3J7A Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
HL_3J7A_035 | 1/7/11:23 | No text annotation | homologous HL_4WT8_218 NA | |
HL_3J7A_036 | 1/7/27:40 | No text annotation | ||
HL_3J7A_038 | 1/7/51:59 | T-loop with 2 stacked bulged bases | homologous HL_3TUP_003 HL_28252.6 | |
HL_3J7A_001 | 1/A/7:17 | No text annotation | homologous HL_4V88_186 NA | |
HL_3J7A_002 | 1/A/152:158 | GNRA | geometric HL_7RQB_047 NA | |
HL_3J7A_004 | 1/A/245:252 | T-loop with 1 bulged base | geometric HL_4V88_191 NA | |
HL_3J7A_006 | 1/A/336:344 | GNRA related | homologous HL_4V88_193 NA | |
HL_3J7A_007 | 1/A/374:379 | GNRA | geometric HL_3RG5_007 HL_37824.7 | |
HL_3J7A_008 | 1/A/399:410 | No text annotation | homologous HL_4V88_195 NA | |
HL_3J7A_009 | 1/A/420:425 | UNCG | homologous HL_4V88_196 NA | |
HL_3J7A_010 | 1/A/456:462 | No text annotation | homologous HL_4V88_197 NA | |
HL_3J7A_012 | 1/A/528:538 | No text annotation | geometric HL_4UYK_001 HL_36684.4 | |
HL_3J7A_013 | 1/A/576:581 | GNRA variation | homologous HL_4V88_200 NA | |
HL_3J7A_015 | 1/A/814:822 | No text annotation | homologous HL_4V88_203 NA | |
HL_3J7A_018 | 1/A/969:978 | No text annotation | homologous HL_4V88_206 NA | |
HL_3J7A_019 | 1/A/1006:1011 | GNRA | homologous HL_4V88_207 NA | |
HL_3J7A_020 | 1/A/1066:1076 | No text annotation | homologous HL_4V88_208 NA | |
HL_3J7A_021 | 1/A/1185:1190 | GNRA | homologous HL_4V88_210 NA | |
HL_3J7A_022 | 1/A/1222:1227 | GNRA | homologous HL_4V88_211 NA | |
HL_3J7A_023 | 1/A/1289:1298 | No text annotation | homologous HL_4V88_212 NA | |
HL_3J7A_026 | 1/A/1411:1418 | No text annotation | homologous HL_4V88_215 NA | |
HL_3J7A_028 | 1/A/1642:1648 | GNRA | homologous HL_4V88_217 NA | |
HL_3J7A_030 | 1/A/1797:1802 | GNRA | homologous HL_4V88_218 NA | |
HL_3J7A_031 | 1/A/1847:1858 | No text annotation | homologous HL_4V88_219 NA | |
HL_3J7A_032 | 1/A/1891:1899 | No text annotation | homologous HL_4V88_220 NA | |
HL_3J7A_034 | 1/A/2070:2075 | GNRA variation | homologous HL_4V88_222 NA |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
HL_3J7A_037 | No text annotation | ||
HL_3J7A_003 | No text annotation | ||
HL_3J7A_005 | No text annotation | ||
HL_3J7A_011 | No text annotation | ||
HL_3J7A_014 | No text annotation | ||
HL_3J7A_016 | No text annotation | ||
HL_3J7A_017 | No text annotation | ||
HL_3J7A_024 | No text annotation | ||
HL_3J7A_025 | Externally structured | ||
HL_3J7A_027 | No text annotation | ||
HL_3J7A_029 | No text annotation | ||
HL_3J7A_033 | No text annotation |
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
IL_3J7A_083 | 1/7/25:27, 1/7/40:42 | Isolated non-canonical cWW pair | geometric IL_4ZC7_001 IL_87907.2 | |
IL_3J7A_001 | 1/A/24:26, 1/A/607:608 | Single bulged C | homologous IL_4V88_384 NA | |
IL_3J7A_002 | 1/A/37:41, 1/A/472:477 | Triple sheared related | homologous IL_4V88_386 NA | |
IL_3J7A_003 | 1/A/42:48, 1/A/437:439 | No text annotation | homologous IL_4V88_387 NA | |
IL_3J7A_004 | 1/A/50:52, 1/A/434:435 | Minor groove platform | homologous IL_4V88_388 NA | |
IL_3J7A_005 | 1/A/58:63, 1/A/89:91 | No text annotation | ||
IL_3J7A_006 | 1/A/64:68, 1/A/84:88 | No text annotation | homologous IL_4V88_390 NA | |
IL_3J7A_008 | 1/A/111:114, 1/A/308:311 | Tandem non-canonical cWW pairs | homologous IL_4V88_391 NA | |
IL_3J7A_009 | 1/A/115:118, 1/A/306:307 | Multiple bulged bases | homologous IL_4V88_392 NA | |
IL_3J7A_010 | 1/A/119:123, 1/A/302:305 | UAA/GAN variation | geometric IL_3LOA_001 IL_64231.5 | |
IL_3J7A_011 | 1/A/141:147, 1/A/163:170 | tWH-tWH-tHW-tHW | homologous IL_4V88_394 NA | |
IL_3J7A_014 | 1/A/266:268, 1/A/294:295 | Single bulged A | homologous IL_4V88_399 NA | |
IL_3J7A_015 | 1/A/270:272, 1/A/291:292 | No text annotation | ||
IL_3J7A_016 | 1/A/317:322, 1/A/354:361 | Kink-turn with non-sequential stacking | homologous IL_4V88_402 NA | |
IL_3J7A_017 | 1/A/324:329, 1/A/351:352 | No text annotation | geometric IL_5Y58_001 IL_59877.1 | |
IL_3J7A_018 | 1/A/369:371, 1/A/382:387 | No text annotation | homologous IL_4V88_404 NA | |
IL_3J7A_019 | 1/A/395:397, 1/A/412:414 | Isolated cWH basepair | homologous IL_4V88_405 NA | |
IL_3J7A_020 | 1/A/417:419, 1/A/426:428 | Isolated near basepair | homologous IL_4V88_406 NA | |
IL_3J7A_021 | 1/A/445:447, 1/A/469:470 | Single bulged U | homologous IL_4V88_407 NA | |
IL_3J7A_086 | 1/A/449:453, 1/A/466:467 | No text annotation | homologous IL_8P9A_397 IL_03109.3 | |
IL_3J7A_087 | 1/A/453:454, 1/A/464:466 | Single bulged G | homologous IL_8P9A_398 IL_00225.13 | |
IL_3J7A_088 | 1/A/521:523, 1/A/543:550 | No text annotation | homologous IL_8CRE_418 IL_86136.1 | |
IL_3J7A_024 | 1/A/557:564, 1/A/594:595 | SSU/LSU pseudoknot | homologous IL_4V88_413 NA | |
IL_3J7A_025 | 1/A/564:566, 1/A/593:594 | Single bulged U | geometric IL_4V88_407 NA | |
IL_3J7A_026 | 1/A/569:575, 1/A/582:590 | Kink-turn related | homologous IL_4V88_415 NA | |
IL_3J7A_027 | 1/A/623:629, 1/A/1205:1206 | No text annotation | homologous IL_4V88_416 NA | |
IL_3J7A_028 | 1/A/631:633, 1/A/1042:1044 | Isolated non-canonical cWW pair | homologous IL_4V88_417 NA | |
IL_3J7A_029 | 1/A/634:638, 1/A/1037:1041 | tSH-tHW-tHS | homologous IL_4V88_418 NA | |
IL_3J7A_031 | 1/A/796:797, 1/A/865:868 | Minor groove platform | geometric IL_7RQB_073 NA | |
IL_3J7A_032 | 1/A/798:800, 1/A/862:864 | Isolated non-canonical cWW pair | homologous IL_4V88_424 NA | |
IL_3J7A_033 | 1/A/801:809, 1/A/854:861 | No text annotation | homologous IL_4V88_425 NA | |
IL_3J7A_034 | 1/A/827:835, 1/A/845:846 | No text annotation | ||
IL_3J7A_035 | 1/A/877:880, 1/A/922:926 | No text annotation | ||
IL_3J7A_036 | 1/A/881:883, 1/A/919:921 | Isolated non-canonical cWW pair | geometric IL_5TBW_008 NA | |
IL_3J7A_037 | 1/A/883:886, 1/A/916:919 | Tandem non-canonical cWW pairs | geometric IL_1D4R_001 IL_85033.2 | |
IL_3J7A_038 | 1/A/886:888, 1/A/914:916 | Isolated non-canonical cWW contact | geometric IL_5UNE_001 IL_44465.1 | |
IL_3J7A_039 | 1/A/890:892, 1/A/910:912 | Isolated non-canonical cWW pair | geometric IL_6OL3_002 IL_87907.2 | |
IL_3J7A_040 | 1/A/933:934, 1/A/1031:1034 | Major groove platform; stack outside cWW | homologous IL_4V88_428 NA | |
IL_3J7A_041 | 1/A/936:937, 1/A/1027:1029 | Single bulged U | geometric IL_6UFH_004 IL_89505.4 | |
IL_3J7A_042 | 1/A/939:942, 1/A/1023:1025 | Isolated non-canonical cWW pair | geometric IL_5MSF_001 IL_87907.2 | |
IL_3J7A_043 | 1/A/943:946, 1/A/1020:1022 | Isolated non-canonical cWW pair | geometric IL_3TD0_005 IL_57744.1 | |
IL_3J7A_044 | 1/A/954:957, 1/A/993:996 | Tandem non-canonical cWW pairs | homologous IL_4V88_432 NA | |
IL_3J7A_045 | 1/A/962:968, 1/A/979:988 | Kink-turn related | homologous IL_8C3A_440 NA | |
IL_3J7A_046 | 1/A/1054:1058, 1/A/1084:1085 | Left turn | geometric IL_5J7L_036 IL_29346.2 | |
IL_3J7A_047 | 1/A/1059:1063, 1/A/1079:1083 | tSH-tHW-tHS | homologous IL_4V88_436 NA | |
IL_3J7A_048 | 1/A/1103:1105, 1/A/1196:1202 | No text annotation | homologous IL_4V88_437 NA | |
IL_3J7A_049 | 1/A/1117:1119, 1/A/1169:1171 | Isolated non-canonical cWW pair | geometric IL_3SZX_002 IL_87907.2 | |
IL_3J7A_050 | 1/A/1212:1219, 1/A/1230:1235 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_4V88_440 NA | |
IL_3J7A_051 | 1/A/1247:1248, 1/A/1927:1929 | Single bulged A | homologous IL_4V88_441 NA | |
IL_3J7A_052 | 1/A/1250:1252, 1/A/1924:1925 | Single bulged G | homologous IL_4V88_442 NA | |
IL_3J7A_053 | 1/A/1258:1261, 1/A/1914:1918 | C-loop | homologous IL_4V88_443 NA | |
IL_3J7A_054 | 1/A/1274:1276, 1/A/1710:1712 | Isolated non-canonical cWW pair | homologous IL_4V88_444 NA | |
IL_3J7A_055 | 1/A/1279:1280, 1/A/1705:1707 | Minor groove platform | homologous IL_4V88_445 NA | |
IL_3J7A_056 | 1/A/1369:1371, 1/A/1686:1687 | Single bulged U | homologous IL_4V88_449 NA | |
IL_3J7A_057 | 1/A/1373:1377, 1/A/1682:1684 | Isolated cWS basepair | geometric IL_4LFB_044 IL_76319.5 | |
IL_3J7A_084 | 1/A/1373:1379, 1/A/1676:1684 | No text annotation | homologous IL_8P9A_439 IL_86012.1 | |
IL_3J7A_058 | 1/A/1377:1379, 1/A/1676:1682 | Minor groove platform with extra cWW | homologous IL_4V88_451 NA | |
IL_3J7A_059 | 1/A/1381:1382, 1/A/1672:1674 | Single bulged A | homologous IL_4V88_452 NA | |
IL_3J7A_060 | 1/A/1408:1410, 1/A/1419:1420 | Minor groove platform | homologous IL_4V88_454 NA | |
IL_3J7A_061 | 1/A/1440:1445, 1/A/1628:1632 | No text annotation | ||
IL_3J7A_062 | 1/A/1447:1450, 1/A/1623:1626 | No text annotation | ||
IL_3J7A_065 | 1/A/1635:1637, 1/A/1653:1658 | No text annotation | homologous IL_8C3A_465 NA | |
IL_3J7A_085 | 1/A/1725:1733, 1/A/1815:1825 | No text annotation | ||
IL_3J7A_066 | 1/A/1743:1745, 1/A/1784:1786 | Isolated non-canonical cWW pair | geometric IL_5CCB_001 IL_87907.2 | |
IL_3J7A_067 | 1/A/1791:1794, 1/A/1805:1808 | Tandem non-canonical cWW pairs | homologous IL_4V88_461 NA | |
IL_3J7A_068 | 1/A/1837:1842, 1/A/1863:1868 | No text annotation | geometric IL_4V88_462 NA | |
IL_3J7A_070 | 1/A/1933:1935, 1/A/2056:2059 | No text annotation | geometric IL_5J7L_058 IL_61438.4 | |
IL_3J7A_071 | 1/A/1935:1938, 1/A/2052:2056 | No text annotation | homologous IL_4V88_464 NA | |
IL_3J7A_072 | 1/A/1939:1941, 1/A/2049:2051 | Isolated non-canonical cWW pair | geometric IL_4V88_465 NA | |
IL_3J7A_073 | 1/A/1941:1943, 1/A/2046:2049 | Isolated non-canonical cWW pair | geometric IL_5J7L_009 IL_57744.1 | |
IL_3J7A_074 | 1/A/1947:1949, 1/A/2040:2042 | Isolated non-canonical cWW pair | homologous IL_4V88_467 NA | |
IL_3J7A_075 | 1/A/1950:1953, 1/A/2036:2039 | Double sheared | homologous IL_4V88_468 NA | |
IL_3J7A_076 | 1/A/1953:1955, 1/A/2035:2036 | Single bulged U | geometric IL_4V88_469 NA | |
IL_3J7A_077 | 1/A/1962:1964, 1/A/2026:2028 | Isolated non-canonical cWW pair | homologous IL_4V88_470 NA | |
IL_3J7A_078 | 1/A/1966:1969, 1/A/2021:2024 | Double sheared | homologous IL_4V88_471 NA | |
IL_3J7A_079 | 1/A/1970:1972, 1/A/2018:2020 | Isolated non-canonical cWW pair | geometric IL_7A0S_107 IL_07785.1 | |
IL_3J7A_080 | 1/A/1975:1979, 1/A/2011:2015 | Triple sheared | homologous IL_4V88_474 NA | |
IL_3J7A_081 | 1/A/1979:1983, 1/A/2007:2011 | No text annotation | geometric IL_5TBW_121 NA | |
IL_3J7A_082 | 1/A/1983:1984, 1/A/2005:2007 | Single stack bend | geometric IL_4LFB_041 IL_90729.1 |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
IL_3J7A_007 | No text annotation | ||
IL_3J7A_012 | Isolated non-canonical cWW contact | ||
IL_3J7A_013 | No text annotation | ||
IL_3J7A_022 | C-loop with extra cWW pair | ||
IL_3J7A_023 | No text annotation | ||
IL_3J7A_030 | Tandem non-canonical cWW pairs | ||
IL_3J7A_063 | No text annotation | ||
IL_3J7A_064 | No text annotation | ||
IL_3J7A_069 | Isolated non-canonical cWW pair |
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
J3_3J7A_015 | 1/7/2:10, 1/7/24:50, 1/7/60:69 | No text annotation | ||
J3_3J7A_012 | 1/A/41:42, 1/A/439:445, 1/A/470:472 | No text annotation | geometric J3_8C3A_082 NA | |
J3_3J7A_016 | 1/A/41:48, 1/A/437:445, 1/A/470:472 | No text annotation | homologous J3_8P9A_069 J3_46317.4 | |
J3_3J7A_013 | 1/A/640:642, 1/A/929:933, 1/A/1034:1035 | No text annotation | geometric J3_4V88_080 NA | |
J3_3J7A_017 | 1/A/640:642, 1/A/929:934, 1/A/1031:1035 | No text annotation | homologous J3_8P9A_072 J3_17385.4 | |
J3_3J7A_001 | 1/A/810:813, 1/A/823:825, 1/A/848:853 | No text annotation | homologous J3_4V88_032 NA | |
J3_3J7A_002 | 1/A/950:953, 1/A/997:1005, 1/A/1012:1016 | No text annotation | homologous J3_4V88_033 NA | |
J3_3J7A_003 | 1/A/1106:1108, 1/A/1180:1184, 1/A/1191:1195 | No text annotation | ||
J3_3J7A_004 | 1/A/1262:1265, 1/A/1878:1884, 1/A/1906:1913 | No text annotation | homologous J3_4V88_035 NA | |
J3_3J7A_005 | 1/A/1269:1272, 1/A/1714:1716, 1/A/1871:1874 | No text annotation | homologous J3_4V88_036 NA | |
J3_3J7A_006 | 1/A/1281:1288, 1/A/1299:1310, 1/A/1700:1704 | No text annotation | homologous J3_8C3A_040 NA | |
J3_3J7A_007 | 1/A/1316:1321, 1/A/1364:1368, 1/A/1688:1694 | No text annotation | homologous J3_4V88_038 NA | |
J3_3J7A_018 | 1/A/1384:1389, 1/A/1429:1434, 1/A/1665:1670 | No text annotation | homologous J3_8P9A_080 J3_99563.1 | |
J3_3J7A_014 | 1/A/1394:1395, 1/A/1405:1408, 1/A/1420:1424 | No text annotation | homologous J3_8C3A_085 NA | |
J3_3J7A_009 | 1/A/1438:1440, 1/A/1632:1635, 1/A/1658:1661 | No text annotation | homologous J3_4V88_040 NA | |
J3_3J7A_019 | 1/A/1438:1440, 1/A/1632:1637, 1/A/1653:1661 | No text annotation | homologous J3_8C3A_086 NA | |
J3_3J7A_010 | 1/A/1716:1720, 1/A/1830:1837, 1/A/1868:1871 | No text annotation | homologous J3_4V88_041 NA | |
J4_3J7A_001 | 1/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_002 | 1/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_001 | 1/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_004 | 1/A/31:35, 1/A/479:485, 1/A/516:523, 1/A/543:553, 1/A/599:602 | No text annotation | ||
J5_3J7A_003 | 1/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_005 | 1/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 id | Problem | Sequence |
---|---|---|---|
J3_3J7A_008 | No text annotation | ||
J3_3J7A_011 | No text annotation | ||
J5_3J7A_002 | No text annotation |
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