1Q81 Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
# | loop id | location | annotation (mapped to, source) | motif group (similar to) |
---|---|---|---|---|
1/A/55:64 | homologous HL_4V9F_001 | NA HL_55136.1* | ||
1/A/83:91 | homologous HL_4V9F_002 | NA HL_44769.1* | ||
1/A/118:122 | homologous HL_4V9F_003 | NA HL_94352.4* | ||
1/A/136:142 | homologous HL_4V9F_005 | NA HL_79299.11* | ||
1/A/164:171 | homologous HL_4V9F_006 | NA HL_23481.5* | ||
1/A/195:201 | homologous HL_4V9F_007 | NA HL_12053.1* | ||
1/A/217:223 | homologous HL_4V9F_008 | NA HL_67216.5* | ||
1/A/252:257 | GNRA homologous HL_4V9F_009 | NA HL_43074.18* | ||
1/A/312:319 | T-loop with 1 bulged base homologous HL_4V9F_010 | NA HL_68493.6* | ||
1/A/326:330 | homologous HL_4V9F_011 | NA HL_98557.5* | ||
1/A/334:342 | homologous HL_4V9F_012 | NA HL_08002.6* | ||
1/A/390:399 | homologous HL_4V9F_013 | NA HL_10536.1* | ||
1/A/416:424 | homologous HL_4V9F_014 | NA HL_46142.8* | ||
1/A/468:473 | GNRA homologous HL_4V9F_015 | NA HL_43074.18* | ||
1/A/493:499 | GNRA with one bulged base homologous HL_4V9F_016 | NA HL_02361.6* | ||
1/A/576:581 | GNRA homologous HL_4V9F_017 | NA HL_43074.18* | ||
1/A/623:632 | geometric HL_7RQB_018 | NA HL_33239.17* | ||
1/A/670:676 | homologous HL_4V9F_019 | NA HL_37407.2* | ||
1/A/690:695 | GNRA homologous HL_4V9F_020 | NA HL_43074.18* | ||
1/A/733:738 | Other HL homologous HL_4V9F_022 | NA HL_43074.18* | ||
1/A/804:809 | GNRA homologous HL_4V9F_023 | NA HL_43074.18* | ||
1/A/837:846 | homologous HL_4V9F_024 | NA HL_39334.5* | ||
1/A/872:878 | homologous HL_4V9F_025 | NA HL_16898.3* | ||
1/A/919:924 | homologous HL_4V9F_026 | NA HL_15942.5* | ||
1/A/1054:1060 | GNRA homologous HL_4V9F_028 | NA HL_43074.18* | ||
1/A/1076:1083 | homologous HL_4V9F_029 | NA HL_72451.5* | ||
1/A/1196:1203 | homologous HL_4V9F_031 | NA | ||
1/A/1274:1282 | homologous HL_4V9F_032 | NA HL_82851.1* | ||
1/A/1326:1331 | GNRA homologous HL_4V9F_033 | NA HL_43074.18* | ||
1/A/1387:1395 | T-loop with 2 stacked bulged bases homologous HL_4V9F_034 | NA HL_33239.17* | ||
1/A/1430:1436 | homologous HL_4V9F_035 | NA HL_86880.5* | ||
1/A/1468:1474 | GNRA homologous HL_4V9F_036 | NA HL_43074.18* | ||
1/A/1498:1507 | homologous HL_4V9F_037 | NA HL_78457.4* | ||
1/A/1594:1600 | Other HL homologous HL_4V9F_039 | NA HL_68493.6* | ||
1/A/1628:1633 | GNRA homologous HL_4V9F_040 | NA HL_43074.18* | ||
1/A/1651:1655 | homologous HL_4V9F_041 | NA HL_69353.7* | ||
1/A/1687:1694 | homologous HL_4V9F_042 | NA HL_66171.3* | ||
1/A/1705:1713 | homologous HL_4V9F_043 | NA HL_21000.1* | ||
1/A/1769:1774 | UNCG geometric HL_4V9F_044 | NA HL_79299.11* | ||
1/A/1793:1799 | GNRA homologous HL_4V9F_045 | NA HL_43074.18* | ||
1/A/1808:1812 | homologous HL_4V9F_046 | NA HL_79272.3* | ||
1/A/1833:1843 | homologous HL_4V9F_047 | NA HL_43613.4* | ||
1/A/1862:1867 | GNRA homologous HL_4V9F_048 | NA HL_43074.18* | ||
1/A/1916:1923 | homologous HL_4V9F_049 | NA HL_53760.4* | ||
1/A/1990:1998 | homologous HL_4V9F_051 | NA HL_53760.4* | ||
1/A/2068:2077 | homologous HL_4V9F_052 | NA HL_90642.5* | ||
1/A/2248:2253 | GNRA homologous HL_4V9F_054 | NA HL_43074.18* | ||
1/A/2281:2289 | homologous HL_4V9F_055 | NA HL_46891.3* | ||
1/A/2298:2310 | homologous HL_4V9F_056 | NA HL_19870.5* | ||
1/A/2358:2365 | homologous HL_4V9F_058 | NA HL_46142.8* | ||
1/A/2389:2399 | homologous HL_4V9F_059 | NA HL_72419.1* | ||
1/A/2411:2416 | GNRA homologous HL_4V9F_060 | NA HL_43074.18* | ||
1/A/2442:2450 | homologous HL_4V9F_061 | NA HL_46142.8* | ||
1/A/2506:2514 | homologous HL_4V9F_062 | NA HL_36421.5* | ||
1/A/2563:2570 | homologous HL_4V9F_063 | NA HL_92681.5* | ||
1/A/2585:2593 | NA | NA | ||
1/A/2629:2634 | GNRA homologous HL_4V9F_065 | NA HL_43074.18* | ||
1/A/2695:2700 | GNRA homologous HL_4V9F_066 | NA HL_43074.18* | ||
1/A/2737:2742 | Ribsomal LSU H95 homologous HL_4V9F_067 | NA HL_67719.1* | ||
1/A/2780:2794 | homologous HL_4V9F_068 | NA HL_56677.5* | ||
1/A/2836:2844 | homologous HL_4V9F_069 | NA HL_05018.6* | ||
1/A/2876:2881 | GNRA homologous HL_4V9F_070 | NA HL_43074.18* | ||
1/B/3037:3043 | NA | NA | ||
1/B/3089:3094 | NA | NA |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
HL_1Q81_004 | NA | ||
HL_1Q81_021 | homologous HL_4V9F_021 | ||
HL_1Q81_027 | NA | ||
HL_1Q81_030 | homologous HL_4V9F_030 | ||
HL_1Q81_038 | homologous HL_4V9F_038 | ||
HL_1Q81_050 | geometric HL_4V9F_011 | ||
HL_1Q81_053 | NA | ||
HL_1Q81_057 | NA |
Valid loops
# | loop id | location | annotation (mapped to, source) | motif group (similar to) |
---|---|---|---|---|
1/A/21:27, 1/A/516:522 | Triple sheared with non-canonical cWW homologous IL_4V9F_001 | NA IL_66414.5* | ||
1/A/33:34, 1/A/448:450 | Single bulged A homologous IL_4V9F_002 | NA IL_80007.16* | ||
1/A/39:41, 1/A/440:443 | Major groove platform with extra cWW homologous IL_4V9F_003 | NA IL_95485.6* | ||
1/A/77:81, 1/A/93:100 | Kink-turn homologous IL_4V9F_004 | NA IL_29549.9* | ||
1/A/153:154, 1/A/182:184 | Single stack bend homologous IL_4V9F_005 | NA IL_04038.4* | ||
1/A/158:164, 1/A/171:178 | 8x7 Sarcin-Ricin; G-bulge geometric IL_4V9F_006 | NA IL_04346.5* | ||
1/A/210:216, 1/A/224:229 | 7x6 Sarcin-Ricin; G-bulge homologous IL_4V9F_007 | NA IL_35110.5* | ||
1/A/245:248, 1/A/265:266 | Major groove platform; stack outside cWW homologous IL_4V9F_008 | NA IL_70995.6* | ||
1/A/248:249, 1/A/260:265 | geometric IL_4V9F_009 | NA IL_19724.1* | ||
1/A/274:275, 1/A/374:376 | Single bulged G homologous IL_4V9F_010 | NA IL_59137.10* | ||
1/A/280:287, 1/A/365:369 | NA | NA | ||
1/A/287:290, 1/A/362:365 | Tandem non-canonical cWW pairs geometric IL_6CZR_168 | NA IL_85877.10* | ||
1/A/290:296, 1/A/355:362 | 8x7 Sarcin-Ricin with CC bifurcated pair; G-bulge homologous IL_4V9F_012 | NA IL_59724.1* | ||
1/A/307:309, 1/A/322:323 | Single bulged U homologous IL_4V9F_013 | NA IL_83039.11* | ||
1/A/487:491, 1/A/501:515 | homologous IL_4V9F_014 | NA IL_31504.1* | ||
1/A/548:553, 1/A/606:608 | homologous IL_4V9F_015 | NA IL_02413.1* | ||
1/A/554:555, 1/A/602:605 | homologous IL_4V9F_016 | NA IL_55658.1* | ||
1/A/558:561, 1/A/596:599 | Tandem non-canonical cWW pairs geometric IL_4K27_001 | NA IL_85877.10* | ||
1/A/562:567, 1/A/591:595 | Triple sheared related geometric IL_4V9F_018 | NA IL_64879.1* | ||
1/A/567:572, 1/A/585:591 | 7x6 Sarcin-Ricin; G-bulge homologous IL_4V9F_019 | NA IL_35110.5* | ||
1/A/663:667, 1/A/679:683 | AAA cross-strand stack homologous IL_4V9F_020 | NA IL_56467.6* | ||
1/A/699:702, 1/A/726:727 | Multiple bulged bases homologous IL_4V9F_021 | NA IL_13730.12* | ||
1/A/705:709, 1/A/719:723 | tSH-tHW-tHS homologous IL_4V9F_022 | NA IL_39521.5* | ||
1/A/763:765, 1/A/899:901 | homologous IL_4V9F_023 | NA IL_01312.13* | ||
1/A/765:769, 1/A/892:899 | tHW-tHW cross-strand stack geometric IL_4V9F_024 | NA IL_17470.5* | ||
1/A/788:789, 1/A/856:858 | Single bulged A homologous IL_4V9F_025 | NA IL_80007.16* | ||
1/A/793:794, 1/A/819:821 | Single bulged G homologous IL_4V9F_026 | NA IL_59137.10* | ||
1/A/794:798, 1/A/815:819 | Triple sheared geometric IL_4V9F_027 | NA IL_56467.6* | ||
1/A/830:833, 1/A/849:851 | Major groove platform with extra cWW homologous IL_4V9F_028 | NA IL_95485.6* | ||
1/A/834:836, 1/A/847:848 | Single bulged U homologous IL_4V9F_029 | NA IL_83039.11* | ||
1/A/868:870, 1/A/880:884 | Multiple bulged bases homologous IL_4V9F_030 | NA IL_90991.5* | ||
1/A/936:940, 1/A/1026:1034 | Kink-turn homologous IL_4V9F_031 | NA IL_29549.9* | ||
1/A/942:944, 1/A/1023:1024 | Single bulged A homologous IL_4V9F_032 | NA IL_06437.11* | ||
1/A/952:956, 1/A/1011:1015 | 5x5 Sarcin-Ricin with intercalated A; G-bulge geometric IL_4V9F_033 | NA IL_83354.1* | ||
1/A/956:957, 1/A/1009:1011 | Minor groove platform homologous IL_4V9F_034 | NA IL_06437.11* | ||
1/A/958:964, 1/A/1004:1008 | homologous IL_4V9F_035 | NA IL_21121.1* | ||
1/A/965:968, 1/A/1000:1003 | homologous IL_4V9F_036 | NA IL_21570.1* | ||
1/A/1095:1099, 1/A/1257:1261 | UAA/GAN homologous IL_4V9F_037 | NA IL_53523.5* | ||
1/A/1101:1108, 1/A/1254:1255 | SSU/LSU pseudoknot geometric IL_4V9F_038 | NA IL_15861.6* | ||
1/A/1108:1110, 1/A/1253:1254 | Single bulged U homologous IL_4V9F_039 | NA IL_83039.11* | ||
1/A/1115:1121, 1/A/1243:1248 | homologous IL_4V9F_040 | NA IL_57188.3* | ||
1/A/1136:1138, 1/A/1225:1226 | Single bulged G homologous IL_4V9F_041 | NA IL_85053.1* | ||
1/A/1147:1155, 1/A/1212:1216 | Kink-turn homologous IL_4V9F_042 | NA IL_90538.3* | ||
1/A/1163:1167, 1/A/1179:1183 | homologous IL_4V9F_043 | NA IL_30542.1* | ||
1/A/1269:1270, 1/A/1286:1289 | homologous IL_4V9F_045 | NA IL_12418.1* | ||
1/A/1301:1303, 1/A/1351:1354 | Isolated cWS basepair homologous IL_4V9F_046 | NA IL_67621.5* | ||
1/A/1303:1305, 1/A/1349:1351 | geometric IL_4V9F_047 | NA IL_01312.13* | ||
1/A/1312:1319, 1/A/1338:1342 | Kink-turn homologous IL_4V9F_048 | NA IL_29549.9* | ||
