RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7NAV_0011/A/12:22No text annotation
homologous
HL_4LFB_001
HL_73535.1
HL_7NAV_0061/A/259:267GNRA related
homologous
HL_5J7L_006
NA
HL_7NAV_0351/A/296:301GNRA
homologous
HL_4LFB_007
HL_34789.2
HL_7NAV_0081/A/320:333No text annotation
homologous
HL_5J7L_008
NA
HL_7NAV_0141/A/617:623GNRA-like with tWH
homologous
HL_5J7L_014
NA
HL_7NAV_0161/A/726:731GNRA
homologous
HL_5J7L_016
NA
HL_7NAV_0191/A/862:867GNRA
homologous
HL_4LFB_019
HL_34789.2
HL_7NAV_0201/A/897:902GNRA
homologous
HL_5J7L_020
NA
HL_7NAV_0251/A/1089:1096T-loop related
homologous
HL_5J7L_024
NA

Problematic loops

#loop idProblemSequence
HL_7NAV_002No text annotation
HL_7NAV_003GNRA
HL_7NAV_004GNRA
HL_7NAV_005UNCG
HL_7NAV_007GNRA with extra cWW
HL_7NAV_009UNCG
HL_7NAV_010GNRA
HL_7NAV_011UNCG
HL_7NAV_012GNRA wlth extra near cWW
HL_7NAV_013No text annotation
HL_7NAV_033GNRA variation
HL_7NAV_015No text annotation
HL_7NAV_034GNRA with extra near cWW
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_026No text annotation
HL_7NAV_027GNRA
HL_7NAV_028GNRA
HL_7NAV_029T-loop with 3 stacked bulged bases
HL_7NAV_030No text annotation
HL_7NAV_031UNCG
HL_7NAV_032GNRA

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7NAV_0011/A/30:32,
1/A/552:553		Single bulged G
homologous
IL_5J7L_001
NA
IL_7NAV_0021/A/44:45,
1/A/396:398		Single bulged A
homologous
IL_5J7L_002
NA
IL_7NAV_0031/A/47:52,
1/A/359:361		No text annotation
homologous
IL_5J7L_003
NA
IL_7NAV_0051/A/63:66,
1/A/103:104		Multiple bulged bases
homologous
IL_4LFB_005
IL_71421.2
IL_7NAV_0091/A/128:131,
1/A/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
NA
IL_7NAV_0101/A/132:136,
1/A/227:230		Minor groove platform related
homologous
IL_5J7L_010
NA
IL_7NAV_0121/A/147:153,
1/A/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
NA
IL_7NAV_0141/A/242:247,
1/A/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_7NAV_0161/A/292:293,
1/A/304:308		C-loop
homologous
IL_6CZR_125
NA
IL_7NAV_0171/A/367:369,
1/A/392:393		Single bulged U
homologous
IL_4LFB_014
IL_97561.2
IL_7NAV_0181/A/371:375,
1/A/389:390		C-loop
homologous
IL_5J7L_018
NA
IL_7NAV_0191/A/375:376,
1/A/387:389		Single bulged G
geometric
IL_5J7L_019
NA
IL_7NAV_0221/A/446:450,
1/A/483:488		tSH-tHW-tWW
geometric
IL_5J7L_022
NA
IL_7NAV_0241/A/504:511,
1/A/540:541		SSU/LSU pseudoknot
homologous
IL_5J7L_024
NA
IL_7NAV_0261/A/569:575,
1/A/880:881		No text annotation
homologous
IL_4LFB_022
IL_20847.1
IL_7NAV_0271/A/579:584,
1/A/757:762		tSH-tHW-tHS-cWW
geometric
IL_3LQX_002
IL_35186.2
IL_7NAV_0281/A/594:596,
1/A/644:645		Major groove platform
homologous
IL_5J7L_028
NA
IL_7NAV_0291/A/597:598,
1/A/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_73108.2
IL_7NAV_0301/A/605:612,
1/A/628:633		No text annotation
homologous
IL_5J7L_030
NA
IL_7NAV_0311/A/654:655,
1/A/751:754		Major groove platform; stack outside cWW
homologous
IL_4LFB_027
IL_74641.2
IL_7NAV_0661/A/659:660,
1/A/745:747		Single stack bend
homologous
IL_5J7L_032
NA
IL_7NAV_0331/A/662:666,
1/A/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
NA
IL_7NAV_0341/A/673:678,
1/A/712:717		No text annotation
homologous
IL_4LFB_030
NA
IL_7NAV_0361/A/774:778,
1/A/804:805		Left turn
homologous
IL_4LFB_032
IL_29346.3
IL_7NAV_0371/A/779:783,
1/A/799:803		tSH-tHW-tHS
homologous
IL_5J7L_037
NA
IL_7NAV_0381/A/887:894,
1/A/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_6CZR_364
NA

