4V9F Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
HL_4V9F_001 | 1/0/55:64 | No text annotation HL_99167.1 | ||
HL_4V9F_002 | 1/0/83:91 | No text annotation HL_96598.1 | ||
HL_4V9F_003 | 1/0/118:122 | No text annotation HL_52841.1 | ||
HL_4V9F_004 | 1/0/125:129 | No text annotation HL_89098.1 | ||
HL_4V9F_005 | 1/0/136:142 | No text annotation HL_03562.2 | ||
HL_4V9F_006 | 1/0/164:171 | No text annotation HL_06192.2 | ||
HL_4V9F_007 | 1/0/195:201 | No text annotation HL_85680.1 | ||
HL_4V9F_008 | 1/0/217:223 | No text annotation HL_67216.7 | ||
HL_4V9F_009 | 1/0/252:257 | GNRA HL_42097.1 | ||
HL_4V9F_010 | 1/0/312:319 | T-loop with 1 bulged base HL_89380.2 | ||
HL_4V9F_011 | 1/0/326:330 | No text annotation HL_75407.1 | ||
HL_4V9F_012 | 1/0/334:342 | No text annotation HL_08002.8 | ||
HL_4V9F_013 | 1/0/390:399 | No text annotation HL_71554.2 | ||
HL_4V9F_014 | 1/0/416:424 | No text annotation HL_12078.2 | ||
HL_4V9F_015 | 1/0/468:473 | GNRA HL_42097.1 | ||
HL_4V9F_016 | 1/0/493:499 | GNRA with one bulged base HL_42097.1 | ||
HL_4V9F_017 | 1/0/576:581 | GNRA HL_42097.1 | ||
HL_4V9F_018 | 1/0/623:632 | No text annotation Not in a motif group | ||
HL_4V9F_019 | 1/0/670:676 | No text annotation HL_90617.2 | ||
HL_4V9F_020 | 1/0/690:695 | GNRA HL_42097.1 | ||
HL_4V9F_021 | 1/0/712:716 | No text annotation HL_53837.1 | ||
HL_4V9F_022 | 1/0/733:738 | Other HL HL_30784.2 | ||
HL_4V9F_023 | 1/0/804:809 | GNRA HL_42097.1 | ||
HL_4V9F_024 | 1/0/837:846 | No text annotation HL_39334.6 | ||
HL_4V9F_025 | 1/0/872:878 | No text annotation HL_74322.1 | ||
HL_4V9F_026 | 1/0/919:924 | No text annotation HL_64365.1 | ||
HL_4V9F_028 | 1/0/1054:1060 | GNRA HL_42097.1 | ||
HL_4V9F_029 | 1/0/1076:1083 | No text annotation HL_64430.2 | ||
HL_4V9F_032 | 1/0/1274:1282 | No text annotation HL_49288.1 | ||
HL_4V9F_033 | 1/0/1326:1331 | GNRA HL_42097.1 | ||
HL_4V9F_034 | 1/0/1387:1395 | T-loop with 2 stacked bulged bases HL_89380.2 | ||
HL_4V9F_035 | 1/0/1430:1436 | No text annotation HL_46680.1 | ||
HL_4V9F_036 | 1/0/1468:1474 | GNRA HL_42097.1 | ||
HL_4V9F_037 | 1/0/1498:1507 | No text annotation HL_69023.2 | ||
HL_4V9F_038 | 1/0/1557:1564 | No text annotation HL_60812.1 | ||
HL_4V9F_039 | 1/0/1594:1600 | Other HL HL_27930.1 | ||
HL_4V9F_040 | 1/0/1628:1633 | GNRA HL_42097.1 | ||
HL_4V9F_041 | 1/0/1651:1655 | No text annotation HL_49678.1 | ||
HL_4V9F_042 | 1/0/1687:1694 | No text annotation HL_64430.2 | ||
HL_4V9F_043 | 1/0/1705:1713 | No text annotation HL_84085.2 | ||
HL_4V9F_044 | 1/0/1769:1774 | UNCG HL_03562.2 | ||
HL_4V9F_045 | 1/0/1793:1799 | GNRA HL_42097.1 | ||
HL_4V9F_046 | 1/0/1808:1812 | No text annotation HL_76539.2 | ||
HL_4V9F_047 | 1/0/1833:1843 | No text annotation HL_43613.5 | ||
HL_4V9F_048 | 1/0/1862:1867 | GNRA HL_42097.1 | ||
HL_4V9F_049 | 1/0/1916:1923 | No text annotation HL_84085.2 | ||
HL_4V9F_051 | 1/0/1990:1998 | No text annotation HL_51824.1 | ||
HL_4V9F_052 | 1/0/2068:2077 | No text annotation HL_90642.6 | ||
HL_4V9F_054 | 1/0/2248:2253 | GNRA HL_42097.1 | ||
HL_4V9F_055 | 1/0/2281:2289 | No text annotation HL_53171.2 | ||
HL_4V9F_056 | 1/0/2298:2310 | No text annotation HL_19870.6 | ||
HL_4V9F_057 | 1/0/2338:2346 | No text annotation HL_76406.4 | ||
HL_4V9F_058 | 1/0/2358:2365 | No text annotation HL_12078.2 | ||
HL_4V9F_059 | 1/0/2389:2399 | No text annotation HL_20146.1 | ||
HL_4V9F_060 | 1/0/2411:2416 | GNRA HL_42097.1 | ||
HL_4V9F_061 | 1/0/2442:2450 | No text annotation HL_12078.2 | ||
HL_4V9F_062 | 1/0/2506:2514 | No text annotation HL_06192.2 | ||
HL_4V9F_063 | 1/0/2563:2570 | No text annotation HL_88526.2 | ||
HL_4V9F_064 | 1/0/2585:2593 | No text annotation Not in a motif group | ||
HL_4V9F_065 | 1/0/2629:2634 | GNRA HL_42097.1 | ||
HL_4V9F_066 | 1/0/2695:2700 | GNRA HL_42097.1 | ||
HL_4V9F_067 | 1/0/2737:2742 | Ribsomal LSU H95 HL_46680.1 | ||
HL_4V9F_068 | 1/0/2780:2794 | No text annotation HL_56677.7 | ||
HL_4V9F_069 | 1/0/2836:2844 | No text annotation HL_27930.1 | ||
HL_4V9F_070 | 1/0/2876:2881 | GNRA HL_42097.1 | ||
HL_4V9F_071 | 1/9/37:43 | No text annotation HL_87939.1 | ||
HL_4V9F_072 | 1/9/89:94 | GNRA HL_42097.1 |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
HL_4V9F_027 | No text annotation | ||
HL_4V9F_030 | No text annotation | ||
HL_4V9F_031 | No text annotation | ||
HL_4V9F_050 | No text annotation | ||
HL_4V9F_053 | No text annotation |
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
IL_4V9F_001 | 1/0/21:27, 1/0/516:522 | Triple sheared with non-canonical cWW IL_66414.6 | ||
IL_4V9F_002 | 1/0/33:34, 1/0/448:450 | Single bulged A IL_37497.2 | ||
IL_4V9F_003 | 1/0/39:41, 1/0/440:443 | Major groove platform with extra cWW IL_18471.2 | ||
IL_4V9F_004 | 1/0/77:81, 1/0/93:100 | Kink-turn IL_70923.2 | ||
IL_4V9F_005 | 1/0/153:154, 1/0/182:184 | Single stack bend IL_76488.2 | ||
IL_4V9F_006 | 1/0/158:164, 1/0/171:178 | 8x7 Sarcin-Ricin; G-bulge IL_04346.7 | ||
IL_4V9F_007 | 1/0/210:216, 1/0/224:229 | 7x6 Sarcin-Ricin; G-bulge IL_76042.2 | ||
IL_4V9F_008 | 1/0/245:248, 1/0/265:266 | Major groove platform; stack outside cWW IL_50694.2 | ||
IL_4V9F_009 | 1/0/248:249, 1/0/260:265 | No text annotation IL_19724.2 | ||
IL_4V9F_010 | 1/0/274:275, 1/0/374:376 | Single bulged G IL_00225.2 | ||
IL_4V9F_011 | 1/0/280:287, 1/0/365:369 | No text annotation IL_77870.1 | ||
IL_4V9F_012 | 1/0/290:296, 1/0/355:362 | 8x7 Sarcin-Ricin with CC bifurcated pair; G-bulge IL_59724.1 | ||
IL_4V9F_013 | 1/0/307:309, 1/0/322:323 | Single bulged U IL_83039.13 | ||
IL_4V9F_014 | 1/0/487:491, 1/0/501:515 | No text annotation IL_31504.1 | ||
IL_4V9F_015 | 1/0/548:553, 1/0/606:608 | No text annotation IL_59302.1 | ||
IL_4V9F_016 | 1/0/554:555, 1/0/602:605 | No text annotation IL_48100.2 | ||
IL_4V9F_017 | 1/0/558:560, 1/0/597:599 | No text annotation IL_95997.1 | ||
IL_4V9F_018 | 1/0/562:567, 1/0/591:595 | Triple sheared related IL_64879.2 | ||
IL_4V9F_019 | 1/0/567:572, 1/0/585:591 | 7x6 Sarcin-Ricin; G-bulge IL_16458.1 | ||
IL_4V9F_020 | 1/0/663:667, 1/0/679:683 | AAA cross-strand stack IL_17136.1 | ||
IL_4V9F_021 | 1/0/699:702, 1/0/726:727 | Multiple bulged bases IL_76389.1 | ||
IL_4V9F_022 | 1/0/705:709, 1/0/719:723 | tSH-tHW-tHS IL_17136.1 | ||
IL_4V9F_023 | 1/0/763:765, 1/0/899:901 | No text annotation IL_95997.1 | ||
IL_4V9F_024 | 1/0/765:769, 1/0/892:899 | tHW-tHW cross-strand stack IL_17470.6 | ||
IL_4V9F_025 | 1/0/788:789, 1/0/856:858 | Single bulged A IL_37497.2 | ||
IL_4V9F_026 | 1/0/793:794, 1/0/819:821 | Single bulged G IL_00225.2 | ||
IL_4V9F_027 | 1/0/794:798, 1/0/815:819 | Triple sheared IL_56467.8 | ||
IL_4V9F_028 | 1/0/830:833, 1/0/849:851 | Major groove platform with extra cWW IL_05564.2 | ||
IL_4V9F_029 | 1/0/834:836, 1/0/847:848 | Single bulged U IL_83039.13 | ||
IL_4V9F_030 | 1/0/868:870, 1/0/880:884 | Multiple bulged bases IL_90991.6 | ||
IL_4V9F_031 | 1/0/936:940, 1/0/1026:1034 | Kink-turn IL_45067.2 | ||
IL_4V9F_032 | 1/0/942:944, 1/0/1023:1024 | Single bulged A IL_37497.2 | ||
IL_4V9F_033 | 1/0/952:956, 1/0/1011:1015 | 5x5 Sarcin-Ricin with intercalated A; G-bulge IL_38862.1 | ||
IL_4V9F_034 | 1/0/956:957, 1/0/1009:1011 | Minor groove platform IL_42622.2 | ||
IL_4V9F_035 | 1/0/958:964, 1/0/1004:1008 | No text annotation IL_21121.1 | ||
IL_4V9F_036 | 1/0/965:968, 1/0/1000:1003 | No text annotation IL_45371.1 | ||
IL_4V9F_037 | 1/0/1095:1099, 1/0/1257:1261 | UAA/GAN IL_89002.2 | ||
IL_4V9F_038 | 1/0/1101:1108, 1/0/1254:1255 | SSU/LSU pseudoknot IL_15861.7 | ||
IL_4V9F_039 | 1/0/1108:1110, 1/0/1253:1254 | Single bulged U IL_83039.13 | ||
IL_4V9F_040 | 1/0/1115:1121, 1/0/1243:1248 | No text annotation IL_57188.3 | ||
IL_4V9F_041 | 1/0/1136:1138, 1/0/1225:1226 | Single bulged G IL_00225.2 | ||
IL_4V9F_042 | 1/0/1147:1155, 1/0/1212:1216 | Kink-turn IL_90538.4 | ||
IL_4V9F_043 | 1/0/1163:1167, 1/0/1179:1183 | No text annotation IL_30542.3 | ||
IL_4V9F_044 | 1/0/1191:1194, 1/0/1205:1206 | Major groove platform IL_27635.1 | ||
IL_4V9F_045 | 1/0/1269:1270, 1/0/1286:1289 | No text annotation IL_44546.1 | ||
IL_4V9F_046 | 1/0/1301:1303, 1/0/1351:1354 | Isolated cWS basepair IL_52767.2 | ||
IL_4V9F_047 | 1/0/1303:1305, 1/0/1349:1351 | No text annotation IL_95997.1 | ||
IL_4V9F_048 | 1/0/1312:1319, 1/0/1338:1342 | Kink-turn IL_70923.2 | ||
IL_4V9F_049 | 1/0/1367:1373, 1/0/2052:2057 | 7x6 Sarcin-Ricin; G-bulge IL_76042.2 | ||
IL_4V9F_050 | 1/0/1416:1419, 1/0/1678:1679 | Major groove platform; stack outside cWW IL_50694.2 | ||
IL_4V9F_051 | 1/0/1425:1429, 1/0/1437:1439 | C-loop IL_63596.6 | ||
IL_4V9F_052 | 1/0/1456:1460, 1/0/1483:1489 | UAA/GAN IL_89002.2 | ||
IL_4V9F_053 | 1/0/1465:1467, 1/0/1475:1478 | No text annotation IL_46796.1 | ||
IL_4V9F_054 | 1/0/1521:1529, 1/0/1662:1665 | No text annotation IL_46559.1 | ||
IL_4V9F_055 | 1/0/1542:1546, 1/0/1639:1643 | tSH-tHW-tHS IL_17136.1 | ||
IL_4V9F_056 | 1/0/1570:1574, 1/0/1622:1627 | tSH-tHH-tHS IL_62654.1 | ||
IL_4V9F_057 | 1/0/1578:1583, 1/0/1612:1618 | No text annotation IL_34822.1 | ||
IL_4V9F_058 | 1/0/1587:1592, 1/0/1602:1608 | Kink-turn IL_60192.2 | ||
IL_4V9F_059 | 1/0/1728:1734, 1/0/2045:2047 | No text annotation IL_12566.2 | ||
IL_4V9F_060 | 1/0/1741:1743, 1/0/2036:2038 | Isolated tWW turn IL_54997.7 | ||
IL_4V9F_061 | 1/0/1744:1747, 1/0/2034:2035 | Major groove platform; stack outside cWW IL_50694.2 | ||
IL_4V9F_062 | 1/0/1747:1752, 1/0/2031:2034 | Intercalated tWH IL_82842.2 | ||
IL_4V9F_063 | 1/0/1764:1769, 1/0/1774:1780 | tSH-tSH-tHH-tHS IL_65969.2 | ||
IL_4V9F_064 | 1/0/1826:1827, 1/0/2021:2023 | Single bulged A IL_37497.2 | ||
IL_4V9F_065 | 1/0/1854:1860, 1/0/1869:1877 | Kink-turn related IL_17069.3 | ||
IL_4V9F_066 | 1/0/1893:1896, 1/0/1943:1944 | Major groove outside cWW, minor groove, intercalation pocket IL_88739.1 | ||
IL_4V9F_067 | 1/0/1897:1898, 1/0/1939:1942 | Major groove outside cWW, minor groove, intercalation pocket IL_16396.2 | ||
IL_4V9F_068 | 1/0/1902:1905, 1/0/1934:1935 | Major groove minor groove platform; mini C-loop IL_95601.3 | ||
IL_4V9F_069 | 1/0/1907:1913, 1/0/1926:1932 | No text annotation IL_36973.6 | ||
IL_4V9F_070 | 1/0/1974:1975, 1/0/2005:2008 | No text annotation IL_59677.2 | ||
IL_4V9F_071 | 1/0/1975:1986, 1/0/2002:2005 | No text annotation IL_81589.2 | ||
IL_4V9F_072 | 1/0/2090:2093, 1/0/2652:2654 | No text annotation IL_63450.2 | ||
IL_4V9F_073 | 1/0/2095:2097, 1/0/2647:2650 | No text annotation IL_54678.5 | ||
IL_4V9F_074 | 1/0/2108:2110, 1/0/2477:2478 | Single bulged U IL_83039.13 | ||
IL_4V9F_075 | 1/0/2111:2112, 1/0/2473:2476 | Minor groove platform IL_42622.2 | ||
IL_4V9F_076 | 1/0/2122:2124, 1/0/2269:2272 | Isolated tHS basepair with bulges IL_38958.7 | ||
IL_4V9F_077 | 1/0/2136:2138, 1/0/2237:2239 | Isolated near basepair IL_52767.2 | ||
IL_4V9F_079 | 1/0/2279:2280, 1/0/2290:2292 | Single bulged A IL_37497.2 | ||
IL_4V9F_080 | 1/0/2331:2333, 1/0/2351:2355 | Isolated tHS basepair with bulges IL_38958.7 | ||
IL_4V9F_081 | 1/0/2436:2438, 1/0/2454:2455 | Single stack bend IL_76488.2 | ||
IL_4V9F_082 | 1/0/2489:2490, 1/0/2531:2533 | Major groove platform IL_27635.1 | ||
IL_4V9F_083 | 1/0/2492:2494, 1/0/2528:2529 | Major groove platform IL_76223.2 | ||
IL_4V9F_084 | 1/0/2494:2496, 1/0/2524:2528 | Major groove minor groove platform with extra cWW IL_92788.2 | ||
IL_4V9F_085 | 1/0/2501:2505, 1/0/2515:2519 | Triple sheared IL_56467.8 | ||
IL_4V9F_086 | 1/0/2542:2543, 1/0/2615:2617 | Major groove platform IL_76223.2 | ||
IL_4V9F_087 | 1/0/2545:2547, 1/0/2609:2613 | Isolated non-canonical cWW with bulges IL_90933.2 | ||
IL_4V9F_088 | 1/0/2547:2548, 1/0/2606:2609 | Multiple bulged bases IL_71530.2 | ||
IL_4V9F_089 | 1/0/2557:2558, 1/0/2575:2578 | Minor groove platform with intercalation IL_95601.3 | ||
IL_4V9F_090 | 1/0/2626:2627, 1/0/2636:2638 | Single bulged A IL_37497.2 | ||
IL_4V9F_091 | 1/0/2672:2676, 1/0/2809:2817 | No text annotation IL_04638.1 | ||
IL_4V9F_092 | 1/0/2689:2695, 1/0/2700:2705 | Sarcin-Ricin target in LSU H95; G-bulge IL_76042.2 | ||
IL_4V9F_093 | 1/0/2717:2721, 1/0/2761:2763 | C-loop IL_63596.6 | ||
IL_4V9F_094 | 1/0/2724:2728, 1/0/2754:2758 | UAA/GAN IL_07235.1 | ||
IL_4V9F_095 | 1/0/2732:2733, 1/0/2746:2750 | No text annotation IL_71530.2 | ||
IL_4V9F_096 | 1/0/2772:2777, 1/0/2797:2802 | UAA/GAN with extra cWW IL_49767.5 | ||
IL_4V9F_097 | 1/0/2855:2857, 1/0/2900:2903 | Isolated non-canonical cWW with bulges IL_82068.2 | ||
IL_4V9F_098 | 1/0/2860:2861, 1/0/2895:2897 | Single bulged A IL_37497.2 | ||
IL_4V9F_099 | 1/0/2864:2869, 1/0/2888:2892 | No text annotation IL_83162.5 | ||
IL_4V9F_100 | 1/0/2873:2876, 1/0/2881:2884 | Double sheared IL_09705.9 | ||
IL_4V9F_101 | 1/9/15:16, 1/9/64:66 | Major groove intercalation IL_37497.2 | ||
IL_4V9F_102 | 1/9/21:28, 1/9/54:59 | No text annotation IL_10207.2 | ||
IL_4V9F_103 | 1/9/29:30, 1/9/50:53 | Major groove minor groove platform; mini C-loop IL_09061.6 | ||
IL_4V9F_104 | 1/9/33:37, 1/9/43:47 | Symmetric double minor groove platform IL_58103.6 | ||
IL_4V9F_105 | 1/9/72:74, 1/9/107:109 | No text annotation IL_95997.1 | ||
IL_4V9F_106 | 1/9/75:81, 1/9/101:106 | 7x6 Sarcin-Ricin; G-bulge IL_76042.2 | ||
IL_4V9F_107 | 1/9/86:88, 1/9/95:96 | Single bulged U IL_83039.13 |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
IL_4V9F_078 | No text annotation |
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
J3_4V9F_001 | 1/0/240:244, 1/0/267:273, 1/0/377:379 | No text annotation Not in a motif group | ||
J3_4V9F_002 | 1/0/774:780, 1/0/866:868, 1/0/884:887 | No text annotation Not in a motif group | ||
J3_4V9F_003 | 1/0/789:791, 1/0/823:828, 1/0/853:856 | No text annotation Not in a motif group | ||
J3_4V9F_004 | 1/0/1159:1161, 1/0/1185:1191, 1/0/1206:1208 | No text annotation Not in a motif group | ||
J3_4V9F_005 | 1/0/1404:1409, 1/0/1700:1703, 1/0/1715:1718 | No text annotation Not in a motif group | ||
J3_4V9F_006 | 1/0/1412:1415, 1/0/1680:1686, 1/0/1695:1697 | No text annotation Not in a motif group | ||
J3_4V9F_007 | 1/0/2131:2134, 1/0/2241:2245, 1/0/2256:2262 | No text annotation Not in a motif group | ||
J3_4V9F_008 | 1/0/2329:2331, 1/0/2355:2357, 1/0/2366:2371 | No text annotation Not in a motif group | ||
J3_4V9F_009 | 1/0/2552:2555, 1/0/2580:2583, 1/0/2595:2602 | No text annotation Not in a motif group | ||
J3_4V9F_010 | 1/9/9:14, 1/9/67:71, 1/9/110:114 | No text annotation Not in a motif group |
Problematic loops
No problematic loops
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