5APO Internal, Hairpin and 3-way Junction Loop Motifs
Valid loops
# | loop id | location | annotation (mapped to, source) | motif group (similar to) |
---|---|---|---|---|
1/5/38:45 | homologous HL_5TBW_113 | NA | ||
1/5/69:74 | homologous HL_5TBW_114 | NA | ||
1/5/90:96 | homologous HL_5TBW_115 | NA | ||
1/5/132:136 | homologous HL_5TBW_116 | NA | ||
1/5/194:201 | homologous HL_5TBW_117 | NA | ||
1/5/208:212 | homologous HL_5TBW_118 | NA | ||
1/5/216:224 | homologous HL_5TBW_119 | NA | ||
1/5/278:287 | homologous HL_5TBW_120 | NA | ||
1/5/303:312 | homologous HL_5TBW_121 | NA | ||
1/5/357:362 | homologous HL_5TBW_122 | NA | ||
1/5/382:387 | homologous HL_5TBW_123 | NA | ||
1/5/543:548 | geometric HL_1U1Y_001 | NA HL_16568.1* | ||
1/5/599:604 | homologous HL_5TBW_125 | NA | ||
1/5/640:649 | homologous HL_5TBW_126 | NA | ||
1/5/686:694 | homologous HL_5TBW_127 | NA | ||
1/5/707:712 | homologous HL_5TBW_128 | NA | ||
1/5/732:737 | homologous HL_5TBW_129 | NA | ||
1/5/763:768 | homologous HL_5TBW_130 | NA | ||
1/5/844:849 | homologous HL_5TBW_131 | NA | ||
1/5/876:885 | homologous HL_5TBW_132 | NA | ||
1/5/910:918 | homologous HL_5TBW_133 | NA | ||
1/5/958:963 | homologous HL_5TBW_134 | NA | ||
1/5/1076:1083 | geometric HL_5TBW_024 | NA HL_54035.7* | ||
1/5/1126:1132 | homologous HL_5TBW_137 | NA | ||
1/5/1148:1155 | homologous HL_5TBW_138 | NA | ||
1/5/1239:1249 | homologous HL_5TBW_139 | NA | ||
1/5/1267:1274 | homologous HL_5TBW_140 | NA | ||
1/5/1347:1357 | homologous HL_5TBW_141 | NA | ||
1/5/1403:1408 | homologous HL_5TBW_142 | NA | ||
1/5/1462:1470 | homologous HL_5TBW_143 | NA | ||
1/5/1506:1512 | homologous HL_5TBW_144 | NA | ||
1/5/1544:1549 | homologous HL_5TBW_145 | NA | ||
1/5/1567:1571 | geometric HL_4O26_001 | NA HL_61984.1* | ||
1/5/1599:1608 | homologous HL_5TBW_147 | NA | ||
1/5/1634:1639 | homologous HL_5TBW_148 | NA | ||
1/5/1680:1688 | homologous HL_5TBW_149 | NA | ||
1/5/1719:1725 | homologous HL_5TBW_150 | NA | ||
1/5/1759:1766 | geometric HL_6D12_002 | NA HL_82678.2* | ||
1/5/1792:1796 | homologous HL_5TBW_152 | NA | ||
1/5/1844:1851 | homologous HL_5TBW_153 | NA | ||
1/5/1862:1868 | homologous HL_5TBW_154 | NA | ||
1/5/1923:1928 | homologous HL_5TBW_155 | NA | ||
1/5/2110:2114 | homologous HL_5TBW_157 | NA | ||
1/5/2135:2145 | homologous HL_5TBW_158 | NA | ||
1/5/2164:2170 | homologous HL_5TBW_159 | NA | ||
1/5/2220:2225 | homologous HL_5TBW_160 | NA | ||
1/5/2292:2300 | homologous HL_5TBW_162 | NA | ||
1/5/2369:2378 | homologous HL_5TBW_163 | NA | ||
