RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6RXU_0021/C1/44:49GNRA
geometric
HL_4Y1M_003
HL_34789.4
HL_6RXU_0031/C1/102:107GNRA
geometric
HL_4V9F_070
HL_34789.4
HL_6RXU_0051/C1/219:225No text annotation
geometric
HL_5TBW_006
NA
HL_6RXU_0061/C1/264:268Mini UNCG
geometric
HL_6MSF_001
HL_90436.3
HL_6RXU_0091/C1/463:469No text annotation
geometric
HL_1WZ2_007
HL_75660.7
HL_6RXU_0111/C1/657:667No text annotation
geometric
HL_2ZNI_001
HL_75660.7
HL_6RXU_0121/C1/738:744GNRA related
homologous
HL_4V88_188
NA
HL_6RXU_0151/C1/827:834T-loop with 1 bulged base
homologous
HL_4V88_191
NA
HL_6RXU_0171/C1/914:922GNRA related
homologous
HL_4V88_193
NA
HL_6RXU_0191/C1/978:987No text annotation
HL_6RXU_0201/C1/998:1003UNCG
homologous
HL_4V88_196
NA
HL_6RXU_0211/C1/1034:1040No text annotation
geometric
HL_5NFV_001
HL_69752.4
HL_6RXU_0221/C1/1075:1080Mini UNCG
geometric
HL_4QOZ_001
HL_12626.2
HL_6RXU_0231/C1/1104:1116No text annotation
geometric
HL_4V88_199
NA
HL_6RXU_0241/C1/1145:1150No text annotation
geometric
HL_5TBW_006
NA
HL_6RXU_0261/C1/1485:1494No text annotation
homologous
HL_4V88_206
NA
HL_6RXU_0271/C1/1522:1527GNRA
homologous
HL_4V88_207
NA
HL_6RXU_0281/C1/1640:1648No text annotation
HL_6RXU_0291/C1/2084:2089GNRA
homologous
HL_4V88_218
NA
HL_6RXU_0301/C1/2177:2185Mini UNCG
geometric
HL_4TUW_002
HL_12626.2

Problematic loops

#loop idProblemSequence
HL_6RXU_001No text annotation
HL_6RXU_004GNRA related
HL_6RXU_007No text annotation
HL_6RXU_008No text annotation
HL_6RXU_010No text annotation
HL_6RXU_013No text annotation
HL_6RXU_014UNCG
HL_6RXU_016Mini UNCG
HL_6RXU_018No text annotation
HL_6RXU_025GNRA with extra cWW
HL_6RXU_031No text annotation
HL_6RXU_032No text annotation
HL_6RXU_033No text annotation
HL_6RXU_034No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6RXU_0031/C1/80:81,
1/C1/126:128		Single bulged C
geometric
IL_3SNP_003
IL_05642.2
IL_6RXU_0041/C1/82:84,
1/C1/123:125		Isolated non-canonical cWW pair
geometric
IL_1U9S_007
IL_01003.3
IL_6RXU_0051/C1/88:91,
1/C1/116:119		Double sheared
geometric
IL_4KZD_002
IL_58355.2
IL_6RXU_0061/C1/94:98,
1/C1/111:113		8-nt loop receptor
geometric
IL_6DME_002
IL_70784.1
IL_6RXU_0071/C1/135:137,
1/C1/201:204		No text annotation
IL_6RXU_0081/C1/137:140,
1/C1/198:201		Tandem non-canonical cWW pairs
geometric
IL_3WBM_002
IL_15225.2
IL_6RXU_0091/C1/144:147,
1/C1/190:194		Minor groove platform related
geometric
IL_3BNR_008
IL_60988.2
IL_6RXU_0151/C1/246:248,
1/C2/70:72		Isolated non-canonical cWW pair
geometric
IL_4V9F_017
IL_01003.3
IL_6RXU_0161/C1/296:299,
1/C1/342:343		Major groove minor groove platform; mini C-loop
geometric
IL_1I6U_002
IL_73108.2
IL_6RXU_0171/C1/301:302,
1/C1/338:340		Single bulged C
geometric
IL_3HHN_003
IL_05642.2
IL_6RXU_0181/C1/306:309,
1/C1/331:334		Tandem non-canonical cWW pairs
geometric
IL_4EYA_003
IL_71194.2
IL_6RXU_0191/C1/310:314,
1/C1/326:330		Triple sheared
geometric
IL_7RQB_075
NA
IL_6RXU_0211/C1/358:362,
1/C1/405:410		No text annotation
IL_6RXU_0221/C1/364:365,
1/C1/401:403		Single bulged U
geometric
IL_3TZR_002
IL_97561.3
IL_6RXU_0231/C1/368:373,
1/C1/393:398		No text annotation
geometric
IL_6O5F_001
NA
IL_6RXU_0241/C1/376:379,
1/C1/387:390		Tandem non-canonical cWW pairs
geometric
IL_6JDV_001
IL_71194.2
IL_6RXU_0251/C1/423:425,
1/C2/48:50		Isolated non-canonical cWW pair
geometric
IL_3TD0_006
NA
IL_6RXU_0261/C1/446:448,
1/C1/486:487		Single stack bend
geometric
IL_4LFB_041
IL_15011.2
IL_6RXU_0271/C1/448:449,
1/C1/484:486		Single stack bend
geometric
IL_5J7L_032
NA
IL_6RXU_0281/C1/449:450,
1/C1/482:484		Single bulged U
geometric
IL_3MEI_001
IL_97561.3
IL_6RXU_0291/C1/454:457,
1/C1/475:478		Double sheared
geometric
IL_1SAQ_002
NA
IL_6RXU_0301/C1/457:459,
1/C1/473:475		Isolated non-canonical cWW pair
geometric
IL_4J50_002
IL_01003.3
IL_6RXU_0321/C1/611:613,
1/C1/1184:1185		Single bulged C
homologous
IL_4V88_384
NA
IL_6RXU_0331/C1/622:624,
1/C1/1055:1057		Isolated non-canonical cWW pair
geometric
IL_4V88_385
NA
IL_6RXU_0341/C1/624:628,
1/C1/1050:1055		Double sheared with non-canonical cWW
geometric
IL_4WFL_001
IL_87767.2
IL_6RXU_0351/C1/637:639,
1/C1/1012:1013		Single stack bend
geometric
IL_7A0S_005
IL_15011.2
IL_6RXU_0361/C1/645:650,
1/C1/673:675		No text annotation
homologous
IL_4V88_389
NA
IL_6RXU_0371/C1/651:656,
1/C1/668:672		No text annotation
homologous
IL_4V88_390
NA
IL_6RXU_0381/C1/695:698,
1/C1/886:889		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_6RXU_0391/C1/699:702,
1/C1/884:885		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_6RXU_0401/C1/703:708,
1/C1/879:883		No text annotation
homologous
IL_4V88_393
NA
IL_6RXU_0411/C1/727:733,
1/C1/749:756		tWH-tWH-tHW-tHW
geometric
IL_4V88_394
NA
IL_6RXU_0421/C1/733:736,
1/C1/746:749		Tandem non-canonical cWW pairs
geometric
IL_4WF9_109
NA
IL_6RXU_0441/C1/786:788,
1/C1/843:847		No text annotation
IL_6RXU_0451/C1/788:791,
1/C1/840:843		Tandem non-canonical cWW pairs
geometric
IL_1D4R_001
IL_15225.2
IL_6RXU_0461/C1/849:851,
1/C1/872:873		Single bulged A
homologous
IL_4V88_399
NA
IL_6RXU_0471/C1/854:857,
1/C1/867:869		No text annotation
homologous
IL_4V88_400
NA
IL_6RXU_0481/C1/895:900,
1/C1/932:939		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_6RXU_0491/C1/902:907,
1/C1/929:930		No text annotation
homologous
IL_8P9A_392
IL_01372.1
IL_6RXU_0501/C1/973:975,
1/C1/990:992		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_6RXU_0511/C1/995:997,
1/C1/1004:1006		Isolated near basepair
homologous
IL_4V88_406
NA
IL_6RXU_0521/C1/1023:1025,
1/C1/1047:1048		Single bulged U
homologous
IL_4V88_407
NA
IL_6RXU_0531/C1/1027:1031,
1/C1/1044:1045		C-loop
geometric
IL_6CZR_127
NA
IL_6RXU_0541/C1/1031:1032,
1/C1/1042:1044		Single bulged G
homologous
IL_8C3A_417
NA
IL_6RXU_0551/C1/1066:1067,
1/C1/1088:1090		Single bulged A
homologous
IL_4V88_409
NA
IL_6RXU_0561/C1/1098:1100,
1/C1/1120:1127		No text annotation
geometric
IL_8VTW_081
NA
IL_6RXU_0571/C1/1101:1102,
1/C1/1117:1119		Minor groove platform
geometric
IL_4UYK_001
IL_34520.3
IL_6RXU_0581/C1/1102:1104,
1/C1/1116:1117		Minor groove platform
homologous
IL_4V88_412
NA
IL_6RXU_0591/C1/1135:1136,
1/C1/1168:1171		Multiple bulged bases
geometric
IL_3IGI_013
IL_44609.2
IL_6RXU_0601/C1/1136:1143,
1/C1/1152:1168		No text annotation
IL_6RXU_0611/C1/1208:1210,
1/C1/1558:1560		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_6RXU_0621/C1/1211:1215,
1/C1/1553:1557		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_6RXU_0661/C1/1453:1454,
1/C1/1543:1545		No text annotation
IL_6RXU_0671/C1/1456:1458,
1/C1/1539:1541		Isolated non-canonical cWW pair
geometric
IL_2R8S_001
IL_01003.3
IL_6RXU_0681/C1/1459:1463,
1/C1/1535:1538		Tandem non-canonical cWW pairs
homologous
IL_4V88_431
NA
IL_6RXU_0911/C1/1471:1473,
1/C1/1509:1511		Isolated non-canonical cWW pair
geometric
IL_4V88_472
NA
IL_6RXU_0701/C1/1478:1484,
1/C1/1495:1504		Kink-turn related
homologous
IL_8C3A_440
NA
IL_6RXU_0711/C1/1626:1629,
1/C1/1658:1661		Tandem non-canonical cWW pairs
homologous
IL_4V88_438
NA
IL_6RXU_0721/C1/1636:1638,
1/C1/1650:1651		Minor groove platform
geometric
IL_1U6B_007
IL_34520.3
IL_6RXU_0731/C1/1701:1703,
1/C2/6:8		Isolated non-canonical cWW pair
geometric
IL_3DIL_006
IL_01003.3
IL_6RXU_0741/C1/1734:1736,
1/C1/2209:2223		Isolated cWH basepair
geometric
IL_8C3A_510
NA
IL_6RXU_0751/C1/1741:1744,
1/C1/2200:2204		C-loop
homologous
IL_4V88_443
NA
IL_6RXU_0761/C1/1757:1760,
1/C1/2046:2049		Tandem non-canonical cWW pairs
geometric
IL_4K27_001
IL_15225.2
IL_6RXU_0781/C1/2079:2081,
1/C1/2092:2094		Isolated non-canonical cWW pair
geometric
IL_4E48_001
IL_01003.3
IL_6RXU_0791/C1/2233:2235,
1/C1/2331:2333		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_6RXU_0801/C2/80:87,
1/C2/262:266		No text annotation
IL_6RXU_0811/C2/87:95,
1/C2/258:262		No text annotation
IL_6RXU_0821/C2/97:98,
1/C2/254:256		No text annotation
IL_6RXU_0831/C2/111:115,
1/C2/190:197		No text annotation
IL_6RXU_0841/C2/115:128,
1/C2/186:190		No text annotation

Problematic loops

#loop idProblemSequence
IL_6RXU_001Isolated non-canonical cWW pair
IL_6RXU_002Isolated non-canonical cWW pair
IL_6RXU_086No text annotation
IL_6RXU_010No text annotation
IL_6RXU_011Single stack bend
IL_6RXU_012Single stack bend
IL_6RXU_013No text annotation
IL_6RXU_014No text annotation
IL_6RXU_020Single bulged C
IL_6RXU_031Tandem non-canonical cWW pairs
IL_6RXU_087No text annotation
IL_6RXU_043Double sheared
IL_6RXU_088No text annotation
IL_6RXU_089No text annotation
IL_6RXU_063Single bulged U
IL_6RXU_064Isolated tHS basepair with bulges
IL_6RXU_065Major groove platform; stack outside cWW
IL_6RXU_090Isolated non-canonical cWW pair
IL_6RXU_069Tandem non-canonical cWW pairs
IL_6RXU_077No text annotation
IL_6RXU_092No text annotation
IL_6RXU_085No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6RXU_0021/C1/1466:1469,
1/C1/1513:1521,
1/C1/1528:1532		No text annotation
homologous
J3_4V88_033
NA
J3_6RXU_0081/C1/1745:1748,
1/C1/2164:2170,
1/C1/2192:2199		No text annotation
homologous
J3_8C3A_038
NA
J3_6RXU_0031/C1/1752:1755,
1/C1/2051:2053,
1/C1/2157:2160		No text annotation
homologous
J3_4V88_036
NA
J5_6RXU_0011/C1/254:262,
1/C1/270:292,
1/C1/347:353,
1/C1/415:417,
1/C2/56:64		No text annotation
J5_6RXU_0021/C1/618:622,
1/C1/1057:1062,
1/C1/1094:1098,
1/C1/1127:1130,
1/C1/1176:1179		No text annotation
J5_6RXU_0031/C1/710:726,
1/C1/757:766,
1/C1/785:786,
1/C1/847:849,
1/C1/873:877		No text annotation

Problematic loops

#loop idProblemSequence
J3_6RXU_006No text annotation
J3_6RXU_007No text annotation
J3_6RXU_001No text annotation
J3_6RXU_009No text annotation
J3_6RXU_004No text annotation
J3_6RXU_005No text annotation

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