RNA 3D Hub //

7NAV Internal, Hairpin and 3-way Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7NAV_0011/A/12:22No text annotation
Not in a motif group		homologous
HL_4LFB_001
HL_89881.2
HL_7NAV_0031/A/158:163GNRA
Not in a motif group		homologous
HL_5J7L_003
HL_42097.1
HL_7NAV_0041/A/186:191GNRA
Not in a motif group		homologous
HL_5J7L_004
HL_42097.1
HL_7NAV_0061/A/259:267No text annotation
Not in a motif group		homologous
HL_5J7L_006
HL_69023.2
HL_7NAV_0071/A/295:302No text annotation
Not in a motif group		geometric
HL_7A0S_056
HL_84085.2
HL_7NAV_0081/A/320:333No text annotation
Not in a motif group		homologous
HL_5J7L_008
HL_81205.2
HL_7NAV_0091/A/342:347No text annotation
Not in a motif group		homologous
HL_6CZR_080
HL_03562.2
HL_7NAV_0101/A/379:384GNRA
Not in a motif group		homologous
HL_5J7L_010
HL_42097.1
HL_7NAV_0111/A/419:424UNCG
Not in a motif group		homologous
HL_4LFB_011
HL_03562.2
HL_7NAV_0131/A/521:528No text annotation
Not in a motif group		geometric
HL_1WZ2_007
HL_10278.1
HL_7NAV_0141/A/617:623No text annotation
Not in a motif group		homologous
HL_5J7L_014
HL_26881.1
HL_7NAV_0161/A/726:731Other HL
Not in a motif group		homologous
HL_5J7L_016
HL_87030.2
HL_7NAV_0191/A/862:867GNRA
Not in a motif group		homologous
HL_4LFB_019
HL_42097.1
HL_7NAV_0201/A/897:902GNRA
Not in a motif group		homologous
HL_5J7L_020
HL_42097.1

Problematic loops

#loop idProblemSequence
HL_7NAV_002No text annotation
HL_7NAV_005UNCG
HL_7NAV_012No text annotation
HL_7NAV_015No text annotation
HL_7NAV_017No text annotation
HL_7NAV_018No text annotation
HL_7NAV_021No text annotation
HL_7NAV_022GNRA
HL_7NAV_023UNCG
HL_7NAV_024GNRA
HL_7NAV_025No text annotation
HL_7NAV_026No text annotation
HL_7NAV_027No text annotation
HL_7NAV_028GNRA
HL_7NAV_029No text annotation
HL_7NAV_030No text annotation
HL_7NAV_031UNCG
HL_7NAV_032No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7NAV_0011/A/30:32,
1/A/552:553		Single bulged G
Not in a motif group		homologous
IL_5J7L_001
IL_00225.2
IL_7NAV_0021/A/44:45,
1/A/396:398		Single bulged A
Not in a motif group		homologous
IL_5J7L_002
IL_37497.2
IL_7NAV_0031/A/47:52,
1/A/359:361		No text annotation
Not in a motif group		homologous
IL_5J7L_003
IL_11178.1
IL_7NAV_0041/A/54:56,
1/A/356:357		Minor groove platform
Not in a motif group		homologous
IL_4LFB_004
IL_93353.1
IL_7NAV_0051/A/63:66,
1/A/103:104		Multiple bulged bases
Not in a motif group		homologous
IL_4LFB_005
IL_76389.1
IL_7NAV_0061/A/67:69,
1/A/99:102		Minor groove platform with extra cWW
Not in a motif group		homologous
IL_5J7L_006
IL_65006.1
IL_7NAV_0081/A/75:76,
1/A/93:95		Single bulged G
Not in a motif group		geometric
IL_5DEA_002
IL_00225.2
IL_7NAV_0091/A/128:131,
1/A/231:233		Isolated non-canonical cWW with bulges
Not in a motif group		homologous
IL_5J7L_009
IL_82068.2
IL_7NAV_0101/A/132:136,
1/A/227:230		Minor groove platform related
Not in a motif group		homologous
IL_5J7L_010
IL_58764.3
IL_7NAV_0111/A/144:146,
1/A/176:178		Isolated cWH basepair
Not in a motif group		homologous
IL_5J7L_011
IL_51629.2
IL_7NAV_0121/A/147:153,
1/A/168:175		tWH-tWH-tHW-tHW
Not in a motif group		homologous
IL_5J7L_012
IL_80604.2
IL_7NAV_0141/A/242:247,
1/A/277:284		Kink-turn with non-sequential stacking
Not in a motif group		homologous
IL_5J7L_014
IL_45067.2
IL_7NAV_0151/A/248:252,
1/A/274:276		No text annotation
Not in a motif group
IL_7NAV_0161/A/292:293,
1/A/304:308		C-loop
Not in a motif group		homologous
IL_6CZR_125
IL_37712.2
IL_7NAV_0171/A/367:369,
1/A/392:393		Single bulged U
Not in a motif group		homologous
IL_4LFB_014
IL_83039.13
IL_7NAV_0181/A/371:375,
1/A/389:390		C-loop
Not in a motif group		homologous
IL_5J7L_018
IL_75255.1
IL_7NAV_0191/A/375:376,
1/A/387:389		Single bulged G
Not in a motif group		geometric
IL_5J7L_019
IL_00225.2
IL_7NAV_0201/A/409:416,
1/A/427:433		No text annotation
Not in a motif group		homologous
IL_5J7L_020
IL_28026.1
IL_7NAV_0221/A/446:450,
1/A/483:488		tSH-tHW-tWW
Not in a motif group		geometric
IL_5J7L_022
IL_88269.3
IL_7NAV_0231/A/450:455,
1/A/477:483		No text annotation
Not in a motif group		homologous
IL_5J7L_023
IL_70801.1
IL_7NAV_0241/A/504:511,
1/A/540:541		SSU/LSU pseudoknot
Not in a motif group		homologous
IL_5J7L_024
IL_15861.7
IL_7NAV_0251/A/515:521,
1/A/528:536		No text annotation
Not in a motif group		homologous
IL_5J7L_025
NA
IL_7NAV_0261/A/569:575,
1/A/880:881		No text annotation
Not in a motif group		homologous
IL_4LFB_022
IL_69996.1
IL_7NAV_0271/A/579:584,
1/A/757:762		tSH-tHW-tHS-cWW
Not in a motif group		geometric
IL_3LQX_002
IL_76308.4
IL_7NAV_0281/A/594:596,
1/A/644:645		Major groove platform
Not in a motif group		homologous
IL_5J7L_028
IL_27635.1
IL_7NAV_0291/A/597:598,
1/A/640:643		Major groove minor groove platform; mini C-loop
Not in a motif group		homologous
IL_4LFB_025
IL_09061.6
IL_7NAV_0301/A/605:612,
1/A/628:633		No text annotation
Not in a motif group		homologous
IL_5J7L_030
IL_78349.1
IL_7NAV_0311/A/654:655,
1/A/751:754		Major groove platform; stack outside cWW
Not in a motif group		homologous
IL_4LFB_027
IL_50694.2
IL_7NAV_0321/A/658:660,
1/A/745:748		No text annotation
Not in a motif group		geometric
IL_4N0T_004
IL_46796.1
IL_7NAV_0331/A/662:666,
1/A/740:743		Tandem non-canonical cWW pairs
Not in a motif group		homologous
IL_5J7L_033
IL_71110.1
IL_7NAV_0341/A/673:678,
1/A/712:717		No text annotation
Not in a motif group		homologous
IL_4LFB_030
IL_04668.1
IL_7NAV_0361/A/774:778,
1/A/804:805		Left turn
Not in a motif group		homologous
IL_4LFB_032
IL_29346.1
IL_7NAV_0381/A/887:894,
1/A/905:910		No text annotation
Not in a motif group
IL_7NAV_0391/A/922:923,
1/A/1393:1395		Single bulged A
Not in a motif group		homologous
IL_5J7L_039
IL_37497.2
IL_7NAV_0401/A/925:927,
1/A/1390:1391		No text annotation
Not in a motif group

Problematic loops

#loop idProblemSequence
IL_7NAV_007Minor groove platform
IL_7NAV_013Minor groove platform
IL_7NAV_021No text annotation
IL_7NAV_035No text annotation
IL_7NAV_037tSH-tHW-tHS
IL_7NAV_041No text annotation
IL_7NAV_042No text annotation
IL_7NAV_043Minor groove platform
IL_7NAV_044Single stack bend
IL_7NAV_045Self complementary
IL_7NAV_046Isolated cWS basepair
IL_7NAV_047Minor groove platform
IL_7NAV_048Single bulged A
IL_7NAV_049No text annotation
IL_7NAV_050No text annotation
IL_7NAV_051Minor groove platform
IL_7NAV_052No text annotation
IL_7NAV_053No text annotation
IL_7NAV_054Triple sheared
IL_7NAV_055No text annotation
IL_7NAV_056Isolated tHS basepair with bulges
IL_7NAV_057Double sheared
IL_7NAV_058Triple sheared related
IL_7NAV_059No text annotation
IL_7NAV_060No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_7NAV_0011/A/46:47,
1/A/361:367,
1/A/393:395		No text annotation
Not in a motif group
J3_7NAV_0021/A/586:588,
1/A/651:654,
1/A/754:755		No text annotation
Not in a motif group
J3_7NAV_0031/A/671:673,
1/A/717:725,
1/A/732:735		No text annotation
Not in a motif group
J3_7NAV_0041/A/826:829,
1/A/857:861,
1/A/868:874		No text annotation
Not in a motif group		homologous
J3_5J7L_004
NA

Problematic loops

#loop idProblemSequence
J3_7NAV_005No text annotation
J3_7NAV_006No text annotation
J3_7NAV_007No text annotation
J3_7NAV_008No text annotation
J3_7NAV_009No text annotation
J3_7NAV_010No text annotation
J3_7NAV_011No text annotation
J3_7NAV_012No text annotation
J3_7NAV_013No text annotation

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