Problematic loops

#loop idProblemSequence
IL_7NAV_004Minor groove platform
IL_7NAV_006Minor groove platform with extra cWW
IL_7NAV_007Minor groove platform
IL_7NAV_008Single bulged G
IL_7NAV_011Isolated cWH basepair
IL_7NAV_013Minor groove platform
IL_7NAV_015No text annotation
IL_7NAV_065No text annotation
IL_7NAV_020No text annotation
IL_7NAV_021No text annotation
IL_7NAV_023No text annotation
IL_7NAV_025Kink-turn related
IL_7NAV_032No text annotation
IL_7NAV_035No text annotation
IL_7NAV_067Kink-turn
IL_7NAV_039Single bulged A
IL_7NAV_040No text annotation
IL_7NAV_061Minor groove platform
IL_7NAV_041No text annotation
IL_7NAV_042No text annotation
IL_7NAV_043Minor groove platform
IL_7NAV_044Single stack bend
IL_7NAV_062Isolated cWH basepair
IL_7NAV_045Self complementary
IL_7NAV_046Isolated cWS basepair
IL_7NAV_047Minor groove platform
IL_7NAV_048Single bulged A
IL_7NAV_049Isolated non-canonical cWW pair
IL_7NAV_050No text annotation
IL_7NAV_051Minor groove platform
IL_7NAV_052No text annotation
IL_7NAV_053180 degree turn
IL_7NAV_054Double sheared with non-canonical cWW
IL_7NAV_055No text annotation
IL_7NAV_063No text annotation
IL_7NAV_064Isolated tHS basepair with bulges
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
homologous
J3_5J7L_001
NA
J3_7NAV_0141/A/46:52,
1/A/359:367,
1/A/393:395		No text annotation
homologous
J3_5J7L_050
NA
J3_7NAV_0021/A/586:588,
1/A/651:654,
1/A/754:755		No text annotation
homologous
J3_5J7L_002
NA
J3_7NAV_0151/A/586:588,
1/A/651:655,
1/A/751:755		No text annotation
homologous
J3_5J7L_051
NA
J3_7NAV_0031/A/671:673,
1/A/717:725,
1/A/732:735		No text annotation
J3_7NAV_0161/A/672:677,
1/A/713:725,
1/A/732:734		No text annotation
J3_7NAV_0041/A/826:829,
1/A/857:861,
1/A/868:874		No text annotation
homologous
J3_5J7L_004
NA
J3_7NAV_0101/A/1063:1068,
1/A/1107:1113,
1/A/1187:1193		No text annotation
homologous
J3_5J7L_008
NA
J4_7NAV_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_7NAV_0041/A/142:144,
1/A/178:184,
1/A/193:198,
1/A/219:221		No text annotation
homologous
J4_5J7L_002
NA
J4_7NAV_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_7NAV_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_7NAV_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_7NAV_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
NA

Problematic loops

#loop idProblemSequence
J3_7NAV_020No text annotation
J3_7NAV_005No text annotation
J3_7NAV_006No text annotation
J3_7NAV_017No text annotation
J3_7NAV_007No text annotation
J3_7NAV_008No text annotation
J3_7NAV_018No text annotation
J3_7NAV_019No text annotation
J3_7NAV_009No text annotation
J3_7NAV_011No text annotation
J3_7NAV_012No text annotation
J3_7NAV_013No text annotation
J4_7NAV_002No text annotation
J5_7NAV_003No text annotation

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