RNA 3D Hub //

8K3O Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8K3O_0011/A/12:22No text annotation
homologous
HL_4LFB_001
HL_73535.1
HL_8K3O_0031/A/157:164GNRA with extra near cWW
homologous
HL_6CZR_215
NA
HL_8K3O_0041/A/186:191GNRA
homologous
HL_5J7L_004
NA
HL_8K3O_0061/A/259:267GNRA related
homologous
HL_5J7L_006
NA
HL_8K3O_0071/A/296:301GNRA
homologous
HL_5J7L_007
NA
HL_8K3O_0081/A/320:333No text annotation
homologous
HL_4LFB_008
HL_39665.1
HL_8K3O_0091/A/342:347UNCG
homologous
HL_5J7L_009
NA
HL_8K3O_0101/A/379:384GNRA
homologous
HL_4LFB_010
HL_34789.4
HL_8K3O_0111/A/419:424UNCG
homologous
HL_4LFB_011
HL_61337.3
HL_8K3O_0131/A/522:527No text annotation
geometric
HL_4WF9_003
HL_75660.7
HL_8K3O_0141/A/617:623GNRA-like with tWH
homologous
HL_4LFB_014
HL_86621.1
HL_8K3O_0161/A/726:731GNRA
homologous
HL_4LFB_016
HL_34789.4
HL_8K3O_0191/A/862:867GNRA
homologous
HL_4LFB_019
HL_34789.4
HL_8K3O_0201/A/897:902GNRA
homologous
HL_4LFB_020
HL_34789.4
HL_8K3O_0331/A/963:972No text annotation
homologous
HL_4LFB_021
HL_97521.1
HL_8K3O_0241/A/1076:1081GNRA
homologous
HL_5J7L_023
NA
HL_8K3O_0251/A/1089:1096T-loop related
homologous
HL_4LFB_025
HL_63894.2
HL_8K3O_0311/A/1515:1520GNRA
homologous
HL_6CZR_103
NA

Problematic loops

#loop idProblemSequence
HL_8K3O_032No text annotation
HL_8K3O_002No text annotation
HL_8K3O_005No text annotation
HL_8K3O_012GNRA wlth extra near cWW
HL_8K3O_015No text annotation
HL_8K3O_017tRNA D-loop
HL_8K3O_018No text annotation
HL_8K3O_021tRNA D-loop
HL_8K3O_022No text annotation
HL_8K3O_023UNCG
HL_8K3O_026No text annotation
HL_8K3O_027GNRA
HL_8K3O_028GNRA
HL_8K3O_029T-loop with 3 stacked bulged bases
HL_8K3O_030No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8K3O_0011/A/30:32,
1/A/552:553		Single bulged G
homologous
IL_4LFB_001
IL_28408.2
IL_8K3O_0021/A/44:45,
1/A/396:398		Single bulged A
homologous
IL_5J7L_002
NA
IL_8K3O_0031/A/63:66,
1/A/103:104		Multiple bulged bases
homologous
IL_5J7L_005
NA
IL_8K3O_0041/A/67:69,
1/A/99:102		Minor groove platform with extra cWW
homologous
IL_5J7L_006
NA
IL_8K3O_0051/A/69:73,
1/A/97:99		No text annotation
geometric
IL_2OEU_001
IL_46387.3
IL_8K3O_0081/A/128:131,
1/A/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
NA
IL_8K3O_0091/A/132:136,
1/A/227:230		No text annotation
homologous
IL_4LFB_008
IL_60988.2
IL_8K3O_0111/A/147:153,
1/A/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
NA
IL_8K3O_0131/A/242:247,
1/A/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_8K3O_0141/A/249:252,
1/A/274:275		No text annotation
homologous
IL_4LFB_012
IL_22002.1
IL_8K3O_0151/A/292:293,
1/A/304:308		C-loop
homologous
IL_4LFB_013
IL_06671.1
IL_8K3O_0161/A/371:375,
1/A/389:390		C-loop
geometric
IL_5J7L_018
NA
IL_8K3O_0171/A/375:378,
1/A/385:389		No text annotation
IL_8K3O_0181/A/409:416,
1/A/427:433		No text annotation
homologous
IL_5J7L_020
NA
IL_8K3O_0191/A/440:442,
1/A/492:497		No text annotation
homologous
IL_5J7L_021
NA
IL_8K3O_0201/A/446:450,
1/A/483:488		tSH-tHW-tWW
homologous
IL_5J7L_022
NA
IL_8K3O_0211/A/450:455,
1/A/477:483		No text annotation
geometric
IL_5J7L_023
NA
IL_8K3O_0231/A/504:511,
1/A/540:541		SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_11411.1
IL_8K3O_0241/A/515:521,
1/A/528:536		Kink-turn related
homologous
IL_4LFB_021
IL_52042.1
IL_8K3O_0251/A/569:575,
1/A/880:881		No text annotation
homologous
IL_4LFB_022
IL_20847.1
IL_8K3O_0261/A/580:584,
1/A/757:761		tSH-tHW-tHS
homologous
IL_5J7L_027
NA
IL_8K3O_0271/A/594:596,
1/A/644:645		Major groove platform
homologous
IL_5J7L_028
NA
IL_8K3O_0281/A/597:598,
1/A/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_029
NA
IL_8K3O_0291/A/605:612,
1/A/628:633		No text annotation
homologous
IL_5J7L_030
NA
IL_8K3O_0301/A/654:655,
1/A/751:754		Major groove platform; stack outside cWW
homologous
IL_4LFB_027
IL_74641.2
IL_8K3O_0311/A/659:660,
1/A/745:747		Single stack bend
homologous
IL_5J7L_032
NA
IL_8K3O_0321/A/662:667,
1/A/739:743		No text annotation
IL_8K3O_0361/A/887:894,
1/A/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
NA
IL_8K3O_0461/A/1057:1058,
1/A/1199:1203		Minor groove platform
homologous
IL_4LFB_045
IL_24264.1
IL_8K3O_0481/A/1061:1063,
1/A/1193:1195		Isolated non-canonical cWW pair
geometric
IL_4LFB_047
IL_68118.3

Problematic loops

#loop idProblemSequence
IL_8K3O_006Multiple bulged bases
IL_8K3O_007No text annotation
IL_8K3O_010Isolated cWH basepair
IL_8K3O_056No text annotation
IL_8K3O_012Minor groove platform
IL_8K3O_022Isolated non-canonical cWW pair
IL_8K3O_033Kink-turn
IL_8K3O_034Left turn
IL_8K3O_035tSH-tHW-tHS
IL_8K3O_037Minor groove platform
IL_8K3O_038Tandem non-canonical cWW pairs
IL_8K3O_057Isolated non-canonical cWW pair
IL_8K3O_039No text annotation
IL_8K3O_040Isolated cWH basepair
IL_8K3O_041Minor groove platform
IL_8K3O_042Single stack bend
IL_8K3O_043Isolated cWH basepair
IL_8K3O_044Single bulged U
IL_8K3O_045Tandem non-canonical cWW pairs
IL_8K3O_058Isolated cWS basepair
IL_8K3O_047Single bulged A
IL_8K3O_049No text annotation
IL_8K3O_050No text annotation
IL_8K3O_059No text annotation
IL_8K3O_051No text annotation
IL_8K3O_052No text annotation
IL_8K3O_053Double sheared with non-canonical cWW
IL_8K3O_054No text annotation
IL_8K3O_055Isolated cWH basepair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8K3O_0011/A/45:47,
1/A/361:369,
1/A/392:396		No text annotation
J3_8K3O_0121/A/586:588,
1/A/651:654,
1/A/754:755		No text annotation
geometric
J3_4LFB_011
J3_01633.1
J3_8K3O_0131/A/586:588,
1/A/651:655,
1/A/751:755		No text annotation
homologous
J3_4LFB_015
J3_17385.5
J3_8K3O_0141/A/672:678,
1/A/712:725,
1/A/732:734		No text annotation
J3_8K3O_0021/A/826:829,
1/A/857:861,
1/A/868:874		No text annotation
homologous
J3_5J7L_004
NA
J3_8K3O_0091/A/1063:1068,
1/A/1107:1113,
1/A/1187:1193		No text annotation
homologous
J3_4LFB_007
J3_01343.1
J3_8K3O_0161/A/1073:1074,
1/A/1083:1087,
1/A/1098:1102		No text annotation
homologous
J3_5J7L_009
NA
J4_8K3O_0011/A/115:122,
1/A/239:240,
1/A/286:289,
1/A/311:312		No text annotation
homologous
J4_5J7L_001
NA
J4_8K3O_0021/A/142:144,
1/A/178:184,
1/A/193:198,
1/A/219:221		No text annotation
homologous
J4_5J7L_002
NA
J4_8K3O_0031/A/575:577,
1/A/764:769,
1/A/810:821,
1/A/879:880		No text annotation
homologous
J4_5J7L_003
NA
J5_8K3O_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
NA
J5_8K3O_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
NA
J5_8K3O_0031/A/47:61,
1/A/106:113,
1/A/314:316,
1/A/337:339,
1/A/350:361		No text annotation

Problematic loops

#loop idProblemSequence
J3_8K3O_003No text annotation
J3_8K3O_004No text annotation
J3_8K3O_005No text annotation
J3_8K3O_006No text annotation
J3_8K3O_007No text annotation
J3_8K3O_015No text annotation
J3_8K3O_008No text annotation
J3_8K3O_010No text annotation
J3_8K3O_017No text annotation
J3_8K3O_011No text annotation

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