5KCS Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_5KCS_001 | 1/1A/59:68 | No text annotation | homologous HL_5J7L_134 NA | |
| HL_5KCS_002 | 1/1A/87:95 | No text annotation | homologous HL_5J7L_135 NA | |
| HL_5KCS_003 | 1/1A/123:128 | No text annotation | homologous HL_4WF9_003 HL_75660.7 | |
| HL_5KCS_006 | 1/1A/194:201 | No text annotation | homologous HL_7RQB_006 NA | |
| HL_5KCS_008 | 1/1A/246:252 | No text annotation | homologous HL_5J7L_141 NA | |
| HL_5KCS_009 | 1/1A/305:312 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_142 NA | |
| HL_5KCS_010 | 1/1A/327:335 | T-loop with unstacked turn | homologous HL_5J7L_144 NA | |
| HL_5KCS_119 | 1/1A/382:392 | No text annotation | homologous HL_5J7L_145 NA | |
| HL_5KCS_012 | 1/1A/410:417 | Pseudoknot geometry | homologous HL_5J7L_146 NA | |
| HL_5KCS_013 | 1/1A/462:467 | GNRA | homologous HL_7RQB_015 NA | |
| HL_5KCS_014 | 1/1A/487:493 | GNRA | homologous HL_5J7L_148 NA | |
| HL_5KCS_016 | 1/1A/566:575 | T-loop with 2 stacked bulged bases | geometric HL_5J7L_150 NA | |
| HL_5KCS_017 | 1/1A/611:617 | No text annotation | homologous HL_5J7L_151 NA | |
| HL_5KCS_019 | 1/1A/641:647 | No text annotation | homologous HL_5J7L_153 NA | |
| HL_5KCS_020 | 1/1A/712:719 | GNRA wlth tandem sheared | homologous HL_5J7L_154 NA | |
| HL_5KCS_021 | 1/1A/744:753 | No text annotation | homologous HL_5J7L_155 NA | |
| HL_5KCS_022 | 1/1A/779:785 | No text annotation | homologous HL_5J7L_156 NA | |
| HL_5KCS_023 | 1/1A/826:831 | No text annotation | homologous HL_5J7L_157 NA | |
| HL_5KCS_105 | 1/1A/955:962 | GNRA | homologous HL_5J7L_211 NA | |
| HL_5KCS_026 | 1/1A/978:985 | No text annotation | homologous HL_7A0S_027 HL_47171.1 | |
| HL_5KCS_029 | 1/1A/1222:1227 | GNRA | homologous HL_5J7L_164 NA | |
| HL_5KCS_031 | 1/1A/1324:1330 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_166 NA | |
| HL_5KCS_032 | 1/1A/1363:1368 | GNRA | homologous HL_5J7L_167 NA | |
| HL_5KCS_033 | 1/1A/1389:1398 | No text annotation | homologous HL_7RQB_036 NA | |
| HL_5KCS_037 | 1/1A/1565:1568 | Mini UNCG | homologous HL_7A0S_039 HL_90436.2 | |
| HL_5KCS_038 | 1/1A/1612:1619 | No text annotation | homologous HL_4WF9_038 HL_28592.1 | |
| HL_5KCS_040 | 1/1A/1691:1696 | No text annotation | homologous HL_7RQB_042 NA | |
| HL_5KCS_042 | 1/1A/1752:1756 | No text annotation | homologous HL_4WF9_042 HL_80709.5 | |
| HL_5KCS_121 | 1/1A/1777:1787 | No text annotation | homologous HL_4WF9_043 HL_87681.1 | |
| HL_5KCS_044 | 1/1A/1806:1811 | GNRA related | homologous HL_5J7L_179 NA | |
| HL_5KCS_046 | 1/1A/1910:1920 | No text annotation | homologous HL_5J7L_181 NA | |
| HL_5KCS_047 | 1/1A/1949:1957 | No text annotation | homologous HL_5J7L_182 NA | |
| HL_5KCS_048 | 1/1A/2027:2036 | No text annotation | homologous HL_5J7L_183 NA | |
| HL_5KCS_050 | 1/1A/2209:2215 | No text annotation | homologous HL_5J7L_185 NA | |
| HL_5KCS_051 | 1/1A/2248:2256 | No text annotation | homologous HL_5J7L_186 NA | |
| HL_5KCS_052 | 1/1A/2264:2276 | No text annotation | homologous HL_5J7L_187 NA | |
| HL_5KCS_054 | 1/1A/2324:2331 | Pseudoknot geometry | homologous HL_5J7L_189 NA | |
| HL_5KCS_055 | 1/1A/2356:2361 | GNRA | homologous HL_5J7L_190 NA | |
| HL_5KCS_058 | 1/1A/2471:2479 | No text annotation | homologous HL_4WF9_056 HL_52011.1 | |
| HL_5KCS_059 | 1/1A/2528:2535 | GNRA variation | homologous HL_5J7L_194 NA | |
| HL_5KCS_060 | 1/1A/2551:2557 | No text annotation | homologous HL_5J7L_195 NA | |
| HL_5KCS_061 | 1/1A/2594:2599 | GNRA | homologous HL_7RQB_063 NA | |
| HL_5KCS_062 | 1/1A/2658:2663 | GNRA | geometric HL_5B2T_003 HL_34789.2 | |
| HL_5KCS_063 | 1/1A/2701:2706 | Ribsomal LSU H95 | homologous HL_5J7L_198 NA | |
| HL_5KCS_064 | 1/1A/2745:2759 | No text annotation | homologous HL_5J7L_199 NA | |
| HL_5KCS_066 | 1/1A/2819:2827 | No text annotation | homologous HL_5J7L_201 NA | |
| HL_5KCS_067 | 1/1A/2856:2861 | GNRA | homologous HL_7A0S_068 HL_34789.2 | |
| HL_5KCS_069 | 1/1B/86:90 | Mini UNCG | homologous HL_5J7L_204 NA | |
| HL_5KCS_070 | 1/1a/12:22 | No text annotation | homologous HL_5J7L_001 NA | |
| HL_5KCS_072 | 1/1a/158:163 | GNRA | homologous HL_5J7L_003 NA | |
| HL_5KCS_076 | 1/1a/296:301 | GNRA | homologous HL_5J7L_007 NA | |
| HL_5KCS_124 | 1/1a/320:333 | No text annotation | homologous HL_6CZR_079 NA | |
| HL_5KCS_085 | 1/1a/726:731 | GNRA | homologous HL_5J7L_016 NA | |
| HL_5KCS_089 | 1/1a/897:902 | GNRA | homologous HL_4LFB_020 HL_34789.2 | |
| HL_5KCS_090 | 1/1a/963:972 | No text annotation | homologous HL_5J7L_021 NA | |
| HL_5KCS_091 | 1/1a/1012:1017 | GNRA | homologous HL_4LFB_022 HL_34789.2 | |
| HL_5KCS_092 | 1/1a/1076:1081 | GNRA | homologous HL_5J7L_023 NA | |
| HL_5KCS_093 | 1/1a/1089:1096 | T-loop related | homologous HL_4LFB_025 HL_63894.2 | |
| HL_5KCS_095 | 1/1a/1165:1171 | GNRA | homologous HL_4LFB_027 HL_34789.2 | |
| HL_5KCS_096 | 1/1a/1265:1270 | GNRA | homologous HL_5J7L_027 NA | |
| HL_5KCS_097 | 1/1a/1314:1323 | T-loop with 3 stacked bulged bases | homologous HL_5J7L_028 NA | |
| HL_5KCS_117 | 1/1a/1356:1366 | No text annotation | homologous HL_4LFB_030 HL_86432.1 | |
| HL_5KCS_100 | 1/1a/1515:1520 | GNRA | homologous HL_6CZR_103 NA | |
| HL_5KCS_102 | 1/1x/31:39 | tRNA anticodon loop | homologous HL_4TUE_034 NA | |
| HL_5KCS_103 | 1/1x/53:61 | T-loop with 2 stacked bulged bases | homologous HL_6CFJ_108 HL_33597.2 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_5KCS_004 | No text annotation | ||
| HL_5KCS_005 | No text annotation | ||
| HL_5KCS_118 | No text annotation | ||
| HL_5KCS_007 | No text annotation | ||
| HL_5KCS_011 | No text annotation | ||
| HL_5KCS_104 | No text annotation | ||
| HL_5KCS_015 | Mini UNCG with extended bulge | ||
| HL_5KCS_018 | GNRA | ||
| HL_5KCS_024 | No text annotation | ||
| HL_5KCS_025 | No text annotation | ||
| HL_5KCS_027 | GNRA wlth tandem sheared | ||
| HL_5KCS_028 | No text annotation | ||
| HL_5KCS_106 | No text annotation | ||
| HL_5KCS_120 | No text annotation | ||
| HL_5KCS_030 | T-loop with 2 stacked bulged bases | ||
| HL_5KCS_107 | No text annotation | ||
| HL_5KCS_034 | No text annotation | ||
| HL_5KCS_035 | Pseudoknot geometry with 3' bulge | ||
| HL_5KCS_036 | No text annotation | ||
| HL_5KCS_039 | GNRA with extra cWW | ||
| HL_5KCS_108 | GNRA | ||
| HL_5KCS_041 | No text annotation | ||
| HL_5KCS_043 | No text annotation | ||
| HL_5KCS_045 | GNRA variation | ||
| HL_5KCS_109 | No text annotation | ||
| HL_5KCS_049 | No text annotation | ||
| HL_5KCS_122 | No text annotation | ||
| HL_5KCS_053 | No text annotation | ||
| HL_5KCS_123 | No text annotation | ||
| HL_5KCS_056 | GNRA | ||
| HL_5KCS_057 | No text annotation | ||
| HL_5KCS_065 | UNCG variation | ||
| HL_5KCS_110 | No text annotation | ||
| HL_5KCS_068 | No text annotation | ||
| HL_5KCS_111 | No text annotation | ||
| HL_5KCS_071 | No text annotation | ||
| HL_5KCS_073 | GNRA | ||
| HL_5KCS_074 | No text annotation | ||
| HL_5KCS_112 | tRNA D-loop | ||
| HL_5KCS_075 | GNRA related | ||
| HL_5KCS_077 | No text annotation | ||
| HL_5KCS_113 | No text annotation | ||
| HL_5KCS_078 | UNCG | ||
| HL_5KCS_079 | GNRA | ||
| HL_5KCS_080 | UNCG | ||
| HL_5KCS_081 | GNRA wlth extra near cWW | ||
| HL_5KCS_082 | No text annotation | ||
| HL_5KCS_114 | GNRA variation | ||
| HL_5KCS_083 | GNRA-like with tWH | ||
| HL_5KCS_084 | No text annotation | ||
| HL_5KCS_086 | No text annotation | ||
| HL_5KCS_087 | No text annotation | ||
| HL_5KCS_088 | GNRA | ||
| HL_5KCS_115 | No text annotation | ||
| HL_5KCS_116 | No text annotation | ||
| HL_5KCS_094 | No text annotation | ||
| HL_5KCS_098 | No text annotation | ||
| HL_5KCS_099 | UNCG | ||
| HL_5KCS_101 | tRNA D-loop |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_5KCS_001 | 1/1A/24:30, 1/1A/510:516 | Triple sheared with non-canonical cWW | geometric IL_4WF9_001 IL_22311.1 | |
| IL_5KCS_002 | 1/1A/36:37, 1/1A/442:444 | Single bulged A | homologous IL_7A0S_002 IL_14190.2 | |
| IL_5KCS_204 | 1/1A/43:44, 1/1A/434:436 | Minor groove platform | homologous IL_5J7L_247 NA | |
| IL_5KCS_004 | 1/1A/81:85, 1/1A/97:105 | Kink-turn | homologous IL_7RQB_004 NA | |
| IL_5KCS_005 | 1/1A/183:184, 1/1A/212:214 | Single stack bend | homologous IL_7A0S_005 IL_15011.2 | |
| IL_5KCS_006 | 1/1A/188:194, 1/1A/201:208 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_5J7L_250 NA | |
| IL_5KCS_007 | 1/1A/239:245, 1/1A/253:258 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_5J7L_251 NA | |
| IL_5KCS_010 | 1/1A/293:295, 1/1A/343:347 | No text annotation | homologous IL_5J7L_254 NA | |
| IL_5KCS_011 | 1/1A/481:484, 1/1A/496:509 | No text annotation | homologous IL_5J7L_255 NA | |
| IL_5KCS_013 | 1/1A/564:566, 1/1A/575:577 | Isolated non-canonical cWW pair | homologous IL_5J7L_257 NA | |
| IL_5KCS_014 | 1/1A/606:610, 1/1A/618:622 | AAA cross-strand stack | homologous IL_5J7L_258 NA | |
| IL_5KCS_015 | 1/1A/672:674, 1/1A/806:808 | Isolated non-canonical cWW pair | geometric IL_5J7L_259 NA | |
| IL_5KCS_016 | 1/1A/674:678, 1/1A/799:806 | tHW-tHW cross-strand stack | homologous IL_5J7L_260 NA | |
| IL_5KCS_017 | 1/1A/697:698, 1/1A/763:765 | Single bulged A | homologous IL_5J7L_261 NA | |
| IL_5KCS_018 | 1/1A/702:703, 1/1A/728:730 | Single bulged G | homologous IL_5J7L_262 NA | |
| IL_5KCS_019 | 1/1A/703:707, 1/1A/724:728 | Triple sheared | geometric IL_5J7L_263 NA | |
| IL_5KCS_020 | 1/1A/738:740, 1/1A/757:758 | Major groove platform | homologous IL_5J7L_264 NA | |
| IL_5KCS_021 | 1/1A/775:777, 1/1A/787:791 | Multiple bulged bases | homologous IL_7A0S_021 IL_89509.1 | |
| IL_5KCS_023 | 1/1A/850:851, 1/1A/926:928 | Single stack bend | homologous IL_5J7L_269 NA | |
| IL_5KCS_024 | 1/1A/856:862, 1/1A/915:921 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | geometric IL_5J7L_270 NA | |
| IL_5KCS_174 | 1/1A/856:863, 1/1A/913:921 | No text annotation | ||
| IL_5KCS_025 | 1/1A/862:863, 1/1A/913:915 | Single bulged G | homologous IL_5J7L_271 NA | |
| IL_5KCS_026 | 1/1A/864:868, 1/1A/909:912 | C-loop with bulged stacked A's | homologous IL_5J7L_272 NA | |
| IL_5KCS_027 | 1/1A/870:872, 1/1A/905:907 | Isolated cWS basepair | homologous IL_4WF9_034 NA | |
| IL_5KCS_028 | 1/1A/875:879, 1/1A/898:902 | Double sheared with non-canonical cWW | homologous IL_5J7L_274 NA | |
| IL_5KCS_030 | 1/1A/994:996, 1/1A/1159:1160 | Single bulged C | homologous IL_7RQB_035 NA | |
| IL_5KCS_176 | 1/1A/998:1002, 1/1A/1153:1157 | UAA/GAN | homologous IL_4WF9_036 IL_08938.1 | |
| IL_5KCS_032 | 1/1A/1004:1011, 1/1A/1150:1151 | SSU/LSU pseudoknot | homologous IL_5J7L_278 NA | |
| IL_5KCS_034 | 1/1A/1018:1024, 1/1A/1140:1144 | Kink-turn related | homologous IL_5J7L_280 NA | |
| IL_5KCS_035 | 1/1A/1024:1030, 1/1A/1124:1140 | No text annotation | geometric IL_5J7L_281 NA | |
| IL_5KCS_036 | 1/1A/1031:1034, 1/1A/1121:1123 | Isolated non-canonical cWW pair | homologous IL_5J7L_282 NA | |
| IL_5KCS_207 | 1/1A/1196:1198, 1/1A/1247:1250 | Isolated cWS basepair | homologous IL_4WF9_044 IL_42997.5 | |
| IL_5KCS_042 | 1/1A/1208:1215, 1/1A/1234:1238 | Kink-turn | homologous IL_5J7L_288 NA | |
| IL_5KCS_043 | 1/1A/1262:1269, 1/1A/2011:2017 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_289 NA | |
| IL_5KCS_044 | 1/1A/1310:1313, 1/1A/1603:1604 | Major groove platform; stack outside cWW | homologous IL_7RQB_050 NA | |
| IL_5KCS_045 | 1/1A/1319:1323, 1/1A/1331:1333 | C-loop | homologous IL_5J7L_291 NA | |
| IL_5KCS_046 | 1/1A/1351:1355, 1/1A/1376:1380 | UAA/GAN | homologous IL_7A0S_048 IL_89021.3 | |
| IL_5KCS_047 | 1/1A/1357:1361, 1/1A/1370:1374 | tSH-tHW-tHS | homologous IL_5J7L_293 NA | |
| IL_5KCS_050 | 1/1A/1432:1435, 1/1A/1557:1561 | Tandem non-canonical cWW pairs | homologous IL_5J7L_296 NA | |
| IL_5KCS_051 | 1/1A/1437:1440, 1/1A/1551:1555 | tSH-tHW | homologous IL_5J7L_297 NA | |
| IL_5KCS_053 | 1/1A/1474:1479, 1/1A/1512:1517 | No text annotation | geometric IL_8ZA4_003 IL_35186.2 | |
| IL_5KCS_057 | 1/1A/1651:1656, 1/1A/2004:2006 | No text annotation | homologous IL_7RQB_064 NA | |
| IL_5KCS_058 | 1/1A/1663:1665, 1/1A/1995:1997 | Isolated tWW turn | homologous IL_5J7L_305 NA | |
| IL_5KCS_059 | 1/1A/1666:1669, 1/1A/1993:1994 | Major groove platform; stack outside cWW | homologous IL_7RQB_066 NA | |
| IL_5KCS_178 | 1/1A/1666:1674, 1/1A/1990:1994 | No text annotation | homologous IL_4WF9_117 IL_80252.1 | |
| IL_5KCS_060 | 1/1A/1669:1674, 1/1A/1990:1993 | Intercalated tWH | geometric IL_4WF9_065 IL_28217.1 | |
| IL_5KCS_061 | 1/1A/1686:1691, 1/1A/1696:1702 | tSH-tSH-tHH-tHS | geometric IL_7RQB_068 NA | |
| IL_5KCS_064 | 1/1A/1770:1771, 1/1A/1980:1982 | Single bulged A | homologous IL_4WF9_068 IL_14190.2 | |
| IL_5KCS_065 | 1/1A/1798:1804, 1/1A/1813:1821 | Kink-turn related | homologous IL_5J7L_313 NA | |
| IL_5KCS_066 | 1/1A/1837:1840, 1/1A/1902:1903 | Minor groove platform, major groove intercalation | homologous IL_5J7L_314 NA | |
| IL_5KCS_067 | 1/1A/1841:1842, 1/1A/1898:1901 | Major groove intercalation | homologous IL_5J7L_315 NA | |
| IL_5KCS_179 | 1/1A/1851:1860, 1/1A/1882:1891 | No text annotation | homologous IL_5J7L_387 NA | |
| IL_5KCS_070 | 1/1A/1933:1934, 1/1A/1964:1967 | Bulged stacked bases | homologous IL_5J7L_318 NA | |
| IL_5KCS_071 | 1/1A/1934:1945, 1/1A/1961:1964 | No text annotation | geometric IL_7A0S_072 IL_04332.3 | |
| IL_5KCS_072 | 1/1A/2050:2052, 1/1A/2617:2618 | Major groove platform | homologous IL_5J7L_320 NA | |
| IL_5KCS_073 | 1/1A/2054:2056, 1/1A/2612:2615 | No text annotation | homologous IL_5J7L_321 NA | |
| IL_5KCS_180 | 1/1A/2067:2069, 1/1A/2442:2443 | Single bulged U | homologous IL_9DFE_080 IL_97561.2 | |
| IL_5KCS_076 | 1/1A/2070:2071, 1/1A/2438:2441 | Minor groove platform | geometric IL_4V9F_075 IL_34520.2 | |
| IL_5KCS_081 | 1/1A/2202:2204, 1/1A/2220:2221 | Single bulged U | homologous IL_5J7L_331 NA | |
| IL_5KCS_082 | 1/1A/2350:2353, 1/1A/2364:2367 | Double sheared | homologous IL_7RQB_089 NA | |
| IL_5KCS_183 | 1/1A/2457:2459, 1/1A/2493:2494 | Major groove platform | homologous IL_5J7L_393 NA | |
| IL_5KCS_085 | 1/1A/2459:2461, 1/1A/2489:2493 | Major groove minor groove platform with extra cWW | homologous IL_7RQB_094 NA | |
| IL_5KCS_086 | 1/1A/2466:2470, 1/1A/2480:2484 | Double sheared with non-canonical cWW | homologous IL_5J7L_338 NA | |
| IL_5KCS_184 | 1/1A/2507:2508, 1/1A/2580:2582 | Major groove platform | homologous IL_5J7L_394 NA | |
| IL_5KCS_088 | 1/1A/2510:2512, 1/1A/2574:2578 | Isolated non-canonical cWW with bulges | geometric IL_7A0S_089 IL_68118.2 | |
| IL_5KCS_089 | 1/1A/2512:2513, 1/1A/2571:2574 | No text annotation | homologous IL_4WF9_096 IL_44609.2 | |
| IL_5KCS_090 | 1/1A/2522:2523, 1/1A/2540:2543 | Major groove platform with intercalation | homologous IL_5J7L_342 NA | |
| IL_5KCS_092 | 1/1A/2591:2592, 1/1A/2601:2603 | Single bulged A | homologous IL_7RQB_101 NA | |
| IL_5KCS_185 | 1/1A/2636:2640, 1/1A/2774:2782 | tSH-tHS-tHW | homologous IL_4WF9_099 IL_04638.4 | |
| IL_5KCS_094 | 1/1A/2652:2658, 1/1A/2663:2668 | Sarcin-Ricin target in LSU H95; G-bulge | homologous IL_7A0S_094 IL_16458.5 | |
| IL_5KCS_095 | 1/1A/2680:2684, 1/1A/2725:2727 | C-loop | homologous IL_5J7L_347 NA | |
| IL_5KCS_096 | 1/1A/2687:2691, 1/1A/2718:2722 | UAA/GAN related, with intercalation | homologous IL_5J7L_348 NA | |
| IL_5KCS_097 | 1/1A/2695:2696, 1/1A/2711:2714 | Multiple bulged bases | homologous IL_5J7L_349 NA | |
| IL_5KCS_098 | 1/1A/2737:2742, 1/1A/2762:2767 | UAA/GAN with extra cWW | homologous IL_5J7L_350 NA | |
| IL_5KCS_099 | 1/1A/2806:2811, 1/1A/2889:2892 | No text annotation | homologous IL_5J7L_351 NA | |
| IL_5KCS_101 | 1/1A/2843:2846, 1/1A/2870:2874 | Multiple bulged bases with non-canonical cWW | homologous IL_5J7L_353 NA | |
| IL_5KCS_104 | 1/1B/23:28, 1/1B/56:60 | No text annotation | homologous IL_7RQB_112 NA | |
| IL_5KCS_210 | 1/1B/30:31, 1/1B/51:54 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_357 NA | |
| IL_5KCS_106 | 1/1B/71:79, 1/1B/97:105 | Bacterial 5S Loop E | homologous IL_5J7L_359 NA | |
| IL_5KCS_115 | 1/1a/128:131, 1/1a/231:233 | No text annotation | ||
| IL_5KCS_117 | 1/1a/144:146, 1/1a/176:178 | Isolated cWH basepair | homologous IL_5J7L_011 NA | |
| IL_5KCS_118 | 1/1a/147:153, 1/1a/168:175 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_5KCS_122 | 1/1a/292:293, 1/1a/304:308 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_5KCS_130 | 1/1a/504:511, 1/1a/540:541 | SSU/LSU pseudoknot | homologous IL_5J7L_024 NA | |
| IL_5KCS_132 | 1/1a/569:575, 1/1a/880:881 | No text annotation | homologous IL_5J7L_026 NA | |
| IL_5KCS_133 | 1/1a/580:584, 1/1a/757:761 | tSH-tHW-tHS | homologous IL_5J7L_027 NA | |
| IL_5KCS_135 | 1/1a/597:598, 1/1a/640:643 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_029 NA | |
| IL_5KCS_137 | 1/1a/654:655, 1/1a/751:754 | Major groove platform; stack outside cWW | homologous IL_4LFB_027 IL_74641.2 | |
| IL_5KCS_139 | 1/1a/662:666, 1/1a/740:743 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_5KCS_141 | 1/1a/774:778, 1/1a/804:805 | Left turn | homologous IL_4LFB_032 IL_29346.3 | |
| IL_5KCS_144 | 1/1a/922:923, 1/1a/1393:1395 | Single bulged A | homologous IL_4LFB_035 IL_14190.2 | |
| IL_5KCS_212 | 1/1a/922:924, 1/1a/1392:1395 | Isolated non-canonical cWW with bulges | geometric IL_4V9F_097 IL_68118.2 | |
| IL_5KCS_196 | 1/1a/925:927, 1/1a/1390:1391 | Single bulged G | homologous IL_5J7L_040 NA | |
| IL_5KCS_146 | 1/1a/933:936, 1/1a/1379:1384 | No text annotation | homologous IL_6CZR_149 NA | |
| IL_5KCS_147 | 1/1a/953:954, 1/1a/1226:1228 | No text annotation | homologous IL_6CZR_150 NA | |
| IL_5KCS_151 | 1/1a/1048:1050, 1/1a/1208:1209 | Single bulged U | geometric IL_5J7L_046 NA | |
| IL_5KCS_153 | 1/1a/1057:1058, 1/1a/1199:1203 | Minor groove platform | homologous IL_4LFB_045 IL_24264.1 | |
| IL_5KCS_154 | 1/1a/1060:1061, 1/1a/1195:1197 | Single bulged A | geometric IL_5J7L_049 NA | |
| IL_5KCS_214 | 1/1a/1124:1128, 1/1a/1144:1149 | No text annotation | homologous IL_5J7L_051 NA | |
| IL_5KCS_158 | 1/1a/1158:1161, 1/1a/1175:1181 | No text annotation | homologous IL_5J7L_053 NA | |
| IL_5KCS_215 | 1/1a/1247:1253, 1/1a/1284:1290 | No text annotation | homologous IL_5J7L_054 NA | |
| IL_5KCS_160 | 1/1a/1255:1258, 1/1a/1277:1282 | 180 degree turn | homologous IL_4LFB_052 IL_08849.1 | |
| IL_5KCS_161 | 1/1a/1259:1263, 1/1a/1272:1276 | Double sheared with non-canonical cWW | homologous IL_5J7L_056 NA | |
| IL_5KCS_163 | 1/1a/1399:1401, 1/1a/1501:1504 | No text annotation | homologous IL_6CZR_165 NA | |
| IL_5KCS_164 | 1/1a/1401:1404, 1/1a/1497:1501 | No text annotation | homologous IL_5J7L_059 NA | |
| IL_5KCS_165 | 1/1a/1405:1409, 1/1a/1491:1496 | No text annotation | homologous IL_4LFB_058 NA | |
| IL_5KCS_167 | 1/1a/1416:1419, 1/1a/1481:1484 | Double sheared | homologous IL_5J7L_062 NA | |
| IL_5KCS_168 | 1/1a/1430:1435, 1/1a/1466:1470 | Triple sheared related | homologous IL_5J7L_063 NA | |
| IL_5KCS_169 | 1/1a/1440:1442, 1/1a/1460:1461 | Single bulged A | homologous IL_5J7L_064 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_5KCS_171 | No text annotation | ||
| IL_5KCS_003 | Minor groove platform with extra cWW | ||
| IL_5KCS_172 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_5KCS_008 | No text annotation | ||
| IL_5KCS_009 | No text annotation | ||
| IL_5KCS_173 | No text annotation | ||
| IL_5KCS_012 | Double sheared | ||
| IL_5KCS_205 | 90 degree turn | ||
| IL_5KCS_022 | No text annotation | ||
| IL_5KCS_206 | Stack outside cWW | ||
| IL_5KCS_175 | No text annotation | ||
| IL_5KCS_029 | No text annotation | ||
| IL_5KCS_031 | UAA/GAN with extra cWW | ||
| IL_5KCS_033 | Single bulged U | ||
| IL_5KCS_177 | Tandem non-canonical cWW pairs | ||
| IL_5KCS_037 | No text annotation | ||
| IL_5KCS_038 | Kink-turn | ||
| IL_5KCS_039 | No text annotation | ||
| IL_5KCS_040 | Tandem non-canonical cWW pairs | ||
| IL_5KCS_041 | No text annotation | ||
| IL_5KCS_048 | No text annotation | ||
| IL_5KCS_049 | UAA/GAN | ||
| IL_5KCS_052 | No text annotation | ||
| IL_5KCS_054 | 180 degree turn | ||
| IL_5KCS_055 | Single bulged A | ||
| IL_5KCS_056 | UAA/GAN variation | ||
| IL_5KCS_062 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_5KCS_063 | Triple sheared | ||
| IL_5KCS_068 | Major groove minor groove platform; mini C-loop | ||
| IL_5KCS_069 | UAA/GAN related | ||
| IL_5KCS_074 | No text annotation | ||
| IL_5KCS_075 | No text annotation | ||
| IL_5KCS_077 | Isolated tHS basepair with bulges | ||
| IL_5KCS_078 | Isolated non-canonical cWW pair | ||
| IL_5KCS_181 | No text annotation | ||
| IL_5KCS_079 | No text annotation | ||
| IL_5KCS_208 | Isolated non-canonical cWW pair | ||
| IL_5KCS_182 | No text annotation | ||
| IL_5KCS_080 | No text annotation | ||
| IL_5KCS_209 | Tandem non-canonical cWW pairs | ||
| IL_5KCS_083 | No text annotation | ||
| IL_5KCS_084 | Major groove platform with extra pair | ||
| IL_5KCS_087 | No text annotation | ||
| IL_5KCS_091 | Tandem non-canonical cWW pairs | ||
| IL_5KCS_093 | No text annotation | ||
| IL_5KCS_100 | Major groove intercalation | ||
| IL_5KCS_102 | tHS double platform | ||
| IL_5KCS_103 | Major groove intercalation | ||
| IL_5KCS_105 | No text annotation | ||
| IL_5KCS_186 | Partly complementary | ||
| IL_5KCS_107 | Single bulged G | ||
| IL_5KCS_108 | Single bulged A | ||
| IL_5KCS_109 | No text annotation | ||
| IL_5KCS_110 | Minor groove platform | ||
| IL_5KCS_111 | Multiple bulged bases | ||
| IL_5KCS_112 | Minor groove platform with extra cWW | ||
| IL_5KCS_113 | Minor groove platform | ||
| IL_5KCS_187 | No text annotation | ||
| IL_5KCS_114 | Major groove intercalation | ||
| IL_5KCS_188 | Single bulged G, near cWW | ||
| IL_5KCS_189 | No text annotation | ||
| IL_5KCS_116 | Minor groove platform related | ||
| IL_5KCS_190 | No text annotation | ||
| IL_5KCS_119 | Minor groove platform | ||
| IL_5KCS_120 | Kink-turn with non-sequential stacking | ||
| IL_5KCS_121 | No text annotation | ||
| IL_5KCS_211 | No text annotation | ||
| IL_5KCS_123 | Single bulged U | ||
| IL_5KCS_124 | C-loop | ||
| IL_5KCS_125 | Single bulged G | ||
| IL_5KCS_126 | No text annotation | ||
| IL_5KCS_127 | No text annotation | ||
| IL_5KCS_128 | tSH-tHW-tWW | ||
| IL_5KCS_129 | No text annotation | ||
| IL_5KCS_131 | Kink-turn related | ||
| IL_5KCS_191 | No text annotation | ||
| IL_5KCS_134 | Major groove platform | ||
| IL_5KCS_136 | No text annotation | ||
| IL_5KCS_138 | Single stack bend | ||
| IL_5KCS_192 | Partly complementary | ||
| IL_5KCS_140 | Kink-turn | ||
| IL_5KCS_193 | Kink-turn | ||
| IL_5KCS_142 | tSH-tHW-tHS | ||
| IL_5KCS_194 | No text annotation | ||
| IL_5KCS_143 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | ||
| IL_5KCS_195 | No text annotation | ||
| IL_5KCS_145 | Tandem non-canonical cWW pairs | ||
| IL_5KCS_148 | Minor groove platform | ||
| IL_5KCS_213 | No text annotation | ||
| IL_5KCS_197 | No text annotation | ||
| IL_5KCS_149 | No text annotation | ||
| IL_5KCS_150 | No text annotation | ||
| IL_5KCS_152 | No text annotation | ||
| IL_5KCS_198 | No text annotation | ||
| IL_5KCS_155 | Isolated non-canonical cWW pair | ||
| IL_5KCS_199 | No text annotation | ||
| IL_5KCS_156 | No text annotation | ||
| IL_5KCS_157 | Minor groove platform | ||
| IL_5KCS_200 | No text annotation | ||
| IL_5KCS_159 | No text annotation | ||
| IL_5KCS_201 | No text annotation | ||
| IL_5KCS_162 | No text annotation | ||
| IL_5KCS_166 | Isolated non-canonical cWW pair | ||
| IL_5KCS_202 | Tandem non-canonical cWW pairs | ||
| IL_5KCS_203 | No text annotation | ||
| IL_5KCS_170 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_5KCS_001 | 1/1A/30:31, 1/1A/474:481, 1/1A/509:510 | No text annotation | homologous J3_7RQB_001 NA | |
| J3_5KCS_025 | 1/1A/30:31, 1/1A/474:484, 1/1A/496:510 | No text annotation | homologous J3_5J7L_066 NA | |
| J3_5KCS_026 | 1/1A/32:35, 1/1A/445:461, 1/1A/468:473 | No text annotation | homologous J3_5J7L_067 NA | |
| J3_5KCS_040 | 1/1A/56:57, 1/1A/70:76, 1/1A/110:114 | No text annotation | homologous J3_5J7L_037 NA | |
| J3_5KCS_027 | 1/1A/297:301, 1/1A/316:325, 1/1A/337:341 | No text annotation | homologous J3_5J7L_068 NA | |
| J3_5KCS_003 | 1/1A/683:689, 1/1A/773:775, 1/1A/791:794 | No text annotation | homologous J3_5J7L_038 NA | |
| J3_5KCS_004 | 1/1A/698:700, 1/1A/732:736, 1/1A/760:763 | No text annotation | homologous J3_7RQB_005 NA | |
| J3_5KCS_005 | 1/1A/1298:1303, 1/1A/1625:1627, 1/1A/1639:1642 | No text annotation | homologous J3_5J7L_041 NA | |
| J3_5KCS_006 | 1/1A/1306:1309, 1/1A/1605:1611, 1/1A/1620:1622 | No text annotation | homologous J3_5J7L_042 NA | |
| J3_5KCS_028 | 1/1A/1344:1349, 1/1A/1382:1385, 1/1A/1402:1403 | No text annotation | homologous J3_5J7L_043 NA | |
| J3_5KCS_029 | 1/1A/1424:1429, 1/1A/1564:1565, 1/1A/1568:1574 | No text annotation | homologous J3_5J7L_069 NA | |
| J3_5KCS_008 | 1/1A/2091:2093, 1/1A/2196:2200, 1/1A/2223:2228 | Kink-turn 3-way junction | homologous J3_5J7L_044 NA | |
| J3_5KCS_009 | 1/1A/2295:2299, 1/1A/2317:2323, 1/1A/2332:2337 | No text annotation | homologous J3_5J7L_071 NA | |
| J3_5KCS_010 | 1/1A/2517:2520, 1/1A/2545:2547, 1/1A/2561:2567 | No text annotation | homologous J3_5J7L_046 NA | |
| J3_5KCS_012 | 1/1A/2812:2815, 1/1A/2831:2836, 1/1A/2882:2888 | No text annotation | homologous J3_5J7L_048 NA | |
| J3_5KCS_013 | 1/1B/10:16, 1/1B/68:70, 1/1B/106:110 | No text annotation | homologous J3_5J7L_049 NA | |
| J3_5KCS_015 | 1/1a/586:588, 1/1a/651:654, 1/1a/754:755 | No text annotation | homologous J3_4LFB_011 J3_01633.1 | |
| J3_5KCS_031 | 1/1a/586:588, 1/1a/651:655, 1/1a/751:755 | No text annotation | homologous J3_4LFB_015 J3_17385.5 | |
| J3_5KCS_032 | 1/1a/672:677, 1/1a/713:725, 1/1a/732:734 | No text annotation | ||
| J3_5KCS_016 | 1/1a/826:829, 1/1a/857:861, 1/1a/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J3_5KCS_034 | 1/1a/933:939, 1/1a/1344:1350, 1/1a/1372:1384 | No text annotation | ||
| J3_5KCS_017 | 1/1a/936:939, 1/1a/1344:1350, 1/1a/1372:1379 | No text annotation | homologous J3_4LFB_002 J3_85722.1 | |
| J3_5KCS_018 | 1/1a/943:946, 1/1a/1235:1237, 1/1a/1337:1340 | No text annotation | geometric J3_4LFB_003 J3_44359.1 | |
| J3_5KCS_036 | 1/1a/955:962, 1/1a/973:984, 1/1a/1221:1225 | No text annotation | homologous J3_5J7L_006 NA | |
| J3_5KCS_020 | 1/1a/990:993, 1/1a/1045:1047, 1/1a/1210:1215 | No text annotation | homologous J3_4LFB_005 J3_84394.1 | |
| J3_5KCS_037 | 1/1a/990:997, 1/1a/1044:1047, 1/1a/1210:1215 | No text annotation | homologous J3_5J7L_053 NA | |
| J3_5KCS_021 | 1/1a/1063:1068, 1/1a/1107:1113, 1/1a/1187:1193 | No text annotation | homologous J3_5J7L_008 NA | |
| J3_5KCS_038 | 1/1a/1073:1074, 1/1a/1083:1086, 1/1a/1099:1102 | No text annotation | homologous J3_4LFB_017 J3_11018.1 | |
| J3_5KCS_023 | 1/1a/1116:1118, 1/1a/1155:1158, 1/1a/1181:1184 | No text annotation | homologous J3_5J7L_010 NA | |
| J3_5KCS_042 | 1/1a/1116:1118, 1/1a/1155:1161, 1/1a/1175:1184 | No text annotation | homologous J3_5J7L_054 NA | |
| J3_5KCS_024 | 1/1a/1237:1241, 1/1a/1296:1303, 1/1a/1334:1337 | No text annotation | homologous J3_4LFB_009 J3_03192.1 | |
| J4_5KCS_001 | 1/1A/268:269, 1/1A/370:375, 1/1A/399:406, 1/1A/421:424 | No text annotation | homologous J4_5J7L_018 NA | |
| J4_5KCS_002 | 1/1A/601:604, 1/1A/624:628, 1/1A/635:638, 1/1A/650:656 | No text annotation | homologous J4_5J7L_020 NA | |
| J4_5KCS_003 | 1/1A/1270:1276, 1/1A/1294:1295, 1/1A/1645:1648, 1/1A/2009:2010 | No text annotation | homologous J4_5J7L_021 NA | |
| J4_5KCS_004 | 1/1A/1310:1314, 1/1A/1338:1343, 1/1A/1404:1405, 1/1A/1597:1604 | No text annotation | homologous J4_5J7L_022 NA | |
| J4_5KCS_005 | 1/1A/1313:1314, 1/1A/1338:1343, 1/1A/1404:1405, 1/1A/1597:1603 | No text annotation | homologous J4_5J7L_023 NA | |
| J4_5KCS_006 | 1/1A/1444:1445, 1/1A/1466:1467, 1/1A/1525:1526, 1/1A/1546:1547 | No text annotation | homologous J4_5J7L_024 NA | |
| J4_5KCS_007 | 1/1A/1772:1776, 1/1A/1788:1792, 1/1A/1827:1830, 1/1A/1975:1979 | No text annotation | homologous J4_5J7L_025 NA | |
| J4_5KCS_008 | 1/1A/1833:1835, 1/1A/1905:1906, 1/1A/1924:1933, 1/1A/1967:1972 | No text annotation | homologous J4_9DFE_008 J4_42306.1 | |
| J4_5KCS_010 | 1/1A/2643:2646, 1/1A/2674:2676, 1/1A/2731:2735, 1/1A/2769:2771 | No text annotation | homologous J4_5J7L_028 NA | |
| J4_5KCS_011 | 1/1a/115:122, 1/1a/239:240, 1/1a/286:289, 1/1a/311:312 | No text annotation | homologous J4_5J7L_001 NA | |
| J4_5KCS_016 | 1/1a/575:577, 1/1a/764:769, 1/1a/810:821, 1/1a/879:880 | No text annotation | homologous J4_5J7L_003 NA | |
| J4_5KCS_017 | 1/1x/7:10, 1/1x/25:27, 1/1x/43:49, 1/1x/65:66 | tRNA junction | homologous J4_9DFC_015 NA | |
| J5_5KCS_001 | 1/1A/47:54, 1/1A/116:121, 1/1A/130:131, 1/1A/148:150, 1/1A/176:178 | No text annotation | homologous J5_5J7L_013 NA | |
| J5_5KCS_002 | 1/1A/531:533, 1/1A/560:564, 1/1A/577:579, 1/1A/1261:1262, 1/1A/2017:2018 | No text annotation | homologous J5_5J7L_014 NA | |
| J5_5KCS_003 | 1/1A/584:589, 1/1A/668:671, 1/1A/809:812, 1/1A/1195:1196, 1/1A/1250:1256 | No text annotation | homologous J5_5J7L_015 NA | |
| J5_5KCS_004 | 1/1A/1674:1682, 1/1A/1706:1707, 1/1A/1751:1752, 1/1A/1756:1764, 1/1A/1988:1990 | No text annotation | homologous J5_5J7L_016 NA | |
| J5_5KCS_005 | 1/1A/2057:2064, 1/1A/2446:2455, 1/1A/2496:2507, 1/1A/2582:2588, 1/1A/2606:2611 | No text annotation | ||
| J5_5KCS_008 | 1/1a/58:61, 1/1a/106:113, 1/1a/314:316, 1/1a/337:339, 1/1a/350:354 | No text annotation | homologous J5_6CZR_021 NA | |
| J6_5KCS_001 | 1/1A/45:46, 1/1A/179:184, 1/1A/212:225, 1/1A/230:235, 1/1A/262:266, 1/1A/426:433 | No text annotation | ||
| J6_5KCS_003 | 1/1A/2074:2077, 1/1A/2243:2246, 1/1A/2258:2259, 1/1A/2281:2284, 1/1A/2384:2395, 1/1A/2421:2435 | No text annotation | ||
| J7_5KCS_001 | 1/1A/8:15, 1/1A/525:531, 1/1A/2018:2023, 1/1A/2040:2043, 1/1A/2625:2630, 1/1A/2788:2789, 1/1A/2894:2895 | No text annotation | ||
| J7_5KCS_002 | 1/1A/817:822, 1/1A/835:838, 1/1A/940:946, 1/1A/971:976, 1/1A/987:991, 1/1A/1163:1164, 1/1A/1185:1190 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_5KCS_002 | No text annotation | ||
| J3_5KCS_007 | No text annotation | ||
| J3_5KCS_041 | No text annotation | ||
| J3_5KCS_011 | No text annotation | ||
| J3_5KCS_014 | No text annotation | ||
| J3_5KCS_030 | No text annotation | ||
| J3_5KCS_033 | No text annotation | ||
| J3_5KCS_035 | No text annotation | ||
| J3_5KCS_019 | No text annotation | ||
| J3_5KCS_022 | No text annotation | ||
| J3_5KCS_039 | No text annotation | ||
| J4_5KCS_015 | No text annotation | ||
| J4_5KCS_009 | No text annotation | ||
| J4_5KCS_012 | No text annotation | ||
| J4_5KCS_013 | No text annotation | ||
| J4_5KCS_014 | No text annotation | ||
| J5_5KCS_009 | No text annotation | ||
| J5_5KCS_006 | No text annotation | ||
| J5_5KCS_010 | No text annotation | ||
| J5_5KCS_007 | No text annotation | ||
| J6_5KCS_002 | No text annotation |
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