1/5/2535:2544 | NA | NA | ||
1/5/2568:2573 | NA | NA | ||
1/5/2616:2624 | homologous HL_5TBW_167 | NA | ||
1/5/2633:2645 | homologous HL_5TBW_168 | NA | ||
1/5/2673:2681 | homologous HL_5TBW_169 | NA | ||
1/5/2693:2700 | homologous HL_5TBW_170 | NA | ||
1/5/2724:2732 | homologous HL_5TBW_171 | NA | ||
1/5/2744:2749 | homologous HL_5TBW_172 | NA | ||
1/5/2776:2784 | homologous HL_5TBW_173 | NA | ||
1/5/2840:2848 | homologous HL_5TBW_174 | NA | ||
1/5/2897:2904 | homologous HL_5TBW_175 | NA | ||
1/5/2920:2926 | geometric HL_5TBW_063 | NA HL_26055.6* | ||
1/5/2963:2968 | homologous HL_5TBW_177 | NA | ||
1/5/3025:3030 | homologous HL_5TBW_178 | NA | ||
1/5/3068:3073 | homologous HL_5TBW_179 | NA | ||
1/5/3110:3124 | homologous HL_5TBW_180 | NA | ||
1/5/3194:3197 | homologous HL_5TBW_181 | NA | ||
1/5/3240:3247 | homologous HL_5TBW_182 | NA | ||
1/5/3303:3311 | homologous HL_5TBW_183 | NA | ||
1/5/3350:3353 | geometric HL_5U30_001 | NA HL_69353.7* | ||
1/7/36:41 | NA | NA | ||
1/7/88:93 | NA | NA | ||
1/8/69:89 | NA | NA | ||
1/8/108:114 | homologous HL_5TBW_075 | NA HL_06569.2* | ||
1/8/124:129 | homologous HL_5TBW_076 | NA HL_60357.1* |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
HL_5APO_023 | NA | ||
HL_5APO_044 | NA | ||
HL_5APO_051 | NA |
Valid loops
# | loop id | location | annotation (mapped to, source) | motif group (similar to) |
---|---|---|---|---|
1/5/7:8, 1/8/150:152 | Single bulged C homologous IL_5TBW_002 | NA IL_61258.10* | ||
1/5/13:15, 1/8/144:145 | Single bulged U homologous IL_5TBW_003 | NA IL_83039.11* | ||
1/5/27:28, 1/5/56:58 | homologous IL_5TBW_240 | NA | ||
1/5/31:38, 1/5/45:53 | tSH-tHW-tHH-tHS geometric IL_5TBW_005 | NA IL_22863.1* | ||
1/5/82:89, 1/5/97:103 | homologous IL_5TBW_242 | NA | ||
1/5/123:124, 1/5/144:149 | geometric IL_5TBW_007 | NA IL_19724.1* | ||
1/5/125:127, 1/5/141:143 | homologous IL_5TBW_244 | NA | ||
1/5/163:165, 1/5/257:258 | homologous IL_5TBW_245 | NA | ||
1/5/169:170, 1/5/248:253 | NA | NA | ||
1/5/177:178, 1/5/238:241 | Major groove platform geometric IL_7A0S_073 | NA IL_80663.10* | ||
1/5/189:191, 1/5/204:205 | homologous IL_5TBW_248 | NA | ||
1/5/337:339, 1/8/25:26 | Single bulged A homologous IL_5TBW_013 | NA IL_80007.16* | ||
1/5/376:379, 1/5/390:403 | homologous IL_5TBW_250 | NA | ||
1/5/404:410, 1/8/13:19 | Triple sheared with non-canonical cWW homologous IL_5TBW_015 | NA IL_66414.5* | ||
1/5/428:431, 1/5/628:631 | Tandem non-canonical cWW pairs geometric IL_5EW4_002 | NA IL_85877.10* | ||
1/5/512:513, 1/5/577:579 | homologous IL_5TBW_254 | NA | ||
1/5/517:525, 1/5/567:573 | homologous IL_5TBW_255 | NA | ||
1/5/531:538, 1/5/553:561 | homologous IL_5TBW_256 | NA | ||
1/5/668:670, 1/5/792:794 | homologous IL_5TBW_257 | NA | ||
1/5/680:684, 1/5/696:700 | homologous IL_5TBW_258 | NA | ||
1/5/725:728, 1/5/741:745 | homologous IL_5TBW_259 | NA | ||
1/5/752:753, 1/5/779:781 | homologous IL_5TBW_260 | NA | ||
1/5/755:756, 1/5/775:777 | homologous IL_5TBW_261 | NA | ||
1/5/758:763, 1/5/768:773 | geometric IL_5TBW_026 | NA IL_19954.1* | ||
1/5/803:805, 1/5/938:940 | homologous IL_5TBW_263 | NA | ||
1/5/805:809, 1/5/931:938 | geometric IL_5TBW_028 | NA IL_17470.5* | ||
1/5/828:829, 1/5/895:897 | Single bulged A geometric IL_4V9F_025 | NA IL_80007.16* | ||
1/5/833:834, 1/5/859:861 | Single bulged G geometric IL_5TBW_029 | NA IL_99645.1* | ||
1/5/834:838, 1/5/855:859 | homologous IL_5TBW_266 | NA | ||
1/5/869:872, 1/5/888:890 | homologous IL_5TBW_267 | NA | ||
1/5/873:875, 1/5/886:887 | homologous IL_5TBW_268 | NA | ||
1/5/907:909, 1/5/919:923 | Multiple bulged bases geometric IL_5TBW_033 | NA IL_90991.5* | ||
1/5/954:956, 1/5/965:967 | homologous IL_5TBW_270 | NA | ||
1/5/969:970, 1/5/1111:1113 | homologous IL_5TBW_271 | NA | ||
1/5/977:982, 1/5/1101:1104 | NA | NA | ||
1/5/983:985, 1/5/1099:1100 | homologous IL_5TBW_273 | NA | ||
1/5/991:997, 1/5/1052:1058 | 7x7 Sarcin-Ricin with intercalated A; G-bulge geometric IL_5TBW_038 | NA IL_93830.2* | ||
1/5/997:998, 1/5/1050:1052 | homologous IL_5TBW_275 | NA | ||
1/5/999:1004, 1/5/1046:1049 | homologous IL_5TBW_276 | NA | ||
1/5/1006:1009, 1/5/1041:1044 | homologous IL_5TBW_277 | NA | ||
1/5/1009:1011, 1/5/1039:1041 | geometric IL_4LFB_059 | NA IL_01312.13* | ||
1/5/1069:1071, 1/5/1087:1089 | homologous IL_5TBW_280 | NA | ||
1/5/1074:1076, 1/5/1083:1084 | homologous IL_5TBW_281 | NA | ||
1/5/1120:1122, 1/5/1136:1138 | homologous IL_5TBW_282 | NA | ||
1/5/1123:1125, 1/5/1133:1135 | homologous IL_5TBW_283 | NA | ||
1/5/1167:1171, 1/5/1328:1332 | homologous IL_5TBW_284 | NA | ||
1/5/1173:1180, 1/5/1325:1326 | SSU/LSU pseudoknot geometric IL_5TBW_049 | NA IL_15861.6* | ||
1/5/1180:1182, 1/5/1324:1325 | homologous IL_5TBW_286 | NA | ||
1/5/1187:1194, 1/5/1314:1319 | homologous IL_5TBW_287 | NA | ||
1/5/1194:1205, 1/5/1299:1314 | geometric IL_5TBW_052 | NA IL_94878.1* | ||
1/5/1207:1209, 1/5/1296:1297 | homologous IL_5TBW_289 | NA | ||
1/5/1218:1226, 1/5/1283:1287 | homologous IL_5TBW_290 | NA | ||
1/5/1234:1238, 1/5/1250:1254 | homologous IL_5TBW_291 | NA | ||
1/5/1262:1266, 1/5/1275:1277 | homologous IL_5TBW_292 | NA | ||
1/5/1376:1378, 1/5/1428:1431 | homologous IL_5TBW_293 | NA | ||
1/5/1385:1387, 1/5/1420:1421 | homologous IL_5TBW_294 | NA | ||
1/5/1388:1395, 1/5/1415:1419 | homologous IL_5TBW_295 | NA | ||
1/5/1398:1400, 1/5/1411:1412 | homologous IL_5TBW_296 | NA | ||
1/5/1444:1450, 1/5/2354:2359 | homologous IL_5TBW_297 | NA | ||
1/5/1492:1495, 1/5/1835:1836 | Major groove platform; stack outside cWW geometric IL_4V9F_050 | NA IL_70995.6* | ||
1/5/1501:1505, 1/5/1513:1515 | C-loop geometric IL_7RQB_051 | NA IL_63596.4* | ||
1/5/1532:1536, 1/5/1585:1590 | homologous IL_5TBW_299 | NA | ||
1/5/1565:1566, 1/5/1572:1574 | Minor groove platform geometric IL_2QWY_009 | NA IL_06437.11* | ||
1/5/1618:1621, 1/5/1824:1826 | homologous IL_5TBW_300 | NA | ||
1/5/1623:1625, 1/5/1818:1822 | Isolated non-canonical cWW with bulges geometric IL_5ML7_010 | NA IL_01312.13* | ||
1/5/1627:1631, 1/5/1811:1816 | homologous IL_5TBW_302 | NA | ||
1/5/1645:1649, 1/5/1806:1810 | homologous IL_5TBW_303 | NA | ||
1/5/1661:1663, 1/5/1786:1788 | homologous IL_5TBW_304 | NA | ||
1/5/1669:1670, 1/5/1778:1780 | Single bulged C geometric IL_5TBW_069 | NA IL_61258.10* | ||
1/5/1670:1671, 1/5/1776:1778 | homologous IL_5TBW_306 | NA | ||
1/5/1694:1698, 1/5/1747:1752 | homologous IL_5TBW_307 | NA | ||
1/5/1702:1707, 1/5/1737:1743 | homologous IL_5TBW_308 | NA | ||
1/5/1711:1717, 1/5/1727:1733 | homologous IL_5TBW_309 | NA | ||
1/5/1883:1889, 1/5/2346:2349 | homologous IL_5TBW_310 | NA | ||
1/5/1895:1897, 1/5/2338:2340 | homologous IL_5TBW_311 | NA | ||
1/5/1898:1901, 1/5/2336:2337 | Major groove platform; stack outside cWW geometric IL_5TBW_076 | NA IL_80663.10* | ||
1/5/1901:1906, 1/5/2333:2336 | homologous IL_5TBW_313 | NA | ||
1/5/1918:1923, 1/5/1928:1934 | tSH-tSH-tHH-tHS geometric IL_4V9F_063 | NA IL_66584.5* | ||
1/5/1940:1942, 1/5/2106:2108 | homologous IL_5TBW_315 | NA | ||
1/5/1947:1948, 1/5/2098:2101 | homologous IL_5TBW_316 | NA | ||
1/5/2128:2129, 1/5/2323:2325 | homologous IL_5TBW_318 | NA | ||
1/5/2156:2161, 1/5/2173:2180 | homologous IL_5TBW_319 | NA | ||
1/5/2196:2199, 1/5/2245:2246 | homologous IL_5TBW_320 | NA | ||
1/5/2200:2201, 1/5/2241:2244 | homologous IL_5TBW_321 | NA | ||
1/5/2204:2206, 1/5/2237:2238 | Single bulged U geometric IL_6UFG_004 | NA IL_83039.11* | ||
1/5/2276:2278, 1/5/2307:2310 | Intercalated cWW geometric IL_4WF9_047 | NA IL_04038.4* | ||
1/5/2278:2288, 1/5/2304:2307 | NA | NA | ||
1/5/2391:2394, 1/5/2986:2988 | homologous IL_5TBW_327 | NA | ||
1/5/2396:2398, 1/5/2981:2984 | homologous IL_5TBW_328 | NA | ||
1/5/2409:2411, 1/5/2811:2812 | homologous IL_5TBW_329 | NA | ||
1/5/2411:2412, 1/5/2809:2811 | NA | NA | ||
1/5/2412:2413, 1/5/2807:2809 | NA | NA | ||
1/5/2423:2425, 1/5/2604:2607 | homologous IL_5TBW_331 | NA | ||
1/5/2435:2437, 1/5/2510:2512 | geometric IL_4P3U_012 | NA IL_01312.13* | ||
1/5/2520:2526, 1/5/2584:2587 | homologous IL_5TBW_332 | NA | ||
1/5/2614:2615, 1/5/2625:2627 | homologous IL_5TBW_333 | NA | ||
1/5/2666:2668, 1/5/2686:2690 | Isolated tHS basepair with bulges geometric IL_5TBW_099 | NA IL_38958.6* | ||
1/5/2714:2717, 1/5/2739:2741 | geometric IL_4V88_455 | NA IL_01312.13* | ||
1/5/2718:2721, 1/5/2735:2738 | homologous IL_5TBW_335 | NA | ||
1/5/2770:2773, 1/5/2787:2788 | homologous IL_5TBW_336 | NA | ||
1/5/2823:2824, 1/5/2865:2867 | homologous IL_5TBW_337 | NA | ||
1/5/2824:2826, 1/5/2863:2865 | geometric IL_5TBW_103 | NA IL_05265.1* | ||
1/5/2826:2828, 1/5/2862:2863 | Major groove platform geometric IL_4V9F_083 | NA IL_95601.1* | ||
1/5/2828:2830, 1/5/2858:2862 | homologous IL_5TBW_340 | NA | ||
1/5/2835:2839, 1/5/2849:2853 | homologous IL_5TBW_341 | NA | ||
1/5/2876:2877, 1/5/2949:2951 | homologous IL_5TBW_342 | NA | ||
1/5/2879:2881, 1/5/2943:2947 | homologous IL_5TBW_343 | NA | ||
1/5/2881:2882, 1/5/2940:2943 | Multiple bulged bases geometric IL_5TBW_109 | NA IL_13730.12* | ||
1/5/2889:2891, 1/5/2912:2914 | homologous IL_5TBW_345 | NA | ||
1/5/2891:2892, 1/5/2909:2912 | Minor groove platform with intercalation geometric IL_5TBW_111 | NA IL_95601.1* | ||
1/5/2918:2920, 1/5/2926:2928 | homologous IL_5TBW_347 | NA | ||
1/5/2960:2961, 1/5/2970:2972 | homologous IL_5TBW_348 | NA | ||
1/5/3004:3007, 1/5/3139:3144 | homologous IL_5TBW_349 | NA | ||
1/5/3012:3014, 1/5/3040:3042 | homologous IL_5TBW_350 | NA | ||
1/5/3018:3025, 1/5/3030:3036 | 8x7 Sarcin-Ricin; G-bulge geometric IL_5TBW_116 | NA IL_04346.5* | ||
1/5/3047:3051, 1/5/3091:3094 | homologous IL_5TBW_352 | NA | ||
1/5/3054:3059, 1/5/3084:3088 | homologous IL_5TBW_353 | NA | ||
1/5/3063:3064, 1/5/3077:3080 | homologous IL_5TBW_354 | NA | ||
1/5/3103:3107, 1/5/3127:3131 | homologous IL_5TBW_355 | NA | ||
1/5/3164:3166, 1/5/3284:3286 | UG cWW geometric IL_4LFB_061 | NA IL_01312.13* | ||
1/5/3168:3170, 1/5/3280:3282 | homologous IL_5TBW_357 | NA | ||
1/5/3177:3179, 1/5/3210:3211 | homologous IL_5TBW_358 | NA | ||
1/5/3179:3188, 1/5/3204:3210 | geometric IL_5TBW_124 | NA IL_56867.1* | ||
1/5/3193:3194, 1/5/3197:3199 | Single bulged U geometric IL_5TBW_125 | NA IL_83039.11* | ||
1/5/3225:3229, 1/5/3258:3260 | homologous IL_5TBW_361 | NA | ||
1/5/3233:3235, 1/5/3252:3254 | homologous IL_5TBW_362 | NA | ||
1/5/3235:3238, 1/5/3249:3252 | Tandem non-canonical cWW pairs geometric IL_6MWN_005 | NA IL_85877.10* | ||
1/5/3300:3303, 1/5/3311:3314 | Tandem non-canonical cWW pairs geometric IL_5TBW_129 | NA IL_85877.10* | ||
1/5/3318:3320, 1/5/3387:3388 | homologous IL_5TBW_365 | NA | ||
1/5/3324:3325, 1/5/3381:3383 | homologous IL_5TBW_366 | NA | ||
1/5/3328:3330, 1/5/3373:3378 | homologous IL_5TBW_367 | NA | ||
1/5/3332:3337, 1/5/3367:3371 | homologous IL_5TBW_368 | NA | ||
1/5/3340:3342, 1/5/3363:3364 | Single bulged U geometric IL_6UFH_004 | NA IL_83039.11* | ||
1/5/3342:3345, 1/5/3360:3363 | homologous IL_5TBW_370 | NA | ||
1/5/3349:3350, 1/5/3353:3356 | homologous IL_5TBW_371 | NA | ||
1/7/15:16, 1/7/63:65 | NA | NA | ||
1/7/21:27, 1/7/53:58 | NA | NA | ||
1/7/28:29, 1/7/49:52 | NA | NA | ||
1/7/29:30, 1/7/47:49 | NA | NA | ||
1/7/32:36, 1/7/41:45 | NA | NA | ||
1/7/72:80, 1/7/100:106 | NA | NA | ||
1/7/84:87, 1/7/94:96 | NA | NA | ||
1/8/44:64, 1/8/96:100 | geometric IL_5TBW_144 | NA IL_23735.1* | ||
1/8/64:66, 1/8/93:96 | Isolated non-canonical cWW with bulges homologous IL_5TBW_145 | NA IL_55456.1* | ||
1/8/68:69, 1/8/89:91 | Single bulged U homologous IL_5TBW_146 | NA IL_83039.11* |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
IL_5APO_001 | geometric IL_3ICQ_003 | ||
IL_5APO_017 | NA | ||
IL_5APO_092 | geometric IL_4V9F_017 | ||
IL_5APO_096 | geometric IL_4V88_419 | ||
IL_5APO_100 | geometric IL_4WF9_042 | ||
IL_5APO_125 | geometric IL_4YHW_001 |
Valid loops
# | loop id | location | annotation (mapped to, source) | motif group (similar to) |
---|---|---|---|---|
1/5/113:123, 1/5/149:158, 1/5/263:267 | homologous J3_5TBW_030 | NA | ||
1/5/814:820, 1/5/905:907, 1/5/923:926 | homologous J3_5TBW_033 | NA | ||
1/5/829:831, 1/5/863:867, 1/5/892:895 | NA | NA | ||
1/5/1230:1232, 1/5/1256:1262, 1/5/1277:1279 | NA | NA | ||
1/5/1479:1485, 1/5/1857:1859, 1/5/1871:1874 | homologous J3_5TBW_037 | NA | ||
1/5/1488:1491, 1/5/1837:1843, 1/5/1852:1854 | homologous J3_5TBW_038 | NA | ||
1/5/2432:2435, 1/5/2512:2517, 1/5/2590:2597 | homologous J3_5TBW_041 | NA | ||
1/5/2529:2532, 1/5/2547:2563, 1/5/2578:2581 | NA | NA | ||
1/5/2664:2666, 1/5/2690:2692, 1/5/2701:2706 | homologous J3_5TBW_042 | NA | ||
1/5/2886:2889, 1/5/2914:2916, 1/5/2930:2936 | NA | NA | ||
1/5/3298:3300, 1/5/3314:3318, 1/5/3388:3390 | NA | NA |
Problematic loops
No problematic loops
Coloring options: