RNA 3D Hub //

3J7A Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_3J7A_0351/7/11:23No text annotation
homologous
HL_4WT8_218
NA
HL_3J7A_0361/7/27:40No text annotation
HL_3J7A_0381/7/51:59T-loop with 2 stacked bulged bases
homologous
HL_3TUP_003
HL_28252.6
HL_3J7A_0011/A/7:17No text annotation
homologous
HL_4V88_186
NA
HL_3J7A_0021/A/152:158GNRA
geometric
HL_7RQB_047
NA
HL_3J7A_0041/A/245:252T-loop with 1 bulged base
geometric
HL_4V88_191
NA
HL_3J7A_0061/A/336:344GNRA related
homologous
HL_4V88_193
NA
HL_3J7A_0071/A/374:379GNRA
geometric
HL_3RG5_007
HL_37824.7
HL_3J7A_0081/A/399:410No text annotation
homologous
HL_4V88_195
NA
HL_3J7A_0091/A/420:425UNCG
homologous
HL_4V88_196
NA
HL_3J7A_0101/A/456:462No text annotation
homologous
HL_4V88_197
NA
HL_3J7A_0121/A/528:538No text annotation
geometric
HL_4UYK_001
HL_36684.4
HL_3J7A_0131/A/576:581GNRA variation
homologous
HL_4V88_200
NA
HL_3J7A_0151/A/814:822No text annotation
homologous
HL_4V88_203
NA
HL_3J7A_0181/A/969:978No text annotation
homologous
HL_4V88_206
NA
HL_3J7A_0191/A/1006:1011GNRA
homologous
HL_4V88_207
NA
HL_3J7A_0201/A/1066:1076No text annotation
homologous
HL_4V88_208
NA
HL_3J7A_0211/A/1185:1190GNRA
homologous
HL_4V88_210
NA
HL_3J7A_0221/A/1222:1227GNRA
homologous
HL_4V88_211
NA
HL_3J7A_0231/A/1289:1298No text annotation
homologous
HL_4V88_212
NA
HL_3J7A_0261/A/1411:1418No text annotation
homologous
HL_4V88_215
NA
HL_3J7A_0281/A/1642:1648GNRA
homologous
HL_4V88_217
NA
HL_3J7A_0301/A/1797:1802GNRA
homologous
HL_4V88_218
NA
HL_3J7A_0311/A/1847:1858No text annotation
homologous
HL_4V88_219
NA
HL_3J7A_0321/A/1891:1899No text annotation
homologous
HL_4V88_220
NA
HL_3J7A_0341/A/2070:2075GNRA variation
homologous
HL_4V88_222
NA

Problematic loops

#loop idProblemSequence
HL_3J7A_037No text annotation
HL_3J7A_003No text annotation
HL_3J7A_005No text annotation
HL_3J7A_011No text annotation
HL_3J7A_014No text annotation
HL_3J7A_016No text annotation
HL_3J7A_017No text annotation
HL_3J7A_024No text annotation
HL_3J7A_025Externally structured
HL_3J7A_027No text annotation
HL_3J7A_029No text annotation
HL_3J7A_033No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_3J7A_0831/7/25:27,
1/7/40:42		Isolated non-canonical cWW pair
geometric
IL_4ZC7_001
IL_87907.2
IL_3J7A_0011/A/24:26,
1/A/607:608		Single bulged C
homologous
IL_4V88_384
NA
IL_3J7A_0021/A/37:41,
1/A/472:477		Triple sheared related
homologous
IL_4V88_386
NA
IL_3J7A_0031/A/42:48,
1/A/437:439		No text annotation
homologous
IL_4V88_387
NA
IL_3J7A_0041/A/50:52,
1/A/434:435		Minor groove platform
homologous
IL_4V88_388
NA
IL_3J7A_0051/A/58:63,
1/A/89:91		No text annotation
IL_3J7A_0061/A/64:68,
1/A/84:88		No text annotation
homologous
IL_4V88_390
NA
IL_3J7A_0081/A/111:114,
1/A/308:311		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_3J7A_0091/A/115:118,
1/A/306:307		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_3J7A_0101/A/119:123,
1/A/302:305		UAA/GAN variation
geometric
IL_3LOA_001
IL_64231.5
IL_3J7A_0111/A/141:147,
1/A/163:170		tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA
IL_3J7A_0141/A/266:268,
1/A/294:295		Single bulged A
homologous
IL_4V88_399
NA
IL_3J7A_0151/A/270:272,
1/A/291:292		No text annotation
IL_3J7A_0161/A/317:322,
1/A/354:361		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_3J7A_0171/A/324:329,
1/A/351:352		No text annotation
geometric
IL_5Y58_001
IL_59877.1
IL_3J7A_0181/A/369:371,
1/A/382:387		No text annotation
homologous
IL_4V88_404
NA
IL_3J7A_0191/A/395:397,
1/A/412:414		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_3J7A_0201/A/417:419,
1/A/426:428		Isolated near basepair
homologous
IL_4V88_406
NA
IL_3J7A_0211/A/445:447,
1/A/469:470		Single bulged U
homologous
IL_4V88_407
NA
IL_3J7A_0861/A/449:453,
1/A/466:467		No text annotation
homologous
IL_8P9A_397
IL_03109.3
IL_3J7A_0871/A/453:454,
1/A/464:466		Single bulged G
homologous
IL_8P9A_398
IL_00225.13
IL_3J7A_0881/A/521:523,
1/A/543:550		No text annotation
homologous
IL_8CRE_418
IL_86136.1
IL_3J7A_0241/A/557:564,
1/A/594:595		SSU/LSU pseudoknot
homologous
IL_4V88_413
NA
IL_3J7A_0251/A/564:566,
1/A/593:594		Single bulged U
geometric
IL_4V88_407
NA
IL_3J7A_0261/A/569:575,
1/A/582:590		Kink-turn related
homologous
IL_4V88_415
NA
IL_3J7A_0271/A/623:629,
1/A/1205:1206		No text annotation
homologous
IL_4V88_416
NA
IL_3J7A_0281/A/631:633,
1/A/1042:1044		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_3J7A_0291/A/634:638,
1/A/1037:1041		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_3J7A_0311/A/796:797,
1/A/865:868		Minor groove platform
geometric
IL_7RQB_073
NA
IL_3J7A_0321/A/798:800,
1/A/862:864		Isolated non-canonical cWW pair
homologous
IL_4V88_424
NA
IL_3J7A_0331/A/801:809,
1/A/854:861		No text annotation
homologous
IL_4V88_425
NA
IL_3J7A_0341/A/827:835,
1/A/845:846		No text annotation
IL_3J7A_0351/A/877:880,
1/A/922:926		No text annotation
IL_3J7A_0361/A/881:883,
1/A/919:921		Isolated non-canonical cWW pair
geometric
IL_5TBW_008
NA
IL_3J7A_0371/A/883:886,
1/A/916:919		Tandem non-canonical cWW pairs
geometric
IL_1D4R_001
IL_85033.2
IL_3J7A_0381/A/886:888,
1/A/914:916		Isolated non-canonical cWW contact
geometric
IL_5UNE_001
IL_44465.1
IL_3J7A_0391/A/890:892,
1/A/910:912		Isolated non-canonical cWW pair
geometric
IL_6OL3_002
IL_87907.2
IL_3J7A_0401/A/933:934,
1/A/1031:1034		Major groove platform; stack outside cWW
homologous
IL_4V88_428
NA
IL_3J7A_0411/A/936:937,
1/A/1027:1029		Single bulged U
geometric
IL_6UFH_004
IL_89505.4
IL_3J7A_0421/A/939:942,
1/A/1023:1025		Isolated non-canonical cWW pair
geometric
IL_5MSF_001
IL_87907.2
IL_3J7A_0431/A/943:946,
1/A/1020:1022		Isolated non-canonical cWW pair
geometric
IL_3TD0_005
IL_57744.1
IL_3J7A_0441/A/954:957,
1/A/993:996		Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA
IL_3J7A_0451/A/962:968,
1/A/979:988		Kink-turn related
homologous
IL_8C3A_440
NA
IL_3J7A_0461/A/1054:1058,
1/A/1084:1085		Left turn
geometric
IL_5J7L_036
IL_29346.2
IL_3J7A_0471/A/1059:1063,
1/A/1079:1083		tSH-tHW-tHS
homologous
IL_4V88_436
NA
IL_3J7A_0481/A/1103:1105,
1/A/1196:1202		No text annotation
homologous
IL_4V88_437
NA
IL_3J7A_0491/A/1117:1119,
1/A/1169:1171		Isolated non-canonical cWW pair
geometric
IL_3SZX_002
IL_87907.2
IL_3J7A_0501/A/1212:1219,
1/A/1230:1235		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_3J7A_0511/A/1247:1248,
1/A/1927:1929		Single bulged A
homologous
IL_4V88_441
NA
IL_3J7A_0521/A/1250:1252,
1/A/1924:1925		Single bulged G
homologous
IL_4V88_442
NA
IL_3J7A_0531/A/1258:1261,
1/A/1914:1918		C-loop
homologous
IL_4V88_443
NA
IL_3J7A_0541/A/1274:1276,
1/A/1710:1712		Isolated non-canonical cWW pair
homologous
IL_4V88_444
NA
IL_3J7A_0551/A/1279:1280,
1/A/1705:1707		Minor groove platform
homologous
IL_4V88_445
NA
IL_3J7A_0561/A/1369:1371,
1/A/1686:1687		Single bulged U
homologous
IL_4V88_449
NA
IL_3J7A_0571/A/1373:1377,
1/A/1682:1684		Isolated cWS basepair
geometric
IL_4LFB_044
IL_76319.5
IL_3J7A_0841/A/1373:1379,
1/A/1676:1684		No text annotation
homologous
IL_8P9A_439
IL_86012.1
IL_3J7A_0581/A/1377:1379,
1/A/1676:1682		Minor groove platform with extra cWW
homologous
IL_4V88_451
NA
IL_3J7A_0591/A/1381:1382,
1/A/1672:1674		Single bulged A
homologous
IL_4V88_452
NA
IL_3J7A_0601/A/1408:1410,
1/A/1419:1420		Minor groove platform
homologous
IL_4V88_454
NA
IL_3J7A_0611/A/1440:1445,
1/A/1628:1632		No text annotation
IL_3J7A_0621/A/1447:1450,
1/A/1623:1626		No text annotation
IL_3J7A_0651/A/1635:1637,
1/A/1653:1658		No text annotation
homologous
IL_8C3A_465
NA
IL_3J7A_0851/A/1725:1733,
1/A/1815:1825		No text annotation
IL_3J7A_0661/A/1743:1745,
1/A/1784:1786		Isolated non-canonical cWW pair
geometric
IL_5CCB_001
IL_87907.2
IL_3J7A_0671/A/1791:1794,
1/A/1805:1808		Tandem non-canonical cWW pairs
homologous
IL_4V88_461
NA
IL_3J7A_0681/A/1837:1842,
1/A/1863:1868		No text annotation
geometric
IL_4V88_462
NA
IL_3J7A_0701/A/1933:1935,
1/A/2056:2059		No text annotation
geometric
IL_5J7L_058
IL_61438.4
IL_3J7A_0711/A/1935:1938,
1/A/2052:2056		No text annotation
homologous
IL_4V88_464
NA
IL_3J7A_0721/A/1939:1941,
1/A/2049:2051		Isolated non-canonical cWW pair
geometric
IL_4V88_465
NA
IL_3J7A_0731/A/1941:1943,
1/A/2046:2049		Isolated non-canonical cWW pair
geometric
IL_5J7L_009
IL_57744.1
IL_3J7A_0741/A/1947:1949,
1/A/2040:2042		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_3J7A_0751/A/1950:1953,
1/A/2036:2039		Double sheared
homologous
IL_4V88_468
NA
IL_3J7A_0761/A/1953:1955,
1/A/2035:2036		Single bulged U
geometric
IL_4V88_469
NA
IL_3J7A_0771/A/1962:1964,
1/A/2026:2028		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_3J7A_0781/A/1966:1969,
1/A/2021:2024		Double sheared
homologous
IL_4V88_471
NA
IL_3J7A_0791/A/1970:1972,
1/A/2018:2020		Isolated non-canonical cWW pair
geometric
IL_7A0S_107
IL_07785.1
IL_3J7A_0801/A/1975:1979,
1/A/2011:2015		Triple sheared
homologous
IL_4V88_474
NA
IL_3J7A_0811/A/1979:1983,
1/A/2007:2011		No text annotation
geometric
IL_5TBW_121
NA
IL_3J7A_0821/A/1983:1984,
1/A/2005:2007		Single stack bend
geometric
IL_4LFB_041
IL_90729.1

Problematic loops

#loop idProblemSequence
IL_3J7A_007No text annotation
IL_3J7A_012Isolated non-canonical cWW contact
IL_3J7A_013No text annotation
IL_3J7A_022C-loop with extra cWW pair
IL_3J7A_023No text annotation
IL_3J7A_030Tandem non-canonical cWW pairs
IL_3J7A_063No text annotation
IL_3J7A_064No text annotation
IL_3J7A_069Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_3J7A_0151/7/2:10,
1/7/24:50,
1/7/60:69		No text annotation
J3_3J7A_0121/A/41:42,
1/A/439:445,
1/A/470:472		No text annotation
geometric
J3_8C3A_082
NA
J3_3J7A_0161/A/41:48,
1/A/437:445,
1/A/470:472		No text annotation
homologous
J3_8P9A_069
J3_46317.4
J3_3J7A_0131/A/640:642,
1/A/929:933,
1/A/1034:1035		No text annotation
geometric
J3_4V88_080
NA
J3_3J7A_0171/A/640:642,
1/A/929:934,
1/A/1031:1035		No text annotation
homologous
J3_8P9A_072
J3_17385.4
J3_3J7A_0011/A/810:813,
1/A/823:825,
1/A/848:853		No text annotation
homologous
J3_4V88_032
NA
J3_3J7A_0021/A/950:953,
1/A/997:1005,
1/A/1012:1016		No text annotation
homologous
J3_4V88_033
NA
J3_3J7A_0031/A/1106:1108,
1/A/1180:1184,
1/A/1191:1195		No text annotation
J3_3J7A_0041/A/1262:1265,
1/A/1878:1884,
1/A/1906:1913		No text annotation
homologous
J3_4V88_035
NA
J3_3J7A_0051/A/1269:1272,
1/A/1714:1716,
1/A/1871:1874		No text annotation
homologous
J3_4V88_036
NA
J3_3J7A_0061/A/1281:1288,
1/A/1299:1310,
1/A/1700:1704		No text annotation
homologous
J3_8C3A_040
NA
J3_3J7A_0071/A/1316:1321,
1/A/1364:1368,
1/A/1688:1694		No text annotation
homologous
J3_4V88_038
NA
J3_3J7A_0181/A/1384:1389,
1/A/1429:1434,
1/A/1665:1670		No text annotation
homologous
J3_8P9A_080
J3_99563.1
J3_3J7A_0141/A/1394:1395,
1/A/1405:1408,
1/A/1420:1424		No text annotation
homologous
J3_8C3A_085
NA
J3_3J7A_0091/A/1438:1440,
1/A/1632:1635,
1/A/1658:1661		No text annotation
homologous
J3_4V88_040
NA
J3_3J7A_0191/A/1438:1440,
1/A/1632:1637,
1/A/1653:1661		No text annotation
homologous
J3_8C3A_086
NA
J3_3J7A_0101/A/1716:1720,
1/A/1830:1837,
1/A/1868:1871		No text annotation
homologous
J3_4V88_041
NA
J4_3J7A_0011/A/101:109,
1/A/313:315,
1/A/363:367,
1/A/389:390		No text annotation
homologous
J4_8P9A_021
J4_15241.1
J4_3J7A_0021/A/629:631,
1/A/1044:1049,
1/A/1090:1101,
1/A/1204:1205		No text annotation
homologous
J4_8P9A_022
J4_61885.6
J5_3J7A_0011/A/31:35,
1/A/479:485,
1/A/516:521,
1/A/550:553,
1/A/599:602		No text annotation
homologous
J5_8C3A_018
NA
J5_3J7A_0041/A/31:35,
1/A/479:485,
1/A/516:523,
1/A/543:553,
1/A/599:602		No text annotation
J5_3J7A_0031/A/54:57,
1/A/92:99,
1/A/392:394,
1/A/415:417,
1/A/428:432		No text annotation
homologous
J5_8C3A_020
NA
J5_3J7A_0051/A/643:648,
1/A/752:755,
1/A/792:793,
1/A/871:880,
1/A/922:928		No text annotation

Problematic loops

#loop idProblemSequence
J3_3J7A_008No text annotation
J3_3J7A_011No text annotation
J5_3J7A_002No text annotation

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