RNA 3D Hub //

6V3E Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6V3E_0041/sN1/182:187UNCG
geometric
HL_6CK5_001
HL_61337.1
HL_6V3E_0061/sN1/255:263GNRA related
homologous
HL_5J7L_006
NA
HL_6V3E_0071/sN1/292:297GNRA
homologous
HL_5J7L_007
NA
HL_6V3E_0081/sN1/316:329No text annotation
homologous
HL_4LFB_008
HL_39665.1
HL_6V3E_0101/sN1/375:380GNRA
homologous
HL_4LFB_010
HL_34789.1
HL_6V3E_0141/sN1/614:620GNRA-like with tWH
homologous
HL_4LFB_014
HL_92337.1
HL_6V3E_0161/sN1/723:728GNRA
homologous
HL_5J7L_016
NA
HL_6V3E_0191/sN1/859:864GNRA
homologous
HL_4LFB_019
HL_34789.1
HL_6V3E_0211/sN1/960:969No text annotation
homologous
HL_4LFB_021
HL_97521.1
HL_6V3E_0281/sN1/1262:1267GNRA
homologous
HL_5J7L_027
NA
HL_6V3E_0291/sN1/1311:1320T-loop with 3 stacked bulged bases
homologous
HL_4LFB_029
HL_93658.1
HL_6V3E_0301/sN1/1353:1363No text annotation
homologous
HL_4LFB_030
HL_86432.1

Problematic loops

#loop idProblemSequence
HL_6V3E_001No text annotation
HL_6V3E_002No text annotation
HL_6V3E_003GNRA
HL_6V3E_005No text annotation
HL_6V3E_009UNCG
HL_6V3E_011UNCG
HL_6V3E_012GNRA wlth extra near cWW
HL_6V3E_013No text annotation
HL_6V3E_033GNRA variation
HL_6V3E_015No text annotation
HL_6V3E_017No text annotation
HL_6V3E_018Externally structured
HL_6V3E_020GNRA
HL_6V3E_022No text annotation
HL_6V3E_023No text annotation
HL_6V3E_024GNRA
HL_6V3E_025T-loop related
HL_6V3E_034No text annotation
HL_6V3E_026No text annotation
HL_6V3E_027No text annotation
HL_6V3E_031No text annotation
HL_6V3E_035Mini UNCG
HL_6V3E_032GNRA

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6V3E_0011/sN1/32:34,
1/sN1/549:550		Single bulged G
homologous
IL_5J7L_001
NA
IL_6V3E_0021/sN1/46:47,
1/sN1/392:394		Single bulged A
homologous
IL_5J7L_002
NA
IL_6V3E_0031/sN1/49:54,
1/sN1/355:357		No text annotation
homologous
IL_5J7L_003
NA
IL_6V3E_0041/sN1/56:58,
1/sN1/352:353		Minor groove platform
homologous
IL_4LFB_004
IL_34520.1
IL_6V3E_0051/sN1/65:68,
1/sN1/99:100		Multiple bulged bases
homologous
IL_5J7L_005
NA
IL_6V3E_0071/sN1/124:127,
1/sN1/227:229		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
NA
IL_6V3E_0081/sN1/128:132,
1/sN1/223:226		No text annotation
homologous
IL_4LFB_008
IL_60988.1
IL_6V3E_0091/sN1/140:142,
1/sN1/172:174		Isolated cWH basepair
homologous
IL_5J7L_011
NA
IL_6V3E_0101/sN1/143:149,
1/sN1/164:171		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
NA
IL_6V3E_0111/sN1/238:243,
1/sN1/273:280		Kink-turn with non-sequential stacking
geometric
IL_4V88_402
NA
IL_6V3E_0121/sN1/245:248,
1/sN1/270:271		No text annotation
homologous
IL_4LFB_012
IL_22002.1
IL_6V3E_0131/sN1/288:289,
1/sN1/300:304		C-loop
homologous
IL_6CZR_125
NA
IL_6V3E_0141/sN1/363:365,
1/sN1/388:389		Single bulged U
homologous
IL_6CZR_126
NA
IL_6V3E_0151/sN1/367:371,
1/sN1/385:386		C-loop
homologous
IL_5J7L_018
NA
IL_6V3E_0161/sN1/371:372,
1/sN1/383:385		Single bulged G
geometric
IL_5J7L_019
NA
IL_6V3E_0241/sN1/566:572,
1/sN1/877:878		No text annotation
homologous
IL_6CZR_134
NA
IL_6V3E_0251/sN1/577:581,
1/sN1/754:758		tSH-tHW-tHS
homologous
IL_6CZR_135
NA
IL_6V3E_0271/sN1/594:595,
1/sN1/637:640		Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_73108.1
IL_6V3E_0681/sN1/602:609,
1/sN1/625:630		No text annotation
homologous
IL_5J7L_030
NA
IL_6V3E_0781/sN1/651:652,
1/sN1/748:751		Major groove platform; stack outside cWW
geometric
IL_4LFB_027
IL_74641.1
IL_6V3E_0361/sN1/884:891,
1/sN1/902:907		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
NA
IL_6V3E_0401/sN1/950:951,
1/sN1/1223:1225		Minor groove platform
geometric
IL_4V88_445
NA
IL_6V3E_0451/sN1/1049:1053,
1/sN1/1201:1203		Isolated cWS basepair
homologous
IL_4LFB_044
IL_82453.1
IL_6V3E_0461/sN1/1054:1055,
1/sN1/1196:1200		Minor groove platform
homologous
IL_5J7L_048
NA
IL_6V3E_0511/sN1/1126:1129,
1/sN1/1139:1140		Minor groove platform
homologous
IL_5J7L_052
NA
IL_6V3E_0521/sN1/1155:1158,
1/sN1/1172:1178		No text annotation
geometric
IL_5J7L_053
NA
IL_6V3E_0531/sN1/1244:1250,
1/sN1/1281:1287		No text annotation
homologous
IL_4LFB_051
IL_12056.1
IL_6V3E_0541/sN1/1252:1255,
1/sN1/1274:1279		180 degree turn
homologous
IL_5J7L_055
NA
IL_6V3E_0561/sN1/1300:1305,
1/sN1/1326:1331		No text annotation
geometric
IL_4LFB_055
IL_57885.1
IL_6V3E_0581/sN1/1398:1401,
1/sN1/1494:1498		No text annotation
homologous
IL_5J7L_059
NA

Problematic loops

#loop idProblemSequence
IL_6V3E_006Isolated non-canonical cWW pair
IL_6V3E_017No text annotation
IL_6V3E_018No text annotation
IL_6V3E_019tSH-tHW-tWW
IL_6V3E_020No text annotation
IL_6V3E_021Single stack bend
IL_6V3E_022SSU/LSU pseudoknot
IL_6V3E_023Kink-turn related
IL_6V3E_026Major groove platform
IL_6V3E_028No text annotation
IL_6V3E_029Major groove platform with extra pair
IL_6V3E_069Single stack bend
IL_6V3E_030No text annotation
IL_6V3E_031Tandem non-canonical cWW pairs
IL_6V3E_070Triple non-canonical cWW pairs
IL_6V3E_032No text annotation
IL_6V3E_033Kink-turn
IL_6V3E_079Kink-turn
IL_6V3E_034Left turn
IL_6V3E_035tSH-tHW-tHS
IL_6V3E_0719x7 Sarcin-Ricin with inserted C; G-bulge
IL_6V3E_037Single bulged A
IL_6V3E_038Single bulged G
IL_6V3E_072Tandem non-canonical cWW pairs
IL_6V3E_039Minor groove platform
IL_6V3E_080Single stack bend
IL_6V3E_041No text annotation
IL_6V3E_042Single stack bend
IL_6V3E_043Single bulged U
IL_6V3E_044Isolated non-canonical cWW pair
IL_6V3E_073No text annotation
IL_6V3E_047Single bulged A
IL_6V3E_048Isolated non-canonical cWW pair
IL_6V3E_049Single stack bend
IL_6V3E_050No text annotation
IL_6V3E_074No text annotation
IL_6V3E_081No text annotation
IL_6V3E_055Tandem non-canonical cWW pairs
IL_6V3E_057No text annotation
IL_6V3E_059Isolated non-canonical cWW pair
IL_6V3E_075No text annotation
IL_6V3E_060No text annotation
IL_6V3E_061Isolated non-canonical cWW pair
IL_6V3E_062Double sheared
IL_6V3E_063Isolated non-canonical cWW pair
IL_6V3E_064Isolated non-canonical cWW pair
IL_6V3E_065No text annotation
IL_6V3E_076Triple sheared related
IL_6V3E_066No text annotation
IL_6V3E_077No text annotation
IL_6V3E_067No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6V3E_0011/sN1/48:49,
1/sN1/357:363,
1/sN1/389:391		No text annotation
homologous
J3_6CZR_015
NA
J3_6V3E_0121/sN1/48:54,
1/sN1/355:363,
1/sN1/389:391		No text annotation
homologous
J3_6CZR_058
NA
J3_6V3E_0021/sN1/583:585,
1/sN1/648:651,
1/sN1/751:752		No text annotation
homologous
J3_5J7L_002
NA
J3_6V3E_0171/sN1/583:585,
1/sN1/648:652,
1/sN1/748:752		No text annotation
homologous
J3_4LFB_015
J3_17385.5
J3_6V3E_0041/sN1/823:826,
1/sN1/854:858,
1/sN1/865:871		No text annotation
homologous
J3_5J7L_004
NA
J3_6V3E_0141/sN1/933:936,
1/sN1/1341:1347,
1/sN1/1369:1376		No text annotation
homologous
J3_5J7L_052
NA
J3_6V3E_0051/sN1/940:943,
1/sN1/1232:1234,
1/sN1/1334:1337		No text annotation
homologous
J3_4LFB_003
J3_44359.1
J3_6V3E_0061/sN1/951:959,
1/sN1/970:981,
1/sN1/1218:1223		No text annotation
J3_6V3E_0071/sN1/987:995,
1/sN1/1040:1044,
1/sN1/1207:1212		No text annotation
homologous
J3_6CZR_063
NA
J3_6V3E_0181/sN1/1113:1115,
1/sN1/1152:1155,
1/sN1/1178:1181		No text annotation
geometric
J3_5J7L_010
NA
J3_6V3E_0191/sN1/1113:1115,
1/sN1/1152:1158,
1/sN1/1172:1181		No text annotation
homologous
J3_5J7L_054
NA
J3_6V3E_0111/sN1/1234:1238,
1/sN1/1293:1300,
1/sN1/1331:1334		No text annotation
homologous
J3_4LFB_009
J3_03192.1
J4_6V3E_0011/sN1/111:118,
1/sN1/235:236,
1/sN1/282:285,
1/sN1/307:308		No text annotation
homologous
J4_5J7L_001
NA
J4_6V3E_0021/sN1/139:140,
1/sN1/174:180,
1/sN1/189:194,
1/sN1/215:216		No text annotation
J4_6V3E_0031/sN1/572:574,
1/sN1/761:766,
1/sN1/807:818,
1/sN1/876:877		No text annotation
homologous
J4_5J7L_003
NA
J5_6V3E_0011/sN1/38:41,
1/sN1/399:402,
1/sN1/432:436,
1/sN1/494:497,
1/sN1/542:545		No text annotation
homologous
J5_5J7L_001
NA
J5_6V3E_0021/sN1/38:41,
1/sN1/399:402,
1/sN1/432:438,
1/sN1/489:497,
1/sN1/542:545		No text annotation
homologous
J5_5J7L_002
NA
J5_6V3E_0031/sN1/60:63,
1/sN1/102:109,
1/sN1/310:312,
1/sN1/333:335,
1/sN1/346:350		No text annotation
homologous
J5_4LFB_002
J5_58574.1

Problematic loops

#loop idProblemSequence
J3_6V3E_013No text annotation
J3_6V3E_003No text annotation
J3_6V3E_015No text annotation
J3_6V3E_008No text annotation
J3_6V3E_009No text annotation
J3_6V3E_010No text annotation
J3_6V3E_016No text annotation

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