5KPV Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_5KPV_001 | 1/26/12:22 | No text annotation | homologous HL_5J7L_001 NA | |
| HL_5KPV_006 | 1/26/259:267 | GNRA related | homologous HL_5J7L_006 NA | |
| HL_5KPV_007 | 1/26/296:301 | GNRA | homologous HL_5J7L_007 NA | |
| HL_5KPV_008 | 1/26/320:333 | No text annotation | homologous HL_6CZR_079 NA | |
| HL_5KPV_009 | 1/26/342:347 | UNCG | homologous HL_4LFB_009 HL_61337.3 | |
| HL_5KPV_012 | 1/26/462:470 | GNRA wlth extra near cWW | homologous HL_5J7L_012 NA | |
| HL_5KPV_013 | 1/26/522:527 | No text annotation | geometric HL_4WF9_003 HL_75660.7 | |
| HL_5KPV_014 | 1/26/617:623 | GNRA-like with tWH | homologous HL_5J7L_014 NA | |
| HL_5KPV_016 | 1/26/726:731 | GNRA | homologous HL_5J7L_016 NA | |
| HL_5KPV_017 | 1/26/786:796 | No text annotation | homologous HL_5J7L_017 NA | |
| HL_5KPV_019 | 1/26/862:867 | GNRA | homologous HL_4LFB_019 HL_34789.4 | |
| HL_5KPV_020 | 1/26/897:902 | GNRA | homologous HL_4LFB_020 HL_34789.4 | |
| HL_5KPV_021 | 1/26/963:972 | No text annotation | homologous HL_5J7L_021 NA | |
| HL_5KPV_024 | 1/26/1076:1081 | GNRA | homologous HL_5J7L_023 NA | |
| HL_5KPV_025 | 1/26/1089:1096 | T-loop related | homologous HL_5J7L_024 NA | |
| HL_5KPV_028 | 1/26/1265:1270 | GNRA | homologous HL_5J7L_027 NA | |
| HL_5KPV_030 | 1/26/1356:1366 | No text annotation | homologous HL_4LFB_030 HL_86432.1 | |
| HL_5KPV_032 | 1/26/1515:1520 | GNRA | homologous HL_6CZR_103 NA | |
| HL_5KPV_033 | 1/27/59:68 | No text annotation | homologous HL_5J7L_134 NA | |
| HL_5KPV_034 | 1/27/87:95 | No text annotation | homologous HL_5J7L_135 NA | |
| HL_5KPV_035 | 1/27/123:128 | No text annotation | homologous HL_5J7L_136 NA | |
| HL_5KPV_038 | 1/27/194:201 | No text annotation | homologous HL_5J7L_139 NA | |
| HL_5KPV_039 | 1/27/225:230 | No text annotation | homologous HL_5J7L_140 NA | |
| HL_5KPV_040 | 1/27/246:252 | No text annotation | homologous HL_7A0S_008 HL_76371.2 | |
| HL_5KPV_041 | 1/27/305:312 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_142 NA | |
| HL_5KPV_042 | 1/27/327:335 | T-loop with unstacked turn | homologous HL_5J7L_144 NA | |
| HL_5KPV_043 | 1/27/382:392 | No text annotation | homologous HL_5J7L_145 NA | |
| HL_5KPV_044 | 1/27/410:417 | Pseudoknot geometry | homologous HL_5J7L_146 NA | |
| HL_5KPV_045 | 1/27/462:467 | GNRA | homologous HL_5J7L_147 NA | |
| HL_5KPV_046 | 1/27/487:493 | GNRA | homologous HL_5J7L_148 NA | |
| HL_5KPV_048 | 1/27/566:575 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_150 NA | |
| HL_5KPV_052 | 1/27/712:719 | GNRA wlth tandem sheared | homologous HL_5J7L_154 NA | |
| HL_5KPV_053 | 1/27/744:753 | No text annotation | homologous HL_4WF9_023 HL_50204.1 | |
| HL_5KPV_054 | 1/27/779:785 | UNCG variation | geometric HL_1P6V_001 NA | |
| HL_5KPV_055 | 1/27/826:831 | No text annotation | homologous HL_5J7L_157 NA | |
| HL_5KPV_057 | 1/27/954:963 | tRNA anticodon loop | geometric HL_3RG5_006 HL_87268.2 | |
| HL_5KPV_058 | 1/27/978:985 | No text annotation | homologous HL_7A0S_027 HL_47171.1 | |
| HL_5KPV_062 | 1/27/1222:1227 | GNRA | homologous HL_7A0S_031 HL_34789.4 | |
| HL_5KPV_063 | 1/27/1281:1289 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_165 NA | |
| HL_5KPV_064 | 1/27/1324:1330 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_166 NA | |
| HL_5KPV_065 | 1/27/1363:1368 | GNRA | homologous HL_5J7L_167 NA | |
| HL_5KPV_066 | 1/27/1389:1398 | No text annotation | homologous HL_4WF9_035 HL_77449.1 | |
| HL_5KPV_114 | 1/27/1450:1461 | UNCG variation | geometric HL_5J7L_200 NA | |
| HL_5KPV_067 | 1/27/1451:1459 | Mini UNCG | geometric HL_8VMB_002 HL_90436.3 | |
| HL_5KPV_068 | 1/27/1492:1498 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_170 NA | |
| HL_5KPV_070 | 1/27/1565:1568 | Mini UNCG | homologous HL_7A0S_039 HL_90436.3 | |
| HL_5KPV_071 | 1/27/1612:1619 | No text annotation | homologous HL_7A0S_040 HL_28592.2 | |
| HL_5KPV_072 | 1/27/1630:1636 | GNRA | homologous HL_5J7L_174 NA | |
| HL_5KPV_073 | 1/27/1691:1696 | No text annotation | homologous HL_7RQB_042 NA | |
| HL_5KPV_075 | 1/27/1752:1756 | No text annotation | homologous HL_5J7L_177 NA | |
| HL_5KPV_076 | 1/27/1777:1787 | No text annotation | homologous HL_5J7L_178 NA | |
| HL_5KPV_077 | 1/27/1806:1811 | GNRA related | homologous HL_5J7L_179 NA | |
| HL_5KPV_080 | 1/27/1949:1957 | No text annotation | homologous HL_4WF9_046 HL_61418.2 | |
| HL_5KPV_081 | 1/27/2027:2036 | No text annotation | homologous HL_4WF9_047 HL_78372.1 | |
| HL_5KPV_083 | 1/27/2209:2215 | No text annotation | homologous HL_5J7L_185 NA | |
| HL_5KPV_084 | 1/27/2248:2256 | No text annotation | homologous HL_7RQB_053 NA | |
| HL_5KPV_085 | 1/27/2264:2276 | No text annotation | homologous HL_7RQB_054 NA | |
| HL_5KPV_120 | 1/27/2304:2312 | No text annotation | homologous HL_5J7L_219 NA | |
| HL_5KPV_087 | 1/27/2324:2331 | Pseudoknot geometry | homologous HL_5J7L_189 NA | |
| HL_5KPV_088 | 1/27/2356:2361 | GNRA | homologous HL_5J7L_190 NA | |
| HL_5KPV_089 | 1/27/2374:2379 | GNRA | homologous HL_4WF9_054 HL_34789.4 | |
| HL_5KPV_090 | 1/27/2404:2413 | No text annotation | homologous HL_5J7L_192 NA | |
| HL_5KPV_092 | 1/27/2528:2535 | GNRA variation | homologous HL_5J7L_194 NA | |
| HL_5KPV_093 | 1/27/2551:2557 | No text annotation | homologous HL_5J7L_195 NA | |
| HL_5KPV_094 | 1/27/2594:2599 | GNRA | homologous HL_7RQB_063 NA | |
| HL_5KPV_096 | 1/27/2701:2706 | Ribsomal LSU H95 | homologous HL_5J7L_198 NA | |
| HL_5KPV_097 | 1/27/2745:2759 | No text annotation | homologous HL_4WF9_062 HL_53269.2 | |
| HL_5KPV_099 | 1/27/2819:2827 | No text annotation | homologous HL_5J7L_201 NA | |
| HL_5KPV_100 | 1/27/2856:2861 | GNRA | homologous HL_5J7L_202 NA | |
| HL_5KPV_101 | 1/28/38:44 | No text annotation | homologous HL_5J7L_203 NA | |
| HL_5KPV_102 | 1/28/86:90 | Mini UNCG | homologous HL_5J7L_204 NA | |
| HL_5KPV_106 | 1/31/13:22 | No text annotation | homologous HL_4YYE_001 NA | |
| HL_5KPV_107 | 1/31/31:39 | tRNA anticodon loop | homologous HL_6CFJ_107 HL_81376.3 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_5KPV_002 | No text annotation | ||
| HL_5KPV_117 | No text annotation | ||
| HL_5KPV_003 | GNRA | ||
| HL_5KPV_004 | GNRA | ||
| HL_5KPV_005 | No text annotation | ||
| HL_5KPV_118 | Mini UNCG | ||
| HL_5KPV_010 | GNRA | ||
| HL_5KPV_011 | UNCG | ||
| HL_5KPV_015 | No text annotation | ||
| HL_5KPV_018 | No text annotation | ||
| HL_5KPV_022 | GNRA | ||
| HL_5KPV_023 | No text annotation | ||
| HL_5KPV_026 | No text annotation | ||
| HL_5KPV_027 | GNRA | ||
| HL_5KPV_029 | T-loop with 3 stacked bulged bases | ||
| HL_5KPV_031 | UNCG | ||
| HL_5KPV_036 | No text annotation | ||
| HL_5KPV_037 | No text annotation | ||
| HL_5KPV_047 | No text annotation | ||
| HL_5KPV_112 | No text annotation | ||
| HL_5KPV_049 | No text annotation | ||
| HL_5KPV_050 | GNRA | ||
| HL_5KPV_051 | No text annotation | ||
| HL_5KPV_056 | No text annotation | ||
| HL_5KPV_059 | No text annotation | ||
| HL_5KPV_060 | GNRA wlth tandem sheared | ||
| HL_5KPV_113 | No text annotation | ||
| HL_5KPV_119 | No text annotation | ||
| HL_5KPV_061 | No text annotation | ||
| HL_5KPV_069 | UNCG | ||
| HL_5KPV_074 | Externally structured | ||
| HL_5KPV_078 | UNCG variation | ||
| HL_5KPV_079 | No text annotation | ||
| HL_5KPV_082 | No text annotation | ||
| HL_5KPV_086 | No text annotation | ||
| HL_5KPV_091 | No text annotation | ||
| HL_5KPV_095 | GNRA | ||
| HL_5KPV_098 | UNCG variation | ||
| HL_5KPV_103 | No text annotation | ||
| HL_5KPV_104 | No text annotation | ||
| HL_5KPV_115 | tRNA anticodon loop | ||
| HL_5KPV_105 | T-loop with 2 stacked bulged bases | ||
| HL_5KPV_108 | T-loop with 2 stacked bulged bases | ||
| HL_5KPV_116 | No text annotation | ||
| HL_5KPV_109 | tRNA D-loop | ||
| HL_5KPV_110 | tRNA anticodon loop | ||
| HL_5KPV_111 | T-loop with 2 stacked bulged bases |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_5KPV_001 | 1/26/30:32, 1/26/552:553 | Single bulged G | homologous IL_5J7L_001 NA | |
| IL_5KPV_002 | 1/26/44:45, 1/26/396:398 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_5KPV_003 | 1/26/47:52, 1/26/359:361 | No text annotation | geometric IL_5J7L_003 NA | |
| IL_5KPV_004 | 1/26/54:56, 1/26/356:357 | Minor groove platform | homologous IL_6CZR_116 NA | |
| IL_5KPV_005 | 1/26/63:66, 1/26/103:104 | Multiple bulged bases | homologous IL_5J7L_005 NA | |
| IL_5KPV_009 | 1/26/128:131, 1/26/231:233 | Isolated non-canonical cWW pair | homologous IL_5J7L_009 NA | |
| IL_5KPV_010 | 1/26/132:136, 1/26/227:230 | Minor groove platform related | homologous IL_5J7L_010 NA | |
| IL_5KPV_011 | 1/26/144:146, 1/26/176:178 | Isolated cWH basepair | homologous IL_5J7L_011 NA | |
| IL_5KPV_012 | 1/26/147:153, 1/26/168:175 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_5KPV_014 | 1/26/242:247, 1/26/277:284 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
| IL_5KPV_015 | 1/26/249:252, 1/26/274:275 | No text annotation | homologous IL_4LFB_012 IL_22002.1 | |
| IL_5KPV_016 | 1/26/292:293, 1/26/304:308 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_5KPV_017 | 1/26/367:369, 1/26/392:393 | Single bulged U | geometric IL_5J7L_017 NA | |
| IL_5KPV_018 | 1/26/371:375, 1/26/389:390 | C-loop | homologous IL_5J7L_018 NA | |
| IL_5KPV_019 | 1/26/375:376, 1/26/387:389 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_5KPV_022 | 1/26/446:450, 1/26/483:488 | tSH-tHW-tWW | geometric IL_5J7L_022 NA | |
| IL_5KPV_024 | 1/26/504:511, 1/26/540:541 | SSU/LSU pseudoknot | homologous IL_5J7L_024 NA | |
| IL_5KPV_025 | 1/26/515:521, 1/26/528:536 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_5KPV_026 | 1/26/569:575, 1/26/880:881 | No text annotation | homologous IL_4LFB_022 IL_20847.1 | |
| IL_5KPV_029 | 1/26/597:598, 1/26/640:643 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_029 NA | |
| IL_5KPV_030 | 1/26/605:612, 1/26/628:633 | No text annotation | homologous IL_5J7L_030 NA | |
| IL_5KPV_032 | 1/26/659:660, 1/26/745:747 | Single stack bend | homologous IL_5J7L_032 NA | |
| IL_5KPV_033 | 1/26/662:666, 1/26/740:743 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_5KPV_180 | 1/26/673:677, 1/26/713:717 | Triple non-canonical cWW pairs | homologous IL_4LFB_065 IL_71154.3 | |
| IL_5KPV_035 | 1/26/684:688, 1/26/699:706 | Kink-turn | homologous IL_5J7L_035 NA | |
| IL_5KPV_036 | 1/26/774:778, 1/26/804:805 | Left turn | homologous IL_5J7L_036 NA | |
| IL_5KPV_037 | 1/26/779:783, 1/26/799:803 | tSH-tHW-tHS | homologous IL_5J7L_037 NA | |
| IL_5KPV_038 | 1/26/887:894, 1/26/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_5KPV_039 | 1/26/922:923, 1/26/1393:1395 | Single bulged A | homologous IL_4LFB_035 IL_14190.2 | |
| IL_5KPV_041 | 1/26/933:935, 1/26/1380:1384 | Minor groove platform | homologous IL_5J7L_041 NA | |
| IL_5KPV_042 | 1/26/953:954, 1/26/1226:1228 | No text annotation | homologous IL_6CZR_150 NA | |
| IL_5KPV_043 | 1/26/993:997, 1/26/1044:1045 | Minor groove platform | homologous IL_5J7L_043 NA | |
| IL_5KPV_045 | 1/26/1048:1050, 1/26/1208:1209 | No text annotation | homologous IL_6CZR_152 NA | |
| IL_5KPV_182 | 1/26/1052:1056, 1/26/1204:1206 | Isolated cWS basepair | homologous IL_4LFB_044 IL_82453.1 | |
| IL_5KPV_047 | 1/26/1057:1058, 1/26/1199:1203 | Minor groove platform | homologous IL_5J7L_048 NA | |
| IL_5KPV_048 | 1/26/1060:1061, 1/26/1195:1197 | Single bulged A | geometric IL_5J7L_049 NA | |
| IL_5KPV_049 | 1/26/1061:1063, 1/26/1193:1195 | Isolated non-canonical cWW pair | homologous IL_4LFB_047 IL_68118.3 | |
| IL_5KPV_052 | 1/26/1158:1161, 1/26/1175:1181 | No text annotation | homologous IL_4LFB_050 IL_32376.1 | |
| IL_5KPV_053 | 1/26/1247:1253, 1/26/1284:1290 | No text annotation | homologous IL_5J7L_054 NA | |
| IL_5KPV_054 | 1/26/1255:1258, 1/26/1277:1282 | 180 degree turn | homologous IL_5J7L_055 NA | |
| IL_5KPV_055 | 1/26/1259:1263, 1/26/1272:1276 | Double sheared with non-canonical cWW | homologous IL_5J7L_056 NA | |
| IL_5KPV_057 | 1/26/1399:1401, 1/26/1501:1504 | No text annotation | homologous IL_5J7L_058 NA | |
| IL_5KPV_058 | 1/26/1401:1404, 1/26/1497:1501 | No text annotation | geometric IL_4V88_464 NA | |
| IL_5KPV_059 | 1/26/1405:1407, 1/26/1494:1496 | Isolated non-canonical cWW pair | geometric IL_3GM7_005 IL_01003.3 | |
| IL_5KPV_060 | 1/26/1407:1409, 1/26/1491:1494 | Isolated non-canonical cWW pair | homologous IL_5J7L_363 NA | |
| IL_5KPV_062 | 1/26/1416:1419, 1/26/1481:1484 | Double sheared | homologous IL_5J7L_062 NA | |
| IL_5KPV_063 | 1/26/1430:1435, 1/26/1466:1470 | Triple sheared related | homologous IL_5J7L_063 NA | |
| IL_5KPV_065 | 1/26/1445:1448, 1/26/1455:1457 | No text annotation | homologous IL_5J7L_065 NA | |
| IL_5KPV_066 | 1/27/24:30, 1/27/510:516 | Triple sheared with non-canonical cWW | homologous IL_4WF9_001 IL_22311.1 | |
| IL_5KPV_067 | 1/27/36:37, 1/27/442:444 | Single bulged A | homologous IL_7A0S_002 IL_14190.2 | |
| IL_5KPV_069 | 1/27/81:85, 1/27/97:105 | No text annotation | homologous IL_5J7L_248 NA | |
| IL_5KPV_071 | 1/27/188:194, 1/27/201:208 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_5J7L_250 NA | |
| IL_5KPV_072 | 1/27/239:245, 1/27/253:258 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_5J7L_251 NA | |
| IL_5KPV_075 | 1/27/293:295, 1/27/343:347 | No text annotation | homologous IL_5J7L_254 NA | |
| IL_5KPV_076 | 1/27/481:484, 1/27/496:509 | No text annotation | homologous IL_5J7L_255 NA | |
| IL_5KPV_077 | 1/27/536:539, 1/27/554:557 | Double sheared | homologous IL_5J7L_256 NA | |
| IL_5KPV_078 | 1/27/564:566, 1/27/575:577 | Isolated non-canonical cWW pair | geometric IL_5J7L_257 NA | |
| IL_5KPV_079 | 1/27/606:610, 1/27/618:622 | AAA cross-strand stack | homologous IL_5J7L_258 NA | |
| IL_5KPV_080 | 1/27/672:674, 1/27/806:808 | Isolated non-canonical cWW pair | geometric IL_4KNQ_004 NA | |
| IL_5KPV_081 | 1/27/674:678, 1/27/799:806 | tHW-tHW cross-strand stack | homologous IL_7RQB_018 NA | |
| IL_5KPV_082 | 1/27/697:698, 1/27/763:765 | Single bulged A | homologous IL_5J7L_261 NA | |
| IL_5KPV_083 | 1/27/702:703, 1/27/728:730 | Single bulged G | geometric IL_7A0S_017 IL_28408.2 | |
| IL_5KPV_085 | 1/27/738:740, 1/27/757:758 | Major groove platform | homologous IL_4WF9_026 IL_48076.8 | |
| IL_5KPV_086 | 1/27/775:777, 1/27/787:791 | Multiple bulged bases | geometric IL_5J7L_265 NA | |
| IL_5KPV_087 | 1/27/837:838, 1/27/940:942 | Single stack bend | homologous IL_5J7L_266 NA | |
| IL_5KPV_183 | 1/27/844:848, 1/27/930:934 | No text annotation | homologous IL_5J7L_399 NA | |
| IL_5KPV_089 | 1/27/847:848, 1/27/930:933 | Stack outside cWW | homologous IL_5J7L_268 NA | |
| IL_5KPV_091 | 1/27/856:862, 1/27/915:921 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | geometric IL_5J7L_270 NA | |
| IL_5KPV_092 | 1/27/862:863, 1/27/913:915 | Single bulged G | homologous IL_5J7L_271 NA | |
| IL_5KPV_093 | 1/27/864:868, 1/27/909:912 | C-loop with bulged stacked A's | homologous IL_5J7L_272 NA | |
| IL_5KPV_094 | 1/27/870:872, 1/27/905:907 | Isolated non-canonical cWW pair | homologous IL_5J7L_273 NA | |
| IL_5KPV_097 | 1/27/994:996, 1/27/1159:1160 | Single bulged C | homologous IL_7RQB_035 NA | |
| IL_5KPV_098 | 1/27/998:1002, 1/27/1153:1157 | UAA/GAN | homologous IL_5J7L_277 NA | |
| IL_5KPV_099 | 1/27/1004:1011, 1/27/1150:1151 | SSU/LSU pseudoknot | geometric IL_5J7L_278 NA | |
| IL_5KPV_100 | 1/27/1011:1013, 1/27/1149:1150 | Single bulged U | homologous IL_5J7L_279 NA | |
| IL_5KPV_101 | 1/27/1018:1024, 1/27/1140:1144 | Kink-turn related | homologous IL_5J7L_280 NA | |
| IL_5KPV_102 | 1/27/1024:1030, 1/27/1124:1140 | No text annotation | geometric IL_5J7L_281 NA | |
| IL_5KPV_103 | 1/27/1031:1034, 1/27/1121:1123 | Isolated non-canonical cWW pair | homologous IL_5J7L_282 NA | |
| IL_5KPV_108 | 1/27/1196:1198, 1/27/1247:1250 | Isolated cWS basepair | homologous IL_5J7L_286 NA | |
| IL_5KPV_109 | 1/27/1202:1206, 1/27/1240:1243 | No text annotation | homologous IL_5J7L_287 NA | |
| IL_5KPV_110 | 1/27/1208:1215, 1/27/1234:1238 | Kink-turn | homologous IL_5J7L_288 NA | |
| IL_5KPV_111 | 1/27/1262:1269, 1/27/2011:2017 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_289 NA | |
| IL_5KPV_112 | 1/27/1310:1313, 1/27/1603:1604 | Major groove platform; stack outside cWW | homologous IL_4WF9_049 IL_74641.2 | |
| IL_5KPV_113 | 1/27/1319:1323, 1/27/1331:1333 | C-loop | homologous IL_5J7L_291 NA | |
| IL_5KPV_114 | 1/27/1351:1355, 1/27/1376:1380 | UAA/GAN | homologous IL_5J7L_292 NA | |
| IL_5KPV_115 | 1/27/1357:1361, 1/27/1370:1374 | tSH-tHW-tHS | homologous IL_5J7L_293 NA | |
| IL_5KPV_117 | 1/27/1417:1421, 1/27/1577:1581 | UAA/GAN | homologous IL_5J7L_295 NA | |
| IL_5KPV_118 | 1/27/1432:1435, 1/27/1557:1561 | Tandem non-canonical cWW pairs | homologous IL_5J7L_296 NA | |
| IL_5KPV_119 | 1/27/1437:1440, 1/27/1551:1555 | tSH-tHW | homologous IL_5J7L_297 NA | |
| IL_5KPV_120 | 1/27/1450:1451, 1/27/1459:1461 | Single bulged U | homologous IL_5J7L_298 NA | |
| IL_5KPV_121 | 1/27/1468:1471, 1/27/1520:1524 | No text annotation | homologous IL_5J7L_299 NA | |
| IL_5KPV_122 | 1/27/1474:1478, 1/27/1513:1517 | tSH-tHW-tHS | homologous IL_5J7L_300 NA | |
| IL_5KPV_123 | 1/27/1481:1482, 1/27/1507:1510 | 180 degree turn | homologous IL_5J7L_301 NA | |
| IL_5KPV_124 | 1/27/1489:1491, 1/27/1499:1500 | Single bulged A | homologous IL_5J7L_302 NA | |
| IL_5KPV_125 | 1/27/1526:1529, 1/27/1542:1546 | UAA/GAN variation | homologous IL_5J7L_303 NA | |
| IL_5KPV_126 | 1/27/1651:1656, 1/27/2004:2006 | No text annotation | homologous IL_5J7L_304 NA | |
| IL_5KPV_127 | 1/27/1663:1665, 1/27/1995:1997 | Isolated tWW turn | homologous IL_4WF9_063 IL_10432.1 | |
| IL_5KPV_128 | 1/27/1666:1669, 1/27/1993:1994 | Major groove platform; stack outside cWW | homologous IL_7A0S_061 IL_74641.2 | |
| IL_5KPV_185 | 1/27/1666:1674, 1/27/1990:1994 | No text annotation | homologous IL_7A0S_109 IL_80252.1 | |
| IL_5KPV_129 | 1/27/1669:1674, 1/27/1990:1993 | Intercalated tWH | geometric IL_7A0S_062 IL_28217.1 | |
| IL_5KPV_130 | 1/27/1686:1691, 1/27/1696:1702 | tSH-tSH-tHH-tHS | geometric IL_7RQB_068 NA | |
| IL_5KPV_131 | 1/27/1712:1718, 1/27/1742:1746 | 6x5 Sarcin-Ricin; G-bulge | homologous IL_5J7L_309 NA | |
| IL_5KPV_134 | 1/27/1770:1771, 1/27/1980:1982 | Single bulged A | homologous IL_7A0S_064 IL_14190.2 | |
| IL_5KPV_135 | 1/27/1798:1804, 1/27/1813:1821 | Kink-turn related | homologous IL_5J7L_313 NA | |
| IL_5KPV_136 | 1/27/1837:1840, 1/27/1902:1903 | Minor groove platform, major groove intercalation | homologous IL_5J7L_314 NA | |
| IL_5KPV_137 | 1/27/1841:1842, 1/27/1898:1901 | Major groove intercalation | homologous IL_5J7L_315 NA | |
| IL_5KPV_138 | 1/27/1846:1849, 1/27/1893:1894 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_316 NA | |
| IL_5KPV_186 | 1/27/1851:1860, 1/27/1882:1891 | No text annotation | homologous IL_5J7L_387 NA | |
| IL_5KPV_140 | 1/27/1933:1934, 1/27/1964:1967 | Bulged stacked bases | homologous IL_5J7L_318 NA | |
| IL_5KPV_141 | 1/27/1934:1945, 1/27/1961:1964 | No text annotation | geometric IL_4WF9_077 IL_84014.1 | |
| IL_5KPV_142 | 1/27/2050:2052, 1/27/2617:2618 | Major groove platform | homologous IL_5J7L_320 NA | |
| IL_5KPV_143 | 1/27/2054:2056, 1/27/2612:2615 | No text annotation | homologous IL_5J7L_321 NA | |
| IL_5KPV_144 | 1/27/2067:2069, 1/27/2442:2443 | Single bulged U | homologous IL_7A0S_075 IL_97561.3 | |
| IL_5KPV_145 | 1/27/2070:2071, 1/27/2438:2441 | Minor groove platform | homologous IL_5J7L_324 NA | |
| IL_5KPV_146 | 1/27/2081:2083, 1/27/2236:2239 | Isolated tHS basepair with bulges | homologous IL_5J7L_325 NA | |
| IL_5KPV_147 | 1/27/2085:2087, 1/27/2232:2234 | Isolated non-canonical cWW pair | homologous IL_5J7L_326 NA | |
| IL_5KPV_152 | 1/27/2202:2204, 1/27/2220:2221 | Single bulged U | homologous IL_5J7L_331 NA | |
| IL_5KPV_155 | 1/27/2453:2454, 1/27/2498:2500 | Single stack bend | geometric IL_4WF9_089 IL_15011.2 | |
| IL_5KPV_156 | 1/27/2454:2455, 1/27/2496:2498 | Major groove platform | homologous IL_7RQB_092 NA | |
| IL_5KPV_158 | 1/27/2459:2461, 1/27/2489:2493 | Major groove minor groove platform with extra cWW | homologous IL_5J7L_337 NA | |
| IL_5KPV_160 | 1/27/2507:2509, 1/27/2579:2582 | No text annotation | geometric IL_6DME_003 IL_75527.2 | |
| IL_5KPV_161 | 1/27/2510:2512, 1/27/2574:2578 | Isolated non-canonical cWW with bulges | geometric IL_4WF9_095 IL_68118.3 | |
| IL_5KPV_162 | 1/27/2512:2513, 1/27/2571:2574 | No text annotation | homologous IL_5J7L_341 NA | |
| IL_5KPV_163 | 1/27/2522:2523, 1/27/2540:2543 | Major groove platform with intercalation | homologous IL_7RQB_099 NA | |
| IL_5KPV_164 | 1/27/2591:2592, 1/27/2601:2603 | Single bulged A | homologous IL_7RQB_101 NA | |
| IL_5KPV_165 | 1/27/2636:2640, 1/27/2774:2782 | tSH-tHS-tHW | homologous IL_5J7L_345 NA | |
| IL_5KPV_166 | 1/27/2652:2658, 1/27/2663:2668 | Sarcin-Ricin target in LSU H95; G-bulge | homologous IL_7RQB_103 NA | |
| IL_5KPV_167 | 1/27/2680:2684, 1/27/2725:2727 | C-loop | homologous IL_5J7L_347 NA | |
| IL_5KPV_168 | 1/27/2687:2691, 1/27/2718:2722 | UAA/GAN related, with intercalation | homologous IL_5J7L_348 NA | |
| IL_5KPV_169 | 1/27/2695:2696, 1/27/2711:2714 | Multiple bulged bases | homologous IL_4WF9_103 IL_44609.2 | |
| IL_5KPV_170 | 1/27/2737:2742, 1/27/2762:2767 | UAA/GAN with extra cWW | homologous IL_5J7L_350 NA | |
| IL_5KPV_171 | 1/27/2806:2811, 1/27/2889:2892 | No text annotation | homologous IL_5J7L_351 NA | |
| IL_5KPV_173 | 1/27/2843:2846, 1/27/2870:2874 | Multiple bulged bases with non-canonical cWW | homologous IL_5J7L_353 NA | |
| IL_5KPV_174 | 1/27/2847:2852, 1/27/2865:2869 | tHS double platform | homologous IL_5J7L_354 NA | |
| IL_5KPV_177 | 1/28/30:31, 1/28/51:54 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_357 NA | |
| IL_5KPV_178 | 1/28/34:38, 1/28/44:48 | Symmetric double minor groove platform | geometric IL_5J7L_358 NA | |
| IL_5KPV_179 | 1/28/71:79, 1/28/97:105 | Bacterial 5S Loop E | homologous IL_5J7L_359 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_5KPV_006 | Minor groove platform with extra cWW | ||
| IL_5KPV_007 | Minor groove platform | ||
| IL_5KPV_008 | Stack outside cWW | ||
| IL_5KPV_013 | Minor groove platform | ||
| IL_5KPV_020 | No text annotation | ||
| IL_5KPV_021 | No text annotation | ||
| IL_5KPV_023 | No text annotation | ||
| IL_5KPV_027 | tSH-tHW-tHS | ||
| IL_5KPV_028 | Major groove platform | ||
| IL_5KPV_031 | Major groove platform; stack outside cWW | ||
| IL_5KPV_034 | No text annotation | ||
| IL_5KPV_040 | Single bulged G | ||
| IL_5KPV_044 | Single stack bend | ||
| IL_5KPV_181 | No text annotation | ||
| IL_5KPV_046 | Tandem non-canonical cWW pairs | ||
| IL_5KPV_050 | No text annotation | ||
| IL_5KPV_051 | Minor groove platform | ||
| IL_5KPV_056 | No text annotation | ||
| IL_5KPV_061 | Isolated non-canonical cWW pair | ||
| IL_5KPV_064 | Single bulged A | ||
| IL_5KPV_068 | Minor groove platform | ||
| IL_5KPV_070 | Single stack bend | ||
| IL_5KPV_073 | No text annotation | ||
| IL_5KPV_074 | No text annotation | ||
| IL_5KPV_084 | Triple sheared | ||
| IL_5KPV_088 | 90 degree turn | ||
| IL_5KPV_090 | Single stack bend | ||
| IL_5KPV_095 | Double sheared with non-canonical cWW | ||
| IL_5KPV_184 | Single bulged A | ||
| IL_5KPV_096 | Isolated non-canonical cWW with bulges | ||
| IL_5KPV_104 | Tandem non-canonical cWW pairs | ||
| IL_5KPV_105 | Kink-turn | ||
| IL_5KPV_106 | No text annotation | ||
| IL_5KPV_107 | No text annotation | ||
| IL_5KPV_116 | No text annotation | ||
| IL_5KPV_132 | Triple sheared | ||
| IL_5KPV_133 | Single bulged C | ||
| IL_5KPV_139 | UAA/GAN related | ||
| IL_5KPV_148 | Isolated non-canonical cWW pair | ||
| IL_5KPV_187 | No text annotation | ||
| IL_5KPV_149 | No text annotation | ||
| IL_5KPV_189 | No text annotation | ||
| IL_5KPV_150 | No text annotation | ||
| IL_5KPV_188 | No text annotation | ||
| IL_5KPV_151 | No text annotation | ||
| IL_5KPV_153 | Double sheared | ||
| IL_5KPV_154 | No text annotation | ||
| IL_5KPV_157 | Major groove platform with extra pair | ||
| IL_5KPV_159 | Double sheared with non-canonical cWW | ||
| IL_5KPV_172 | Major groove intercalation | ||
| IL_5KPV_175 | Major groove intercalation | ||
| IL_5KPV_176 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_5KPV_001 | 1/26/46:47, 1/26/361:367, 1/26/393:395 | No text annotation | homologous J3_5J7L_001 NA | |
| J3_5KPV_028 | 1/26/46:52, 1/26/359:367, 1/26/393:395 | No text annotation | homologous J3_5J7L_050 NA | |
| J3_5KPV_002 | 1/26/586:588, 1/26/651:654, 1/26/754:755 | No text annotation | geometric J3_4LFB_011 J3_01633.1 | |
| J3_5KPV_039 | 1/26/586:588, 1/26/651:655, 1/26/751:755 | No text annotation | homologous J3_5J7L_051 NA | |
| J3_5KPV_003 | 1/26/672:673, 1/26/717:725, 1/26/732:734 | No text annotation | homologous J3_5J7L_003 NA | |
| J3_5KPV_004 | 1/26/826:829, 1/26/857:861, 1/26/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J3_5KPV_006 | 1/26/943:946, 1/26/1235:1237, 1/26/1337:1340 | No text annotation | homologous J3_5J7L_005 NA | |
| J3_5KPV_007 | 1/26/955:962, 1/26/973:984, 1/26/1221:1225 | No text annotation | homologous J3_5J7L_006 NA | |
| J3_5KPV_008 | 1/26/990:993, 1/26/1045:1047, 1/26/1210:1215 | No text annotation | homologous J3_5J7L_007 NA | |
| J3_5KPV_031 | 1/26/990:997, 1/26/1044:1047, 1/26/1210:1215 | No text annotation | homologous J3_5J7L_053 NA | |
| J3_5KPV_010 | 1/26/1063:1068, 1/26/1107:1113, 1/26/1187:1193 | No text annotation | homologous J3_5J7L_008 NA | |
| J3_5KPV_011 | 1/26/1073:1074, 1/26/1083:1087, 1/26/1098:1102 | No text annotation | homologous J3_6CZR_024 NA | |
| J3_5KPV_012 | 1/26/1116:1118, 1/26/1155:1158, 1/26/1181:1184 | No text annotation | homologous J3_5J7L_010 NA | |
| J3_5KPV_032 | 1/26/1116:1118, 1/26/1155:1161, 1/26/1175:1184 | No text annotation | homologous J3_4LFB_018 J3_40706.1 | |
| J3_5KPV_013 | 1/26/1237:1241, 1/26/1296:1303, 1/26/1334:1337 | No text annotation | homologous J3_4LFB_009 J3_03192.1 | |
| J3_5KPV_014 | 1/27/30:31, 1/27/474:481, 1/27/509:510 | No text annotation | homologous J3_5J7L_036 NA | |
| J3_5KPV_033 | 1/27/30:31, 1/27/474:484, 1/27/496:510 | No text annotation | homologous J3_5J7L_066 NA | |
| J3_5KPV_034 | 1/27/32:35, 1/27/445:461, 1/27/468:473 | No text annotation | homologous J3_5J7L_067 NA | |
| J3_5KPV_015 | 1/27/56:57, 1/27/70:76, 1/27/110:114 | No text annotation | homologous J3_5J7L_037 NA | |
| J3_5KPV_035 | 1/27/297:301, 1/27/316:325, 1/27/337:341 | No text annotation | homologous J3_5J7L_068 NA | |
| J3_5KPV_016 | 1/27/683:689, 1/27/773:775, 1/27/791:794 | No text annotation | homologous J3_5J7L_038 NA | |
| J3_5KPV_017 | 1/27/698:700, 1/27/732:736, 1/27/760:763 | No text annotation | homologous J3_5J7L_039 NA | |
| J3_5KPV_019 | 1/27/1298:1303, 1/27/1625:1627, 1/27/1639:1642 | No text annotation | homologous J3_5J7L_041 NA | |
| J3_5KPV_020 | 1/27/1306:1309, 1/27/1605:1611, 1/27/1620:1622 | No text annotation | homologous J3_7A0S_007 J3_47341.1 | |
| J3_5KPV_021 | 1/27/1344:1349, 1/27/1382:1385, 1/27/1402:1403 | No text annotation | homologous J3_5J7L_043 NA | |
| J3_5KPV_036 | 1/27/1424:1429, 1/27/1564:1565, 1/27/1568:1574 | No text annotation | homologous J3_5J7L_069 NA | |
| J3_5KPV_022 | 1/27/2091:2093, 1/27/2196:2200, 1/27/2223:2228 | Kink-turn 3-way junction | homologous J3_5J7L_044 NA | |
| J3_5KPV_037 | 1/27/2282:2284, 1/27/2384:2395, 1/27/2421:2427 | No text annotation | homologous J3_5J7L_070 NA | |
| J3_5KPV_023 | 1/27/2295:2299, 1/27/2317:2323, 1/27/2332:2337 | No text annotation | ||
| J3_5KPV_024 | 1/27/2517:2520, 1/27/2545:2547, 1/27/2561:2567 | No text annotation | homologous J3_5J7L_046 NA | |
| J3_5KPV_025 | 1/27/2789:2791, 1/27/2805:2806, 1/27/2892:2894 | No text annotation | homologous J3_5J7L_047 NA | |
| J3_5KPV_026 | 1/27/2812:2815, 1/27/2831:2836, 1/27/2882:2888 | No text annotation | homologous J3_5J7L_048 NA | |
| J3_5KPV_027 | 1/28/10:16, 1/28/68:70, 1/28/106:110 | No text annotation | homologous J3_5J7L_049 NA | |
| J4_5KPV_001 | 1/26/115:122, 1/26/239:240, 1/26/286:289, 1/26/311:312 | No text annotation | homologous J4_5J7L_001 NA | |
| J4_5KPV_002 | 1/26/142:144, 1/26/178:184, 1/26/193:198, 1/26/219:221 | No text annotation | homologous J4_5J7L_002 NA | |
| J4_5KPV_003 | 1/26/575:577, 1/26/764:769, 1/26/810:821, 1/26/879:880 | No text annotation | homologous J4_5J7L_003 NA | |
| J4_5KPV_004 | 1/27/268:269, 1/27/370:375, 1/27/399:406, 1/27/421:424 | No text annotation | homologous J4_5J7L_018 NA | |
| J4_5KPV_006 | 1/27/1270:1276, 1/27/1294:1295, 1/27/1645:1648, 1/27/2009:2010 | No text annotation | homologous J4_5J7L_021 NA | |
| J4_5KPV_007 | 1/27/1313:1314, 1/27/1338:1343, 1/27/1404:1405, 1/27/1597:1603 | No text annotation | homologous J4_5J7L_023 NA | |
| J4_5KPV_008 | 1/27/1444:1445, 1/27/1466:1467, 1/27/1525:1526, 1/27/1546:1547 | No text annotation | homologous J4_5J7L_024 NA | |
| J4_5KPV_009 | 1/27/1772:1776, 1/27/1788:1792, 1/27/1827:1830, 1/27/1975:1979 | No text annotation | homologous J4_5J7L_025 NA | |
| J4_5KPV_016 | 1/27/1833:1835, 1/27/1905:1906, 1/27/1924:1933, 1/27/1967:1972 | No text annotation | homologous J4_9DFE_008 J4_42306.1 | |
| J4_5KPV_011 | 1/27/2285:2289, 1/27/2343:2347, 1/27/2370:2372, 1/27/2381:2383 | No text annotation | homologous J4_5J7L_027 NA | |
| J4_5KPV_012 | 1/27/2643:2646, 1/27/2674:2676, 1/27/2731:2735, 1/27/2769:2771 | No text annotation | homologous J4_5J7L_028 NA | |
| J5_5KPV_003 | 1/26/58:61, 1/26/106:113, 1/26/314:316, 1/26/337:339, 1/26/350:354 | No text annotation | homologous J5_5J7L_003 NA | |
| J5_5KPV_004 | 1/27/47:54, 1/27/116:121, 1/27/130:131, 1/27/148:150, 1/27/176:178 | No text annotation | homologous J5_5J7L_013 NA | |
| J5_5KPV_005 | 1/27/531:533, 1/27/560:564, 1/27/577:579, 1/27/1261:1262, 1/27/2017:2018 | No text annotation | homologous J5_5J7L_014 NA | |
| J5_5KPV_006 | 1/27/584:589, 1/27/668:671, 1/27/809:812, 1/27/1195:1196, 1/27/1250:1256 | No text annotation | homologous J5_5J7L_015 NA | |
| J5_5KPV_007 | 1/27/1674:1682, 1/27/1706:1707, 1/27/1751:1752, 1/27/1756:1764, 1/27/1988:1990 | No text annotation | homologous J5_5J7L_016 NA | |
| J5_5KPV_008 | 1/27/2057:2064, 1/27/2446:2453, 1/27/2500:2507, 1/27/2582:2588, 1/27/2606:2611 | No text annotation | ||
| J5_5KPV_009 | 1/27/2074:2077, 1/27/2243:2246, 1/27/2258:2259, 1/27/2281:2282, 1/27/2427:2435 | No text annotation | homologous J5_9DFE_007 J5_39529.2 | |
| J6_5KPV_001 | 1/27/45:46, 1/27/179:183, 1/27/214:224, 1/27/231:235, 1/27/262:266, 1/27/426:433 | No text annotation | ||
| J6_5KPV_002 | 1/27/2074:2077, 1/27/2243:2246, 1/27/2258:2259, 1/27/2281:2284, 1/27/2384:2395, 1/27/2421:2435 | No text annotation | ||
| J7_5KPV_001 | 1/27/8:15, 1/27/525:531, 1/27/2018:2023, 1/27/2040:2043, 1/27/2625:2630, 1/27/2788:2789, 1/27/2894:2895 | No text annotation | ||
| J7_5KPV_002 | 1/27/817:822, 1/27/835:837, 1/27/942:946, 1/27/971:976, 1/27/987:991, 1/27/1163:1164, 1/27/1185:1190 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_5KPV_029 | No text annotation | ||
| J3_5KPV_030 | No text annotation | ||
| J3_5KPV_005 | No text annotation | ||
| J3_5KPV_009 | No text annotation | ||
| J3_5KPV_018 | No text annotation | ||
| J3_5KPV_038 | No text annotation | ||
| J4_5KPV_005 | No text annotation | ||
| J4_5KPV_010 | No text annotation | ||
| J4_5KPV_013 | tRNA junction | ||
| J4_5KPV_014 | tRNA junction | ||
| J4_5KPV_015 | tRNA junction | ||
| J5_5KPV_001 | No text annotation | ||
| J5_5KPV_002 | No text annotation |
Coloring options: