/A/30:32,
1/A/552:553		Single bulged G
homologous
IL_5J7L_001
IL_00225.13
IL_7AFL_0021/A/44:45,
1/A/396:398		Single bulged A
homologous
IL_5J7L_002
IL_31462.6
IL_7AFL_0031/A/47:52,
1/A/359:361		No text annotation
geometric
IL_5J7L_003
IL_14177.2
IL_7AFL_0041/A/54:56,
1/A/356:357		Minor groove platform
homologous
IL_4LFB_004
IL_51454.3
IL_7AFL_0051/A/63:66,
1/A/103:104		Multiple bulged bases
homologous
IL_4LFB_005
IL_82107.4
IL_7AFL_0061/A/67:69,
1/A/99:102		Minor groove platform with extra cWW
homologous
IL_5J7L_006
IL_90351.1
IL_7AFL_0071/A/70:73,
1/A/97:98		Minor groove platform
homologous
IL_5J7L_007
IL_15052.4
IL_7AFL_0081/A/75:76,
1/A/93:95		Single bulged G
geometric
IL_5DEA_002
IL_00225.13
IL_7AFL_0091/A/128:131,
1/A/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
IL_57744.1
IL_7AFL_0101/A/132:136,
1/A/227:230		Minor groove platform related
homologous
IL_5J7L_010
IL_64231.5
IL_7AFL_0111/A/144:146,
1/A/176:178		Isolated cWH basepair
homologous
IL_5J7L_011
IL_10167.6
IL_7AFL_0121/A/147:153,
1/A/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
IL_80604.6
IL_7AFL_0131/A/203:206,
1/A/213:214		Minor groove platform
geometric
IL_3IWN_005
IL_15052.4
IL_7AFL_0141/A/242:247,
1/A/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
IL_46174.3
IL_7AFL_0471/A/249:252,
1/A/274:275		No text annotation
homologous
IL_4LFB_012
IL_47074.2
IL_7AFL_0161/A/292:293,
1/A/304:308		C-loop
homologous
IL_6CZR_125
NA
IL_7AFL_0171/A/367:369,
1/A/392:393		Single bulged U
geometric
IL_4V88_407
NA
IL_7AFL_0181/A/371:375,
1/A/389:390		C-loop
homologous
IL_5J7L_018
IL_03109.3
IL_7AFL_0191/A/375:376,
1/A/387:389		Single bulged G
geometric
IL_5J7L_019
IL_00225.13
IL_7AFL_0201/A/409:416,
1/A/427:433		No text annotation
homologous
IL_5J7L_020
IL_28026.3
IL_7AFL_0211/A/440:442,
1/A/492:497		No text annotation
homologous
IL_5J7L_021
IL_33323.1
IL_7AFL_0221/A/446:450,
1/A/483:488		tSH-tHW-tWW
geometric
IL_5J7L_022
IL_88269.4
IL_7AFL_0231/A/450:455,
1/A/477:483		No text annotation
homologous
IL_5J7L_023
IL_70801.1
IL_7AFL_0241/A/504:511,
1/A/540:541		SSU/LSU pseudoknot
homologous
IL_5J7L_024
IL_41203.4
IL_7AFL_0251/A/515:521,
1/A/528:536		Kink-turn related
homologous
IL_5J7L_025
IL_54177.4
IL_7AFL_0451/A/569:575,
1/A/880:881		No text annotation
homologous
IL_4LFB_022
IL_38186.6
IL_7AFL_0261/A/579:584,
1/A/757:762		tSH-tHW-tHS-cWW
geometric
IL_3LQX_002
IL_76308.6
IL_7AFL_0271/A/594:596,
1/A/644:645		Major groove platform
homologous
IL_5J7L_028
IL_48076.6
IL_7AFL_0281/A/597:598,
1/A/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_68140.4
IL_7AFL_0291/A/605:612,
1/A/628:633		No text annotation
homologous
IL_5J7L_030
IL_78349.3
IL_7AFL_0301/A/654:655,
1/A/751:754		Major groove platform; stack outside cWW
homologous
IL_4LFB_027
IL_50694.7
IL_7AFL_0481/A/659:660,
1/A/745:747		Single stack bend
homologous
IL_5J7L_032
IL_26793.1
IL_7AFL_0321/A/662:666,
1/A/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
IL_85033.2
IL_7AFL_0331/A/673:678,
1/A/712:717		No text annotation
homologous
IL_4LFB_030
NA
IL_7AFL_0491/A/684:688,
1/A/699:706		Kink-turn
homologous
IL_5J7L_035
IL_01488.3
IL_7AFL_0351/A/774:778,
1/A/804:805		Left turn
homologous
IL_4LFB_032
IL_29346.2
IL_7AFL_0361/A/779:783,
1/A/799:803		tSH-tHW-tHS
homologous
IL_5J7L_037
IL_17136.7
IL_7AFL_0371/A/887:894,
1/A/905:910		No text annotation
homologous
IL_6CZR_364
NA
IL_7AFL_0381/A/922:923,
1/A/1393:1395		Single bulged A
homologous
IL_5J7L_039
IL_31462.6
IL_7AFL_0391/A/925:927,
1/A/1390:1391		No text annotation
IL_7AFL_0401/A/1412:1414,
1/A/1486:1488		Isolated tHS basepair with bulges
geometric
IL_1L9A_004
IL_85599.2
IL_7AFL_0411/A/1416:1419,
1/A/1481:1484		Double sheared
homologous
IL_4LFB_060
IL_09705.15
IL_7AFL_0421/A/1430:1435,
1/A/1466:1470		Triple sheared related
homologous
IL_5J7L_063
IL_80231.1
IL_7AFL_0431/A/1440:1442,
1/A/1460:1461		No text annotation
IL_7AFL_0441/A/1445:1448,
1/A/1455:1457		No text annotation
homologous
IL_5J7L_065
IL_31531.3

Problematic loops

#loop idProblemSequence
IL_7AFL_015No text annotation
IL_7AFL_031No text annotation
IL_7AFL_034No text annotation
IL_7AFL_046Isolated tHS basepair with bulges

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_7AFL_0011/A/46:47,
1/A/361:367,
1/A/393:395		No text annotation
homologous
J3_5J7L_001
J3_67856.4
J3_7AFL_0051/A/46:52,
1/A/359:367,
1/A/393:395		No text annotation
homologous
J3_5J7L_050
J3_46317.4
J3_7AFL_0021/A/586:588,
1/A/651:654,
1/A/754:755		No text annotation
homologous
J3_5J7L_002
J3_56052.5
J3_7AFL_0061/A/586:588,
1/A/651:655,
1/A/751:755		No text annotation
homologous
J3_5J7L_051
J3_17385.4
J3_7AFL_0031/A/671:673,
1/A/717:725,
1/A/732:735		No text annotation
J3_7AFL_0071/A/672:677,
1/A/713:725,
1/A/732:734		No text annotation
J3_7AFL_0041/A/826:829,
1/A/857:861,
1/A/868:874		No text annotation
homologous
J3_5J7L_004
J3_85054.4
J4_7AFL_0011/A/115:122,
1/A/239:240,
1/A/286:289,
1/A/311:312		No text annotation
homologous
J4_5J7L_001
J4_35578.3
J4_7AFL_0041/A/142:144,
1/A/178:184,
1/A/193:198,
1/A/219:221		No text annotation
homologous
J4_5J7L_002
J4_01665.1
J4_7AFL_0031/A/575:577,
1/A/764:769,
1/A/810:821,
1/A/879:880		No text annotation
homologous
J4_5J7L_003
J4_61885.6
J5_7AFL_0011/A/36:39,
1/A/403:406,
1/A/436:440,
1/A/497:500,
1/A/545:548		No text annotation
homologous
J5_5J7L_001
J5_92941.1
J5_7AFL_0021/A/36:39,
1/A/403:406,
1/A/436:442,
1/A/492:500,
1/A/545:548		No text annotation
homologous
J5_5J7L_002
J5_67416.1
J5_7AFL_0041/A/58:61,
1/A/106:113,
1/A/314:316,
1/A/337:339,
1/A/350:354		No text annotation
homologous
J5_5J7L_003
J5_59910.6

Problematic loops

#loop idProblemSequence
J4_7AFL_002No text annotation
J5_7AFL_003No text annotation

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