RNA 3D Hub //

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

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Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7NAT_0011/A/12:22No text annotation
homologous
HL_5J7L_001
NA
HL_7NAT_0041/A/186:191GNRA
homologous
HL_5J7L_004
NA
HL_7NAT_0061/A/259:267GNRA related
homologous
HL_5J7L_006
NA
HL_7NAT_0071/A/296:301GNRA
homologous
HL_5J7L_007
NA
HL_7NAT_0081/A/320:333No text annotation
homologous
HL_4LFB_008
HL_39665.1
HL_7NAT_0101/A/379:384GNRA
homologous
HL_5J7L_010
NA
HL_7NAT_0111/A/419:424UNCG
homologous
HL_4LFB_011
HL_61337.2
HL_7NAT_0121/A/462:470GNRA wlth extra near cWW
homologous
HL_5J7L_012
NA
HL_7NAT_0321/A/522:527GNRA variation
homologous
HL_5J7L_205
NA
HL_7NAT_0141/A/617:623GNRA-like with tWH
homologous
HL_5J7L_014
NA
HL_7NAT_0151/A/689:698No text annotation
homologous
HL_5J7L_015
NA
HL_7NAT_0161/A/726:731GNRA
homologous
HL_5J7L_016
NA
HL_7NAT_0171/A/786:796No text annotation
homologous
HL_4LFB_017
HL_38491.2
HL_7NAT_0181/A/840:846No text annotation
HL_7NAT_0191/A/862:867GNRA
homologous
HL_5J7L_019
NA
HL_7NAT_0201/A/897:902GNRA
homologous
HL_5J7L_020
NA
HL_7NAT_0241/A/1076:1081GNRA
homologous
HL_5J7L_023
NA
HL_7NAT_0251/A/1089:1096T-loop related
homologous
HL_5J7L_024
NA
HL_7NAT_0311/A/1515:1520GNRA
homologous
HL_6CZR_103
NA

Problematic loops

#loop idProblemSequence
HL_7NAT_002No text annotation
HL_7NAT_003GNRA
HL_7NAT_005UNCG
HL_7NAT_009UNCG
HL_7NAT_013No text annotation
HL_7NAT_021No text annotation
HL_7NAT_022GNRA
HL_7NAT_023UNCG variation
HL_7NAT_026No text annotation
HL_7NAT_027GNRA
HL_7NAT_028GNRA
HL_7NAT_029T-loop with 3 stacked bulged bases
HL_7NAT_030No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7NAT_0011/A/30:32,
1/A/552:553		Single bulged G
homologous
IL_4LFB_001
IL_28408.2
IL_7NAT_0021/A/44:45,
1/A/396:398		Single bulged A
homologous
IL_5J7L_002
NA
IL_7NAT_0031/A/47:52,
1/A/359:361		No text annotation
geometric
IL_5J7L_003
NA
IL_7NAT_0041/A/54:56,
1/A/356:357		Minor groove platform
homologous
IL_5J7L_004
NA
IL_7NAT_0051/A/63:66,
1/A/103:104		Multiple bulged bases
homologous
IL_4LFB_005
IL_71421.2
IL_7NAT_0061/A/67:69,
1/A/99:102		Minor groove platform with extra cWW
homologous
IL_5J7L_006
NA
IL_7NAT_0071/A/70:73,
1/A/97:98		Minor groove platform
homologous
IL_5J7L_007
NA
IL_7NAT_0091/A/128:131,
1/A/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
NA
IL_7NAT_0101/A/132:136,
1/A/227:230		Minor groove platform related
homologous
IL_5J7L_010
NA
IL_7NAT_0111/A/144:146,
1/A/176:178		Isolated cWH basepair
homologous
IL_5J7L_011
NA
IL_7NAT_0121/A/147:153,
1/A/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
NA
IL_7NAT_0131/A/203:206,
1/A/213:214		Minor groove platform
geometric
IL_3MXH_005
IL_87975.1
IL_7NAT_0141/A/242:247,
1/A/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_7NAT_0151/A/249:252,
1/A/274:275		No text annotation
homologous
IL_4LFB_012
IL_22002.1
IL_7NAT_0161/A/292:293,
1/A/304:308		C-loop
homologous
IL_4LFB_013
IL_06671.1
IL_7NAT_0171/A/367:369,
1/A/392:393		Single bulged U
geometric
IL_5J7L_017
NA
IL_7NAT_0181/A/371:375,
1/A/389:390		C-loop
homologous
IL_5J7L_018
NA
IL_7NAT_0191/A/375:376,
1/A/387:389		Single bulged G
geometric
IL_5J7L_019
NA
IL_7NAT_0201/A/409:416,
1/A/427:433		No text annotation
homologous
IL_5J7L_020
NA
IL_7NAT_0211/A/440:442,
1/A/492:497		No text annotation
homologous
IL_5J7L_021
NA
IL_7NAT_0221/A/446:450,
1/A/483:488		tSH-tHW-tWW
geometric
IL_5J7L_022
NA
IL_7NAT_0231/A/450:455,
1/A/477:483		No text annotation
homologous
IL_5J7L_023
NA
IL_7NAT_0241/A/504:511,
1/A/540:541		SSU/LSU pseudoknot
homologous
IL_5J7L_024
NA
IL_7NAT_0251/A/515:521,
1/A/528:536		Kink-turn related
homologous
IL_5J7L_025
NA
IL_7NAT_0261/A/569:575,
1/A/880:881		No text annotation
homologous
IL_4LFB_022
IL_20847.1
IL_7NAT_0271/A/580:584,
1/A/757:761		tSH-tHW-tHS
homologous
IL_5J7L_027
NA
IL_7NAT_0281/A/594:596,
1/A/644:645		Major groove platform
homologous
IL_5J7L_028
NA
IL_7NAT_0291/A/597:598,
1/A/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_73108.2
IL_7NAT_0301/A/605:612,
1/A/628:633		No text annotation
homologous
IL_5J7L_030
NA
IL_7NAT_0311/A/654:655,
1/A/751:754		Major groove platform; stack outside cWW
homologous
IL_5J7L_031
NA
IL_7NAT_0581/A/659:660,
1/A/745:747		Single stack bend
homologous
IL_5J7L_032
NA
IL_7NAT_0331/A/662:666,
1/A/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
NA
IL_7NAT_0561/A/673:677,
1/A/713:717		Triple non-canonical cWW pairs
homologous
IL_4LFB_065
IL_71154.2
IL_7NAT_0351/A/684:688,
1/A/699:706		Kink-turn
homologous
IL_5J7L_035
NA
IL_7NAT_0361/A/774:778,
1/A/804:805		Left turn
homologous
IL_4LFB_032
IL_29346.3
IL_7NAT_0371/A/779:783,
1/A/799:803		tSH-tHW-tHS
homologous
IL_5J7L_037
NA
IL_7NAT_0381/A/887:894,
1/A/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
NA
IL_7NAT_0451/A/1052:1056,
1/A/1204:1206		Isolated cWS basepair
homologous
IL_4LFB_044
IL_82453.1
IL_7NAT_0471/A/1060:1061,
1/A/1195:1197		Single bulged A
homologous
IL_5J7L_049
NA
IL_7NAT_0481/A/1061:1063,
1/A/1193:1195		Isolated non-canonical cWW pair
geometric
IL_5J7L_050
NA

Problematic loops

#loop idProblemSequence
IL_7NAT_008Single bulged G
IL_7NAT_032No text annotation
IL_7NAT_034No text annotation
IL_7NAT_039Minor groove platform
IL_7NAT_040Minor groove platform
IL_7NAT_041Minor groove platform
IL_7NAT_042Single stack bend
IL_7NAT_057Isolated cWH basepair
IL_7NAT_043Single bulged U
IL_7NAT_044Isolated non-canonical cWW pair
IL_7NAT_046Minor groove platform
IL_7NAT_049No text annotation
IL_7NAT_050Minor groove platform
IL_7NAT_051No text annotation
IL_7NAT_052No text annotation
IL_7NAT_053180 degree turn
IL_7NAT_054Double sheared with non-canonical cWW
IL_7NAT_055No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_7NAT_0011/A/46:47,
1/A/361:367,
1/A/393:395		No text annotation
homologous
J3_5J7L_001
NA
J3_7NAT_0151/A/46:52,
1/A/359:367,
1/A/393:395		No text annotation
homologous
J3_5J7L_050
NA
J3_7NAT_0021/A/586:588,
1/A/651:654,
1/A/754:755		No text annotation
homologous
J3_5J7L_002
NA
J3_7NAT_0161/A/586:588,
1/A/651:655,
1/A/751:755		No text annotation
homologous
J3_5J7L_051
NA
J3_7NAT_0031/A/672:673,
1/A/717:725,
1/A/732:734		No text annotation
homologous
J3_5J7L_003
NA
J3_7NAT_0041/A/826:829,
1/A/857:861,
1/A/868:874		No text annotation
homologous
J3_5J7L_004
NA
J3_7NAT_0191/A/936:939,
1/A/1344:1350,
1/A/1372:1379		No text annotation
homologous
J3_5J7L_052
NA
J3_7NAT_0111/A/1063:1068,
1/A/1107:1113,
1/A/1187:1193		No text annotation
homologous
J3_5J7L_008
NA
J3_7NAT_0201/A/1073:1074,
1/A/1083:1086,
1/A/1099:1102		No text annotation
homologous
J3_4LFB_017
J3_11018.1
J3_7NAT_0131/A/1116:1118,
1/A/1155:1158,
1/A/1181:1184		No text annotation
homologous
J3_5J7L_010
NA
J3_7NAT_0181/A/1116:1118,
1/A/1155:1161,
1/A/1175:1184		No text annotation
homologous
J3_5J7L_054
NA
J4_7NAT_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_7NAT_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_7NAT_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_7NAT_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_7NAT_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_7NAT_0031/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_7NAT_005No text annotation
J3_7NAT_006No text annotation
J3_7NAT_007No text annotation
J3_7NAT_008No text annotation
J3_7NAT_009No text annotation
J3_7NAT_017No text annotation
J3_7NAT_010No text annotation
J3_7NAT_012No text annotation
J3_7NAT_014No text annotation

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