RNA 3D Hub //

3OW2 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_3OW2_0021/0/83:91Pseudoknot geometry
homologous
HL_4V9F_002
HL_93324.4
HL_3OW2_0061/0/164:171No text annotation
homologous
HL_4V9F_006
HL_30068.2
HL_3OW2_0071/0/195:201No text annotation
homologous
HL_4V9F_007
HL_04783.2
HL_3OW2_0111/0/326:330No text annotation
homologous
HL_4V9F_011
HL_75660.5
HL_3OW2_0141/0/416:424Pseudoknot geometry
homologous
HL_4V9F_014
HL_93324.4
HL_3OW2_0181/0/623:632No text annotation
geometric
HL_7RQB_018
NA
HL_3OW2_0281/0/1054:1060GNRA
homologous
HL_4V9F_028
HL_37824.8
HL_3OW2_0291/0/1076:1083No text annotation
homologous
HL_4V9F_029
HL_42998.2
HL_3OW2_0321/0/1274:1282Anticodon loop related
homologous
HL_4V9F_032
HL_77082.1
HL_3OW2_0361/0/1468:1474GNRA
homologous
HL_4V9F_036
HL_37824.8
HL_3OW2_0591/0/2389:2399No text annotation
homologous
HL_4V9F_059
HL_91939.2
HL_3OW2_0611/0/2442:2450Pseudoknot geometry
homologous
HL_4V9F_061
HL_93324.4
HL_3OW2_0741/0/2586:2592No text annotation
homologous
HL_4V9F_073
HL_30068.2
HL_3OW2_0681/0/2780:2794No text annotation
homologous
HL_4V9F_068
HL_74055.2
HL_3OW2_0691/0/2836:2844No text annotation
homologous
HL_4V9F_069
HL_64690.6

Problematic loops

#loop idProblemSequence
HL_3OW2_001Pseudoknot with intercalation
HL_3OW2_003No text annotation
HL_3OW2_004Mini UNCG related
HL_3OW2_005No text annotation
HL_3OW2_008No text annotation
HL_3OW2_009GNRA
HL_3OW2_010T-loop with 2 stacked bulged bases
HL_3OW2_012T-loop with unstacked turn
HL_3OW2_013No text annotation
HL_3OW2_015GNRA
HL_3OW2_016GNRA
HL_3OW2_017GNRA
HL_3OW2_019No text annotation
HL_3OW2_020GNRA
HL_3OW2_021Mini UNCG
HL_3OW2_022GNRA
HL_3OW2_023GNRA
HL_3OW2_024No text annotation
HL_3OW2_025No text annotation
HL_3OW2_026No text annotation
HL_3OW2_027No text annotation
HL_3OW2_030No text annotation
HL_3OW2_073No text annotation
HL_3OW2_031GNRA wlth tandem sheared
HL_3OW2_033GNRA
HL_3OW2_034T-loop with 2 stacked bulged bases
HL_3OW2_035Pseudoknot geometry with 3' bulge
HL_3OW2_037No text annotation
HL_3OW2_038No text annotation
HL_3OW2_039Other HL
HL_3OW2_040GNRA
HL_3OW2_041Mini UNCG
HL_3OW2_042No text annotation
HL_3OW2_043GNRA wlth tandem sheared
HL_3OW2_044UNCG
HL_3OW2_045GNRA
HL_3OW2_046No text annotation
HL_3OW2_047No text annotation
HL_3OW2_048GNRA
HL_3OW2_049GNRA related
HL_3OW2_050No text annotation
HL_3OW2_051No text annotation
HL_3OW2_052No text annotation
HL_3OW2_053No text annotation
HL_3OW2_054GNRA
HL_3OW2_055No text annotation
HL_3OW2_056No text annotation
HL_3OW2_057No text annotation
HL_3OW2_058Pseudoknot geometry
HL_3OW2_060GNRA
HL_3OW2_062No text annotation
HL_3OW2_063GNRA variation
HL_3OW2_064No text annotation
HL_3OW2_065GNRA
HL_3OW2_066GNRA
HL_3OW2_067Ribsomal LSU H95
HL_3OW2_070GNRA
HL_3OW2_075No text annotation
HL_3OW2_071No text annotation
HL_3OW2_072GNRA

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_3OW2_0041/0/77:81,
1/0/93:100		Kink-turn
homologous
IL_4V9F_004
IL_01488.3
IL_3OW2_0061/0/158:164,
1/0/171:178		8x7 Sarcin-Ricin; G-bulge
geometric
IL_4V9F_006
IL_04346.10
IL_3OW2_0121/0/287:290,
1/0/362:365		Tandem non-canonical cWW pairs
geometric
IL_6JDV_002
IL_85033.2
IL_3OW2_0151/0/487:491,
1/0/501:515		No text annotation
geometric
IL_4V9F_014
IL_31504.1
IL_3OW2_0161/0/548:553,
1/0/606:608		No text annotation
homologous
IL_4V9F_015
IL_59302.1
IL_3OW2_0181/0/558:561,
1/0/596:599		Tandem non-canonical cWW pairs
geometric
IL_1JID_002
IL_85033.2
IL_3OW2_0191/0/562:567,
1/0/591:595		Triple sheared related
homologous
IL_4V9F_018
IL_97631.1
IL_3OW2_0201/0/567:572,
1/0/585:591		7x6 Sarcin-Ricin; G-bulge
geometric
IL_4V9F_019
IL_16458.4
IL_3OW2_0211/0/663:667,
1/0/679:683		AAA cross-strand stack
homologous
IL_4V9F_020
IL_66798.2
IL_3OW2_0221/0/699:702,
1/0/726:727		Multiple bulged bases
homologous
IL_4V9F_021
IL_82107.5
IL_3OW2_0231/0/705:709,
1/0/719:723		tSH-tHW-tHS
homologous
IL_4V9F_022
IL_17136.7
IL_3OW2_1081/0/936:940,
1/0/1026:1034		Kink-turn
homologous
IL_4V9F_031
IL_94910.1
IL_3OW2_0331/0/942:944,
1/0/1023:1024		Single bulged A
homologous
IL_4V9F_032
IL_31462.7
IL_3OW2_0391/0/1101:1108,
1/0/1254:1255		SSU/LSU pseudoknot
geometric
IL_4V9F_038
IL_41203.4
IL_3OW2_0401/0/1108:1110,
1/0/1253:1254		Single bulged U
homologous
IL_4V9F_039
IL_89505.4
IL_3OW2_0411/0/1115:1121,
1/0/1243:1248		Kink-turn related
homologous
IL_4V9F_040
IL_57188.5
IL_3OW2_1091/0/1122:1134,
1/0/1228:1242		No text annotation
homologous
IL_4V9F_109
IL_29826.1
IL_3OW2_0421/0/1136:1138,
1/0/1225:1226		Single bulged G
homologous
IL_4V9F_041
IL_00225.14
IL_3OW2_0431/0/1147:1155,
1/0/1212:1216		Kink-turn
homologous
IL_4V9F_042
IL_99692.2
IL_3OW2_0461/0/1269:1270,
1/0/1286:1289		Bulged stacked bases
homologous
IL_4V9F_045
IL_76709.2
IL_3OW2_0481/0/1303:1305,
1/0/1349:1351		Isolated non-canonical cWW pair
geometric
IL_4V9F_047
IL_28037.2
IL_3OW2_0501/0/1367:1373,
1/0/2052:2057		7x6 Sarcin-Ricin; G-bulge
homologous
IL_4V9F_049
IL_26307.2
IL_3OW2_0781/0/2279:2280,
1/0/2290:2292		Single bulged A
homologous
IL_4V9F_079
IL_31462.7
IL_3OW2_0801/0/2436:2438,
1/0/2454:2455		Single stack bend
homologous
IL_4V9F_081
IL_26793.1
IL_3OW2_0821/0/2489:2490,
1/0/2531:2533		Major groove platform
homologous
IL_4V9F_082
IL_48076.6
IL_3OW2_0841/0/2494:2496,
1/0/2524:2528		Major groove minor groove platform with extra cWW
geometric
IL_4V9F_084
IL_51387.3
IL_3OW2_0851/0/2501:2505,
1/0/2515:2519		Double sheared with non-canonical cWW
homologous
IL_4V9F_085
IL_17948.2
IL_3OW2_0911/0/2672:2676,
1/0/2809:2817		tSH-tHS-tHW
geometric
IL_5J7L_345
IL_04638.3
IL_3OW2_0961/0/2772:2777,
1/0/2797:2802		UAA/GAN with extra cWW
homologous
IL_4V9F_096
IL_49767.8
IL_3OW2_1011/9/3015:3016,
1/9/3064:3066		Major groove intercalation
homologous
IL_4V9F_101
IL_31462.7

Problematic loops

#loop idProblemSequence
IL_3OW2_001Triple sheared with non-canonical cWW
IL_3OW2_002Single bulged A
IL_3OW2_003Major groove platform with extra cWW
IL_3OW2_005Single stack bend
IL_3OW2_0077x6 Sarcin-Ricin; G-bulge
IL_3OW2_008Major groove platform; stack outside cWW
IL_3OW2_107Kink-turn with embedded cWW pair
IL_3OW2_009No text annotation
IL_3OW2_010Single bulged G
IL_3OW2_011No text annotation
IL_3OW2_0138x7 Sarcin-Ricin with CC bifurcated pair; G-bulge
IL_3OW2_014Single bulged U
IL_3OW2_017No text annotation
IL_3OW2_024Isolated non-canonical cWW pair
IL_3OW2_025tHW-tHW cross-strand stack
IL_3OW2_026Single bulged A
IL_3OW2_027Single bulged G
IL_3OW2_028Triple sheared
IL_3OW2_029Major groove platform with extra cWW
IL_3OW2_030Single bulged U
IL_3OW2_031Multiple bulged bases
IL_3OW2_032Kink-turn
IL_3OW2_0345x5 Sarcin-Ricin with intercalated A; G-bulge
IL_3OW2_035Minor groove platform
IL_3OW2_036No text annotation
IL_3OW2_037No text annotation
IL_3OW2_038UAA/GAN
IL_3OW2_110No text annotation
IL_3OW2_044No text annotation
IL_3OW2_045Major groove platform
IL_3OW2_047Isolated cWS basepair
IL_3OW2_049Kink-turn
IL_3OW2_051Major groove platform; stack outside cWW
IL_3OW2_052C-loop
IL_3OW2_053UAA/GAN
IL_3OW2_054No text annotation
IL_3OW2_055No text annotation
IL_3OW2_056tSH-tHW-tHS
IL_3OW2_057tSH-tHH-tHS
IL_3OW2_058No text annotation
IL_3OW2_059Kink-turn
IL_3OW2_060No text annotation
IL_3OW2_061Isolated tWW turn
IL_3OW2_062Major groove platform; stack outside cWW
IL_3OW2_111No text annotation
IL_3OW2_063Intercalated tWH
IL_3OW2_064tSH-tSH-tHH-tHS
IL_3OW2_065Single bulged A
IL_3OW2_066Kink-turn related
IL_3OW2_067Minor groove platform, major groove intercalation
IL_3OW2_068Major groove intercalation
IL_3OW2_069Major groove minor groove platform; mini C-loop
IL_3OW2_070No text annotation
IL_3OW2_071Bulged stacked bases
IL_3OW2_072No text annotation
IL_3OW2_073No text annotation
IL_3OW2_074No text annotation
IL_3OW2_075Single bulged U
IL_3OW2_076Minor groove platform
IL_3OW2_077Isolated tHS basepair with bulges
IL_3OW2_079Isolated tHS basepair with bulges
IL_3OW2_081Single stack bend
IL_3OW2_083Major groove platform
IL_3OW2_086Major groove platform
IL_3OW2_087Isolated non-canonical cWW with bulges
IL_3OW2_088Multiple bulged bases
IL_3OW2_089Major groove platform with intercalation
IL_3OW2_090Single bulged A
IL_3OW2_092Sarcin-Ricin target in LSU H95; G-bulge
IL_3OW2_093C-loop
IL_3OW2_094UAA/GAN variation
IL_3OW2_095Bulged stacked bases
IL_3OW2_097Isolated non-canonical cWW with bulges
IL_3OW2_098Single bulged A
IL_3OW2_099tHS double platform
IL_3OW2_100Double sheared
IL_3OW2_102No text annotation
IL_3OW2_103Major groove minor groove platform; mini C-loop
IL_3OW2_104Symmetric double minor groove platform
IL_3OW2_1057x6 Sarcin-Ricin; G-bulge
IL_3OW2_106Single bulged U

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_3OW2_0161/0/27:28,
1/0/480:491,
1/0/501:516		No text annotation
homologous
J3_4V9F_012
J3_24879.1
J3_3OW2_0171/0/29:32,
1/0/451:467,
1/0/474:479		No text annotation
homologous
J3_4V9F_013
J3_30040.2
J3_3OW2_0181/0/302:307,
1/0/323:332,
1/0/344:349		No text annotation
homologous
J3_4V9F_015
J3_59706.1
J3_3OW2_0061/0/1412:1415,
1/0/1680:1686,
1/0/1695:1697		No text annotation
homologous
J3_4V9F_006
J3_19545.2
J3_3OW2_0191/0/2316:2318,
1/0/2421:2432,
1/0/2459:2464		No text annotation
homologous
J3_4V9F_018
J3_44792.1
J3_3OW2_0101/9/3009:3014,
1/9/3067:3071,
1/9/3110:3114		5S rRNA junction
homologous
J3_4V9F_010
J3_89737.1
J4_3OW2_0091/0/2319:2323,
1/0/2377:2381,
1/0/2407:2409,
1/0/2418:2420		No text annotation
homologous
J4_4V9F_009
J4_04930.6
J5_3OW2_0031/0/641:646,
1/0/759:762,
1/0/902:905,
1/0/1300:1301,
1/0/1354:1360		No text annotation
homologous
J5_4V9F_003
J5_56920.1
J5_3OW2_0041/0/658:661,
1/0/685:689,
1/0/696:699,
1/0/727:728,
1/0/743:747		No text annotation
homologous
J5_4V9F_004
J5_87582.1
J5_3OW2_0051/0/658:661,
1/0/685:689,
1/0/696:702,
1/0/726:728,
1/0/743:747		No text annotation
homologous
J5_4V9F_005
J5_26867.1
J6_3OW2_0011/0/41:42,
1/0/149:153,
1/0/184:194,
1/0/202:206,
1/0/233:237,
1/0/433:440		No text annotation
J6_3OW2_0021/0/2115:2118,
1/0/2276:2279,
1/0/2292:2293,
1/0/2315:2318,
1/0/2421:2432,
1/0/2459:2470		No text annotation
J7_3OW2_0011/0/910:915,
1/0/928:931,
1/0/1039:1045,
1/0/1069:1074,
1/0/1085:1089,
1/0/1267:1268,
1/0/1290:1295		No text annotation

Problematic loops

#loop idProblemSequence
J3_3OW2_011No text annotation
J3_3OW2_012No text annotation
J3_3OW2_001No text annotation
J3_3OW2_002No text annotation
J3_3OW2_003No text annotation
J3_3OW2_004No text annotation
J3_3OW2_005No text annotation
J3_3OW2_013No text annotation
J3_3OW2_014No text annotation
J3_3OW2_007No text annotation
J3_3OW2_008No text annotation
J3_3OW2_009No text annotation
J3_3OW2_015No text annotation
J4_3OW2_001No text annotation
J4_3OW2_002No text annotation
J4_3OW2_003No text annotation
J4_3OW2_004No text annotation
J4_3OW2_005No text annotation
J4_3OW2_006No text annotation
J4_3OW2_007No text annotation
J4_3OW2_008No text annotation
J4_3OW2_010No text annotation
J5_3OW2_001No text annotation
J5_3OW2_002No text annotation
J5_3OW2_006No text annotation
J5_3OW2_007No text annotation
J5_3OW2_008No text annotation

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