1/A/1367:1373, 1/A/2052:2057 | 7x6 Sarcin-Ricin; G-bulge homologous IL_4V9F_049 | NA IL_35110.5* | ||
1/A/1416:1419, 1/A/1678:1679 | Major groove platform; stack outside cWW homologous IL_4V9F_050 | NA IL_70995.6* | ||
1/A/1425:1429, 1/A/1437:1439 | C-loop homologous IL_4V9F_051 | NA IL_63596.4* | ||
1/A/1456:1460, 1/A/1483:1489 | UAA/GAN homologous IL_4V9F_052 | NA IL_53523.5* | ||
1/A/1465:1467, 1/A/1475:1478 | homologous IL_4V9F_053 | NA IL_87332.1* | ||
1/A/1521:1529, 1/A/1662:1665 | homologous IL_4V9F_054 | NA IL_69457.1* | ||
1/A/1542:1546, 1/A/1639:1643 | tSH-tHW-tHS homologous IL_4V9F_055 | NA IL_39521.5* | ||
1/A/1570:1574, 1/A/1622:1627 | tSH-tHH-tHS homologous IL_4V9F_056 | NA IL_62654.1* | ||
1/A/1578:1583, 1/A/1612:1618 | homologous IL_4V9F_057 | NA IL_66497.1* | ||
1/A/1587:1592, 1/A/1602:1608 | Kink-turn homologous IL_4V9F_058 | NA IL_16456.1* | ||
1/A/1728:1734, 1/A/2045:2047 | homologous IL_4V9F_059 | NA IL_12566.2* | ||
1/A/1741:1743, 1/A/2036:2038 | Isolated tWW turn homologous IL_4V9F_060 | NA IL_54997.5* | ||
1/A/1744:1747, 1/A/2034:2035 | Major groove platform; stack outside cWW geometric IL_4V9F_061 | NA IL_70995.6* | ||
1/A/1747:1752, 1/A/2031:2034 | Intercalated tWH homologous IL_4V9F_062 | NA IL_01312.13* | ||
1/A/1764:1769, 1/A/1774:1780 | tSH-tSH-tHH-tHS homologous IL_4V9F_063 | NA IL_66584.5* | ||
1/A/1826:1827, 1/A/2021:2023 | Single bulged A homologous IL_4V9F_064 | NA IL_80007.16* | ||
1/A/1854:1860, 1/A/1869:1877 | Kink-turn related homologous IL_4V9F_065 | NA IL_17069.3* | ||
1/A/1893:1896, 1/A/1943:1944 | Major groove outside cWW, minor groove, intercalation pocket homologous IL_4V9F_066 | NA IL_31836.1* | ||
1/A/1897:1898, 1/A/1939:1942 | Major groove outside cWW, minor groove, intercalation pocket homologous IL_4V9F_067 | NA IL_13730.12* | ||
1/A/1902:1905, 1/A/1934:1935 | Major groove minor groove platform; mini C-loop homologous IL_4V9F_068 | NA IL_09061.4* | ||
1/A/1907:1913, 1/A/1926:1932 | homologous IL_4V9F_069 | NA IL_36973.5* | ||
1/A/1974:1975, 1/A/2005:2008 | geometric IL_4V9F_070 | NA IL_69632.1* | ||
1/A/1975:1986, 1/A/2002:2005 | homologous IL_4V9F_071 | NA IL_70285.1* | ||
1/A/2090:2093, 1/A/2652:2654 | homologous IL_4V9F_072 | NA IL_23663.4* | ||
1/A/2095:2097, 1/A/2647:2650 | homologous IL_4V9F_073 | NA IL_54678.3* | ||
1/A/2108:2110, 1/A/2477:2478 | Single bulged U homologous IL_4V9F_074 | NA IL_83039.11* | ||
1/A/2111:2112, 1/A/2473:2476 | Minor groove platform homologous IL_4V9F_075 | NA IL_06437.11* | ||
1/A/2122:2124, 1/A/2269:2272 | Isolated tHS basepair with bulges homologous IL_4V9F_076 | NA IL_38958.6* | ||
1/A/2279:2280, 1/A/2290:2292 | Single bulged A homologous IL_4V9F_079 | NA IL_80007.16* | ||
1/A/2331:2333, 1/A/2351:2355 | Isolated tHS basepair with bulges geometric IL_4V9F_080 | NA IL_38958.6* | ||
1/A/2436:2438, 1/A/2454:2455 | Single stack bend homologous IL_4V9F_081 | NA IL_04038.4* | ||
1/A/2489:2490, 1/A/2531:2533 | Major groove platform homologous IL_4V9F_082 | NA IL_80663.10* | ||
1/A/2492:2494, 1/A/2528:2529 | Major groove platform homologous IL_4V9F_083 | NA IL_95601.1* | ||
1/A/2494:2496, 1/A/2524:2528 | Major groove minor groove platform with extra cWW geometric IL_4V9F_084 | NA IL_96042.4* | ||
1/A/2501:2505, 1/A/2515:2519 | Triple sheared homologous IL_4V9F_085 | NA IL_56467.6* | ||
1/A/2542:2543, 1/A/2615:2617 | Major groove platform homologous IL_4V9F_086 | NA IL_02060.4* | ||
1/A/2545:2547, 1/A/2609:2613 | Isolated non-canonical cWW with bulges homologous IL_4V9F_087 | NA IL_55456.1* | ||
1/A/2547:2548, 1/A/2606:2609 | Multiple bulged bases geometric IL_4V9F_088 | NA IL_13730.12* | ||
1/A/2557:2558, 1/A/2575:2578 | Minor groove platform with intercalation homologous IL_4V9F_089 | NA IL_95601.1* | ||
1/A/2626:2627, 1/A/2636:2638 | Single bulged A geometric IL_5TBW_013 | NA IL_80007.16* | ||
1/A/2672:2676, 1/A/2809:2817 | tSH-tHS-tHW geometric IL_4WF9_099 | NA IL_34907.2* | ||
1/A/2689:2695, 1/A/2700:2705 | Sarcin-Ricin target in LSU H95; G-bulge geometric IL_4V9F_092 | NA IL_35110.5* | ||
1/A/2717:2721, 1/A/2761:2763 | C-loop homologous IL_4V9F_093 | NA IL_63596.4* | ||
1/A/2724:2728, 1/A/2754:2758 | UAA/GAN homologous IL_4V9F_094 | NA IL_53523.5* | ||
1/A/2732:2733, 1/A/2746:2750 | homologous IL_4V9F_095 | NA IL_75330.1* | ||
1/A/2772:2777, 1/A/2797:2802 | UAA/GAN with extra cWW geometric IL_5J7L_350 | NA IL_49767.4* | ||
1/A/2855:2857, 1/A/2900:2903 | Isolated non-canonical cWW with bulges homologous IL_4V9F_097 | NA IL_01312.13* | ||
1/A/2860:2861, 1/A/2895:2897 | Single bulged A homologous IL_4V9F_098 | NA IL_80007.16* | ||
1/A/2864:2869, 1/A/2888:2892 | homologous IL_4V9F_099 | NA IL_83162.3* | ||
1/A/2873:2876, 1/A/2881:2884 | Double sheared geometric IL_4V9F_100 | NA IL_09705.7* | ||
1/B/3015:3016, 1/B/3064:3066 | NA | NA | ||
1/B/3021:3028, 1/B/3054:3059 | NA | NA | ||
1/B/3029:3030, 1/B/3050:3053 | NA | NA | ||
1/B/3033:3037, 1/B/3043:3047 | NA | NA | ||
1/B/3075:3081, 1/B/3101:3106 | NA | NA | ||
1/B/3086:3088, 1/B/3095:3096 | NA | NA |
Problematic loops
No problematic loops
Valid loops
# | loop id | location | annotation (mapped to, source) | motif group (similar to) |
---|---|---|---|---|
1/A/240:244, 1/A/267:273, 1/A/377:379 | homologous J3_4V9F_001 | NA | ||
1/A/774:780, 1/A/866:868, 1/A/884:887 | NA | NA | ||
1/A/789:791, 1/A/823:828, 1/A/853:856 | NA | NA | ||
1/A/1159:1161, 1/A/1185:1194, 1/A/1205:1208 | NA | NA | ||
1/A/1404:1409, 1/A/1700:1703, 1/A/1715:1718 | homologous J3_4V9F_005 | NA | ||
1/A/1412:1415, 1/A/1680:1686, 1/A/1695:1697 | homologous J3_4V9F_006 | NA | ||
1/A/2131:2134, 1/A/2241:2245, 1/A/2256:2262 | homologous J3_4V9F_007 | NA | ||
1/A/2329:2331, 1/A/2355:2357, 1/A/2366:2371 | homologous J3_4V9F_008 | NA | ||
1/A/2552:2555, 1/A/2580:2583, 1/A/2595:2602 | homologous J3_4V9F_009 | NA | ||
1/B/3009:3014, 1/B/3067:3071, 1/B/3110:3114 | NA | NA |
Problematic loops
No problematic loops
Coloring options: