7QV1 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_7QV1_001 | 1/B/36:42 | No text annotation | homologous HL_5J7L_203 NA | |
| HL_7QV1_002 | 1/B/84:88 | Mini UNCG | homologous HL_5J7L_204 NA | |
| HL_7QV1_003 | 1/H/13:22 | tRNA D-loop | homologous HL_4TUE_033 NA | |
| HL_7QV1_004 | 1/H/31:39 | tRNA anticodon loop | homologous HL_4TUE_034 NA | |
| HL_7QV1_006 | 1/V/67:74 | No text annotation | homologous HL_4WF9_001 HL_08550.2 | |
| HL_7QV1_007 | 1/V/87:95 | Pseudoknot geometry | homologous HL_4WF9_002 HL_00911.2 | |
| HL_7QV1_008 | 1/V/122:127 | No text annotation | homologous HL_4WF9_003 HL_75660.8 | |
| HL_7QV1_009 | 1/V/136:143 | GNRA wlth tandem sheared | homologous HL_4WF9_004 HL_98423.3 | |
| HL_7QV1_010 | 1/V/159:169 | No text annotation | homologous HL_5J7L_138 NA | |
| HL_7QV1_011 | 1/V/197:204 | No text annotation | geometric HL_7RQB_006 NA | |
| HL_7QV1_012 | 1/V/228:233 | No text annotation | homologous HL_7A0S_007 HL_51020.2 | |
| HL_7QV1_013 | 1/V/249:255 | No text annotation | homologous HL_5J7L_141 NA | |
| HL_7QV1_015 | 1/V/349:356 | T-loop with 1 bulged base | homologous HL_7A0S_010 HL_13999.3 | |
| HL_7QV1_016 | 1/V/363:367 | No text annotation | homologous HL_5J7L_143 NA | |
| HL_7QV1_017 | 1/V/371:379 | T-loop with unstacked turn | homologous HL_5J7L_144 NA | |
| HL_7QV1_018 | 1/V/429:439 | No text annotation | homologous HL_5J7L_145 NA | |
| HL_7QV1_019 | 1/V/457:464 | Pseudoknot geometry | homologous HL_7A0S_014 HL_30680.5 | |
| HL_7QV1_020 | 1/V/509:514 | GNRA | homologous HL_4WF9_015 HL_34789.4 | |
| HL_7QV1_021 | 1/V/534:539 | GNRA | homologous HL_7RQB_016 NA | |
| HL_7QV1_022 | 1/V/588:595 | No text annotation | homologous HL_4WF9_017 HL_50318.1 | |
| HL_7QV1_023 | 1/V/610:619 | No text annotation | geometric HL_7RQB_018 NA | |
| HL_7QV1_024 | 1/V/656:662 | GNRA | geometric HL_5J7L_026 NA | |
| HL_7QV1_025 | 1/V/675:680 | GNRA | homologous HL_4WF9_020 HL_34789.4 | |
| HL_7QV1_026 | 1/V/687:693 | No text annotation | homologous HL_7RQB_021 NA | |
| HL_7QV1_028 | 1/V/791:800 | No text annotation | homologous HL_4WF9_023 HL_50204.1 | |
| HL_7QV1_029 | 1/V/826:832 | No text annotation | geometric HL_5U3G_001 HL_75660.8 | |
| HL_7QV1_030 | 1/V/873:878 | No text annotation | homologous HL_7RQB_025 NA | |
| HL_7QV1_032 | 1/V/1001:1008 | GNRA | homologous HL_7A0S_026 HL_34789.4 | |
| HL_7QV1_033 | 1/V/1024:1031 | No text annotation | homologous HL_7A0S_027 HL_47171.1 | |
| HL_7QV1_036 | 1/V/1262:1267 | GNRA | homologous HL_7A0S_031 HL_34789.4 | |
| HL_7QV1_037 | 1/V/1320:1328 | T-loop with 2 stacked bulged bases | homologous HL_7A0S_032 HL_33597.3 | |
| HL_7QV1_038 | 1/V/1363:1369 | Pseudoknot geometry with 3' bulge | homologous HL_4WF9_033 HL_49081.1 | |
| HL_7QV1_039 | 1/V/1402:1407 | GNRA | homologous HL_5J7L_167 NA | |
| HL_7QV1_040 | 1/V/1428:1437 | No text annotation | homologous HL_4WF9_035 HL_77449.1 | |
| HL_7QV1_041 | 1/V/1497:1508 | No text annotation | geometric HL_5U3G_001 HL_75660.8 | |
| HL_7QV1_042 | 1/V/1538:1544 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_170 NA | |
| HL_7QV1_043 | 1/V/1613:1616 | No text annotation | homologous HL_7RQB_039 NA | |
| HL_7QV1_044 | 1/V/1657:1664 | No text annotation | homologous HL_7RQB_040 NA | |
| HL_7QV1_045 | 1/V/1675:1681 | GNRA | homologous HL_5J7L_174 NA | |
| HL_7QV1_046 | 1/V/1736:1741 | No text annotation | homologous HL_7RQB_042 NA | |
| HL_7QV1_048 | 1/V/1781:1785 | No text annotation | homologous HL_7RQB_044 NA | |
| HL_7QV1_049 | 1/V/1806:1816 | No text annotation | homologous HL_4WF9_043 HL_87681.1 | |
| HL_7QV1_050 | 1/V/1835:1840 | No text annotation | homologous HL_4WF9_044 NA | |
| HL_7QV1_109 | 1/V/1939:1949 | No text annotation | ||
| HL_7QV1_053 | 1/V/1978:1986 | No text annotation | homologous HL_5J7L_182 NA | |
| HL_7QV1_054 | 1/V/2056:2065 | No text annotation | homologous HL_4WF9_047 HL_78372.1 | |
| HL_7QV1_056 | 1/V/2238:2244 | No text annotation | homologous HL_5J7L_185 NA | |
| HL_7QV1_057 | 1/V/2277:2285 | No text annotation | homologous HL_7A0S_052 HL_11974.2 | |
| HL_7QV1_058 | 1/V/2293:2305 | No text annotation | homologous HL_5J7L_187 NA | |
| HL_7QV1_106 | 1/V/2333:2341 | No text annotation | homologous HL_5J7L_219 NA | |
| HL_7QV1_060 | 1/V/2353:2360 | Pseudoknot geometry | homologous HL_4WF9_052 HL_52651.2 | |
| HL_7QV1_061 | 1/V/2384:2391 | GNRA with extra cWW | homologous HL_4WF9_053 HL_87268.2 | |
| HL_7QV1_062 | 1/V/2403:2408 | GNRA | homologous HL_7A0S_057 HL_34789.4 | |
| HL_7QV1_063 | 1/V/2433:2442 | No text annotation | homologous HL_7A0S_058 HL_51853.2 | |
| HL_7QV1_064 | 1/V/2500:2508 | No text annotation | homologous HL_4WF9_056 HL_52011.1 | |
| HL_7QV1_065 | 1/V/2557:2564 | GNRA variation | homologous HL_4WF9_057 HL_46665.2 | |
| HL_7QV1_066 | 1/V/2580:2586 | No text annotation | homologous HL_4WF9_058 HL_48677.1 | |
| HL_7QV1_067 | 1/V/2623:2628 | GNRA | homologous HL_7A0S_062 HL_34789.4 | |
| HL_7QV1_107 | 1/V/2681:2697 | No text annotation | ||
| HL_7QV1_068 | 1/V/2687:2692 | GNRA | geometric HL_3E5C_001 HL_34789.4 | |
| HL_7QV1_069 | 1/V/2730:2735 | Ribsomal LSU H95 | homologous HL_7A0S_064 HL_12125.2 | |
| HL_7QV1_070 | 1/V/2774:2788 | No text annotation | homologous HL_5J7L_199 NA | |
| HL_7QV1_072 | 1/V/2844:2852 | No text annotation | homologous HL_5J7L_201 NA | |
| HL_7QV1_073 | 1/V/2881:2886 | GNRA | homologous HL_7A0S_068 HL_34789.4 | |
| HL_7QV1_074 | 1/a/14:24 | No text annotation | homologous HL_4LFB_001 HL_73535.1 | |
| HL_7QV1_077 | 1/a/192:197 | No text annotation | ||
| HL_7QV1_079 | 1/a/267:275 | GNRA related | homologous HL_4LFB_006 HL_87268.2 | |
| HL_7QV1_080 | 1/a/304:309 | GNRA | homologous HL_5J7L_007 NA | |
| HL_7QV1_081 | 1/a/328:341 | No text annotation | homologous HL_5J7L_008 NA | |
| HL_7QV1_086 | 1/a/531:536 | No text annotation | geometric HL_4WF9_003 HL_75660.8 | |
| HL_7QV1_087 | 1/a/626:632 | GNRA-like with tWH | homologous HL_5J7L_014 NA | |
| HL_7QV1_088 | 1/a/698:707 | No text annotation | homologous HL_5J7L_015 NA | |
| HL_7QV1_089 | 1/a/735:740 | GNRA | homologous HL_4LFB_016 HL_34789.4 | |
| HL_7QV1_090 | 1/a/795:805 | No text annotation | homologous HL_5J7L_017 NA | |
| HL_7QV1_092 | 1/a/872:877 | GNRA | homologous HL_4LFB_019 HL_34789.4 | |
| HL_7QV1_093 | 1/a/907:912 | GNRA | homologous HL_4LFB_020 HL_34789.4 | |
| HL_7QV1_094 | 1/a/973:982 | No text annotation | homologous HL_4LFB_021 HL_97521.1 | |
| HL_7QV1_097 | 1/a/1086:1091 | GNRA | homologous HL_5J7L_023 NA | |
| HL_7QV1_098 | 1/a/1099:1106 | T-loop related | homologous HL_4LFB_025 HL_63894.2 | |
| HL_7QV1_105 | 1/a/1525:1530 | GNRA | homologous HL_6CZR_103 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7QV1_005 | T-loop with 2 stacked bulged bases | ||
| HL_7QV1_014 | No text annotation | ||
| HL_7QV1_108 | No text annotation | ||
| HL_7QV1_027 | GNRA wlth tandem sheared | ||
| HL_7QV1_031 | No text annotation | ||
| HL_7QV1_034 | No text annotation | ||
| HL_7QV1_035 | GNRA related | ||
| HL_7QV1_047 | No text annotation | ||
| HL_7QV1_051 | No text annotation | ||
| HL_7QV1_052 | No text annotation | ||
| HL_7QV1_055 | No text annotation | ||
| HL_7QV1_059 | No text annotation | ||
| HL_7QV1_071 | No text annotation | ||
| HL_7QV1_075 | Externally structured | ||
| HL_7QV1_076 | GNRA | ||
| HL_7QV1_078 | UNCG | ||
| HL_7QV1_082 | UNCG | ||
| HL_7QV1_083 | GNRA | ||
| HL_7QV1_084 | UNCG | ||
| HL_7QV1_085 | GNRA | ||
| HL_7QV1_091 | Externally structured | ||
| HL_7QV1_095 | GNRA | ||
| HL_7QV1_096 | No text annotation | ||
| HL_7QV1_099 | T-loop related | ||
| HL_7QV1_100 | GNRA | ||
| HL_7QV1_101 | GNRA | ||
| HL_7QV1_102 | T-loop with 3 stacked bulged bases | ||
| HL_7QV1_103 | No text annotation | ||
| HL_7QV1_104 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_7QV1_001 | 1/B/15:16, 1/B/63:65 | Major groove intercalation | homologous IL_4WF9_112 IL_14190.2 | |
| IL_7QV1_002 | 1/B/21:27, 1/B/53:58 | No text annotation | geometric IL_9E6Q_106 IL_41504.1 | |
| IL_7QV1_004 | 1/B/32:36, 1/B/42:46 | Symmetric double minor groove platform | geometric IL_5NS3_002 IL_58103.12 | |
| IL_7QV1_005 | 1/B/69:77, 1/B/95:103 | Bacterial 5S Loop E | homologous IL_7RQB_115 NA | |
| IL_7QV1_006 | 1/B/78:80, 1/B/92:94 | Isolated non-canonical cWW pair | geometric IL_7A0S_107 IL_71625.3 | |
| IL_7QV1_007 | 1/V/24:30, 1/V/556:562 | Triple sheared with non-canonical cWW | geometric IL_4WF9_001 IL_22311.1 | |
| IL_7QV1_008 | 1/V/36:37, 1/V/489:491 | Single bulged A | homologous IL_7RQB_002 NA | |
| IL_7QV1_009 | 1/V/43:44, 1/V/481:483 | Minor groove platform | homologous IL_5J7L_247 NA | |
| IL_7QV1_183 | 1/V/56:76, 1/V/109:113 | No text annotation | geometric IL_5TBW_144 NA | |
| IL_7QV1_010 | 1/V/81:85, 1/V/97:104 | Kink-turn | homologous IL_7RQB_004 NA | |
| IL_7QV1_011 | 1/V/152:153, 1/V/175:177 | Single bulged A | homologous IL_4WF9_006 IL_14190.2 | |
| IL_7QV1_012 | 1/V/186:187, 1/V/215:217 | Single stack bend | homologous IL_7A0S_005 IL_15011.3 | |
| IL_7QV1_013 | 1/V/191:197, 1/V/204:211 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_7A0S_006 IL_62167.3 | |
| IL_7QV1_014 | 1/V/241:248, 1/V/256:262 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_4WF9_009 IL_62167.3 | |
| IL_7QV1_015 | 1/V/305:306, 1/V/410:413 | Minor groove platform | geometric IL_3RW6_003 IL_24264.1 | |
| IL_7QV1_016 | 1/V/336:338, 1/V/387:391 | No text annotation | homologous IL_5J7L_254 NA | |
| IL_7QV1_017 | 1/V/344:346, 1/V/359:360 | Single bulged A | geometric IL_7A0S_012 IL_14190.2 | |
| IL_7QV1_018 | 1/V/528:531, 1/V/542:555 | No text annotation | geometric IL_4WF9_015 IL_44923.1 | |
| IL_7QV1_019 | 1/V/582:586, 1/V/597:601 | Double sheared with near cWW | geometric IL_7A0S_056 IL_87767.2 | |
| IL_7QV1_020 | 1/V/608:610, 1/V/619:621 | Isolated non-canonical cWW pair | homologous IL_4WF9_017 IL_71625.3 | |
| IL_7QV1_021 | 1/V/639:641, 1/V/707:709 | Isolated non-canonical cWW pair | homologous IL_4WF9_018 IL_71625.3 | |
| IL_7QV1_022 | 1/V/650:654, 1/V/664:668 | AAA cross-strand stack | homologous IL_5J7L_258 NA | |
| IL_7QV1_023 | 1/V/719:721, 1/V/853:855 | No text annotation | geometric IL_7RQB_017 NA | |
| IL_7QV1_024 | 1/V/721:725, 1/V/846:853 | tHW-tHW cross-strand stack | homologous IL_7RQB_018 NA | |
| IL_7QV1_025 | 1/V/744:745, 1/V/810:812 | Single bulged A | homologous IL_7A0S_016 IL_14190.2 | |
| IL_7QV1_026 | 1/V/749:750, 1/V/775:777 | Single bulged G | homologous IL_5J7L_262 NA | |
| IL_7QV1_027 | 1/V/750:754, 1/V/771:775 | Triple sheared | geometric IL_7RQB_021 NA | |
| IL_7QV1_028 | 1/V/785:787, 1/V/804:805 | Major groove platform | homologous IL_5J7L_264 NA | |
| IL_7QV1_029 | 1/V/822:824, 1/V/834:838 | Multiple bulged bases | homologous IL_5J7L_265 NA | |
| IL_7QV1_030 | 1/V/884:885, 1/V/986:988 | Single stack bend | homologous IL_7A0S_022 IL_15011.3 | |
| IL_7QV1_031 | 1/V/891:895, 1/V/977:980 | No text annotation | homologous IL_4WF9_029 IL_01742.1 | |
| IL_7QV1_032 | 1/V/899:902, 1/V/969:973 | No text annotation | ||
| IL_7QV1_033 | 1/V/903:909, 1/V/962:968 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | homologous IL_4WF9_031 IL_94128.1 | |
| IL_7QV1_034 | 1/V/909:910, 1/V/960:962 | Minor groove platform | geometric IL_4V9F_034 IL_34520.3 | |
| IL_7QV1_035 | 1/V/911:915, 1/V/956:959 | C-loop | homologous IL_4WF9_033 IL_16301.1 | |
| IL_7QV1_038 | 1/V/998:1000, 1/V/1009:1011 | Isolated non-canonical cWW pair | homologous IL_7A0S_031 IL_01003.4 | |
| IL_7QV1_039 | 1/V/1040:1042, 1/V/1205:1206 | Single bulged C | homologous IL_7RQB_035 NA | |
| IL_7QV1_040 | 1/V/1044:1048, 1/V/1199:1203 | UAA/GAN | homologous IL_7A0S_033 IL_08938.1 | |
| IL_7QV1_041 | 1/V/1050:1057, 1/V/1196:1197 | SSU/LSU pseudoknot | geometric IL_5J7L_278 NA | |
| IL_7QV1_042 | 1/V/1057:1059, 1/V/1195:1196 | Single bulged U | homologous IL_5J7L_279 NA | |
| IL_7QV1_043 | 1/V/1064:1070, 1/V/1186:1190 | Kink-turn related | geometric IL_4WF9_039 IL_57188.6 | |
| IL_7QV1_044 | 1/V/1070:1076, 1/V/1170:1186 | No text annotation | geometric IL_4WF9_040 IL_50715.4 | |
| IL_7QV1_045 | 1/V/1077:1080, 1/V/1167:1169 | Isolated non-canonical cWW pair | homologous IL_7A0S_038 IL_76400.1 | |
| IL_7QV1_185 | 1/V/1238:1239, 1/V/1287:1289 | No text annotation | ||
| IL_7QV1_050 | 1/V/1243:1247, 1/V/1279:1283 | No text annotation | ||
| IL_7QV1_051 | 1/V/1248:1255, 1/V/1274:1278 | Kink-turn | homologous IL_7RQB_047 NA | |
| IL_7QV1_052 | 1/V/1259:1261, 1/V/1268:1270 | Intercalated cWW | homologous IL_7A0S_044 IL_53541.1 | |
| IL_7QV1_053 | 1/V/1302:1309, 1/V/2040:2046 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_7RQB_049 NA | |
| IL_7QV1_054 | 1/V/1349:1352, 1/V/1648:1649 | Major groove platform; stack outside cWW | homologous IL_7RQB_050 NA | |
| IL_7QV1_055 | 1/V/1358:1362, 1/V/1370:1372 | Major groove minor groove platform with tHH | homologous IL_4WF9_050 IL_06671.1 | |
| IL_7QV1_056 | 1/V/1390:1392, 1/V/1418:1419 | Single stack bend | geometric IL_7A0S_005 IL_15011.3 | |
| IL_7QV1_186 | 1/V/1390:1394, 1/V/1415:1419 | UAA/GAN | homologous IL_7A0S_048 IL_89021.4 | |
| IL_7QV1_057 | 1/V/1392:1394, 1/V/1415:1418 | No text annotation | ||
| IL_7QV1_058 | 1/V/1396:1400, 1/V/1409:1413 | tSH-tHW-tHS | homologous IL_5J7L_293 NA | |
| IL_7QV1_059 | 1/V/1448:1450, 1/V/1637:1638 | Multiple bulged bases | geometric IL_8C3A_400 NA | |
| IL_7QV1_061 | 1/V/1463:1467, 1/V/1625:1628 | Other IL | homologous IL_4WF9_054 IL_74317.1 | |
| IL_7QV1_062 | 1/V/1478:1481, 1/V/1605:1609 | No text annotation | ||
| IL_7QV1_187 | 1/V/1483:1486, 1/V/1599:1603 | No text annotation | homologous IL_9DFE_056 IL_74317.1 | |
| IL_7QV1_064 | 1/V/1488:1490, 1/V/1596:1597 | Major groove platform | geometric IL_5Y85_005 IL_48076.8 | |
| IL_7QV1_065 | 1/V/1515:1518, 1/V/1567:1571 | No text annotation | homologous IL_5J7L_299 NA | |
| IL_7QV1_066 | 1/V/1522:1525, 1/V/1560:1563 | Double sheared | geometric IL_4V88_468 NA | |
| IL_7QV1_068 | 1/V/1535:1537, 1/V/1545:1546 | Single bulged A | homologous IL_5J7L_302 NA | |
| IL_7QV1_069 | 1/V/1573:1576, 1/V/1590:1594 | UAA/GAN variation | homologous IL_5J7L_303 NA | |
| IL_7QV1_070 | 1/V/1696:1701, 1/V/2033:2035 | No text annotation | homologous IL_4WF9_062 IL_12566.5 | |
| IL_7QV1_071 | 1/V/1708:1710, 1/V/2024:2026 | Isolated tWW turn | homologous IL_4WF9_063 IL_10432.1 | |
| IL_7QV1_072 | 1/V/1711:1714, 1/V/2022:2023 | Major groove platform; stack outside cWW | geometric IL_5TBW_076 NA | |
| IL_7QV1_189 | 1/V/1711:1719, 1/V/2019:2023 | No text annotation | homologous IL_4WF9_117 IL_80252.1 | |
| IL_7QV1_073 | 1/V/1714:1719, 1/V/2019:2022 | Intercalated tWH | homologous IL_4WF9_065 IL_28217.1 | |
| IL_7QV1_074 | 1/V/1731:1736, 1/V/1741:1747 | tSH-tSH-tHH-tHS | geometric IL_7RQB_068 NA | |
| IL_7QV1_075 | 1/V/1755:1761, 1/V/1772:1777 | No text annotation | ||
| IL_7QV1_076 | 1/V/1799:1800, 1/V/2009:2011 | Single bulged A | homologous IL_5J7L_312 NA | |
| IL_7QV1_077 | 1/V/1827:1833, 1/V/1842:1850 | Kink-turn related | homologous IL_7A0S_065 IL_17069.6 | |
| IL_7QV1_078 | 1/V/1866:1869, 1/V/1931:1932 | Minor groove platform, major groove intercalation | homologous IL_5J7L_314 NA | |
| IL_7QV1_079 | 1/V/1870:1871, 1/V/1927:1930 | Major groove intercalation | homologous IL_5J7L_315 NA | |
| IL_7QV1_080 | 1/V/1875:1878, 1/V/1922:1923 | Major groove minor groove platform; mini C-loop | homologous IL_4WF9_072 IL_73108.2 | |
| IL_7QV1_081 | 1/V/1880:1884, 1/V/1916:1920 | UAA/GAN with extra stack | homologous IL_7RQB_074 NA | |
| IL_7QV1_197 | 1/V/1885:1889, 1/V/1911:1915 | Triple sheared | homologous IL_9DFE_075 IL_15190.2 | |
| IL_7QV1_083 | 1/V/1893:1896, 1/V/1903:1907 | UAA/GAN related | homologous IL_5J7L_317 NA | |
| IL_7QV1_084 | 1/V/1962:1963, 1/V/1993:1996 | Bulged stacked bases | homologous IL_7A0S_071 IL_24886.2 | |
| IL_7QV1_085 | 1/V/1963:1974, 1/V/1990:1993 | No text annotation | geometric IL_4WF9_077 IL_84014.1 | |
| IL_7QV1_086 | 1/V/2079:2081, 1/V/2646:2647 | Major groove platform | homologous IL_5J7L_320 NA | |
| IL_7QV1_087 | 1/V/2083:2085, 1/V/2641:2644 | No text annotation | homologous IL_5J7L_321 NA | |
| IL_7QV1_088 | 1/V/2096:2098, 1/V/2471:2472 | Single bulged U | homologous IL_7RQB_080 NA | |
| IL_7QV1_089 | 1/V/2099:2100, 1/V/2467:2470 | Minor groove platform | homologous IL_7RQB_081 NA | |
| IL_7QV1_090 | 1/V/2110:2112, 1/V/2265:2268 | Isolated tHS basepair with bulges | homologous IL_7RQB_082 NA | |
| IL_7QV1_091 | 1/V/2123:2126, 1/V/2222:2224 | No text annotation | geometric IL_4N0T_004 IL_32983.2 | |
| IL_7QV1_096 | 1/V/2230:2233, 1/V/2249:2251 | Isolated non-canonical cWW pair | geometric IL_3TD0_005 NA | |
| IL_7QV1_097 | 1/V/2379:2382, 1/V/2393:2396 | Double sheared | homologous IL_5J7L_333 NA | |
| IL_7QV1_098 | 1/V/2430:2432, 1/V/2443:2444 | Single bulged U | homologous IL_5J7L_334 NA | |
| IL_7QV1_099 | 1/V/2482:2483, 1/V/2527:2529 | Single stack bend | homologous IL_4WF9_089 IL_15011.3 | |
| IL_7QV1_100 | 1/V/2483:2484, 1/V/2525:2527 | Major groove platform | geometric IL_4LFB_024 IL_48076.8 | |
| IL_7QV1_101 | 1/V/2486:2488, 1/V/2522:2523 | Major groove platform | homologous IL_7A0S_085 IL_48076.8 | |
| IL_7QV1_102 | 1/V/2488:2490, 1/V/2518:2522 | Major groove minor groove platform with extra cWW | geometric IL_7RQB_094 NA | |
| IL_7QV1_103 | 1/V/2495:2499, 1/V/2509:2513 | Double sheared with non-canonical cWW | homologous IL_5J7L_338 NA | |
| IL_7QV1_104 | 1/V/2536:2537, 1/V/2609:2611 | Major groove platform | homologous IL_4WF9_094 IL_46637.2 | |
| IL_7QV1_105 | 1/V/2539:2541, 1/V/2603:2607 | Isolated non-canonical cWW with bulges | homologous IL_4WF9_095 IL_68118.4 | |
| IL_7QV1_106 | 1/V/2541:2542, 1/V/2600:2603 | Multiple bulged bases | geometric IL_7RQB_098 NA | |
| IL_7QV1_107 | 1/V/2551:2552, 1/V/2569:2572 | Major groove platform with intercalation | homologous IL_4WF9_097 IL_94991.2 | |
| IL_7QV1_108 | 1/V/2620:2621, 1/V/2630:2632 | Single bulged A | homologous IL_7RQB_101 NA | |
| IL_7QV1_109 | 1/V/2665:2669, 1/V/2803:2811 | tSH-tHS-tHW | homologous IL_7RQB_102 NA | |
| IL_7QV1_110 | 1/V/2681:2687, 1/V/2692:2697 | Sarcin-Ricin target in LSU H95; G-bulge | homologous IL_5J7L_346 NA | |
| IL_7QV1_111 | 1/V/2709:2713, 1/V/2754:2756 | C-loop | homologous IL_5J7L_347 NA | |
| IL_7QV1_112 | 1/V/2716:2720, 1/V/2747:2751 | UAA/GAN related, with intercalation | homologous IL_4WF9_102 IL_82016.1 | |
| IL_7QV1_113 | 1/V/2724:2725, 1/V/2740:2743 | Multiple bulged bases | homologous IL_7A0S_097 IL_44609.2 | |
| IL_7QV1_114 | 1/V/2766:2771, 1/V/2791:2796 | UAA/GAN with extra cWW | homologous IL_7RQB_107 NA | |
| IL_7QV1_115 | 1/V/2863:2864, 1/V/2903:2905 | Single bulged C | homologous IL_7RQB_108 NA | |
| IL_7QV1_116 | 1/V/2868:2870, 1/V/2896:2899 | No text annotation | homologous IL_4WF9_107 IL_05502.1 | |
| IL_7QV1_117 | 1/V/2872:2877, 1/V/2890:2894 | tHS double platform | homologous IL_4WF9_108 IL_48489.1 | |
| IL_7QV1_118 | 1/a/32:34, 1/a/561:562 | Single bulged G | homologous IL_5J7L_001 NA | |
| IL_7QV1_119 | 1/a/46:47, 1/a/404:406 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_7QV1_120 | 1/a/49:54, 1/a/367:369 | No text annotation | homologous IL_5J7L_003 NA | |
| IL_7QV1_122 | 1/a/65:68, 1/a/101:102 | Multiple bulged bases | homologous IL_4LFB_005 IL_71421.3 | |
| IL_7QV1_126 | 1/a/127:130, 1/a/239:240 | Multiple bulged bases | homologous IL_4LFB_007 IL_75289.2 | |
| IL_7QV1_127 | 1/a/131:135, 1/a/235:238 | No text annotation | homologous IL_4LFB_008 IL_60988.2 | |
| IL_7QV1_128 | 1/a/146:152, 1/a/167:174 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_7QV1_129 | 1/a/250:255, 1/a/285:292 | Kink-turn with non-sequential stacking | geometric IL_4V88_402 NA | |
| IL_7QV1_130 | 1/a/257:260, 1/a/282:283 | No text annotation | homologous IL_4LFB_012 IL_22002.1 | |
| IL_7QV1_131 | 1/a/300:301, 1/a/312:316 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_7QV1_132 | 1/a/375:377, 1/a/400:401 | Single bulged U | homologous IL_5J7L_017 NA | |
| IL_7QV1_133 | 1/a/379:383, 1/a/397:398 | C-loop | homologous IL_5J7L_018 NA | |
| IL_7QV1_134 | 1/a/383:384, 1/a/395:397 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_7QV1_137 | 1/a/458:464, 1/a/486:492 | No text annotation | ||
| IL_7QV1_138 | 1/a/513:520, 1/a/549:550 | SSU/LSU pseudoknot | homologous IL_5J7L_024 NA | |
| IL_7QV1_139 | 1/a/524:530, 1/a/537:545 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_7QV1_140 | 1/a/578:584, 1/a/890:891 | No text annotation | homologous IL_5J7L_026 NA | |
| IL_7QV1_141 | 1/a/589:593, 1/a/766:770 | tSH-tHW-tHS | homologous IL_5J7L_027 NA | |
| IL_7QV1_142 | 1/a/603:605, 1/a/653:654 | Major groove platform | homologous IL_5J7L_028 NA | |
| IL_7QV1_143 | 1/a/606:607, 1/a/649:652 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_029 NA | |
| IL_7QV1_144 | 1/a/613:614, 1/a/641:643 | No text annotation | ||
| IL_7QV1_145 | 1/a/614:621, 1/a/637:641 | No text annotation | homologous IL_5J7L_030 NA | |
| IL_7QV1_146 | 1/a/663:664, 1/a/760:763 | Major groove platform; stack outside cWW | geometric IL_4LFB_027 IL_74641.2 | |
| IL_7QV1_147 | 1/a/666:668, 1/a/755:758 | No text annotation | ||
| IL_7QV1_148 | 1/a/671:675, 1/a/749:752 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_7QV1_196 | 1/a/682:686, 1/a/722:726 | Triple non-canonical cWW pairs | homologous IL_4LFB_065 IL_71154.3 | |
| IL_7QV1_150 | 1/a/693:697, 1/a/708:715 | Kink-turn | geometric IL_7RQB_004 NA | |
| IL_7QV1_151 | 1/a/783:787, 1/a/813:814 | Left turn | homologous IL_4LFB_032 IL_29346.3 | |
| IL_7QV1_152 | 1/a/788:792, 1/a/808:812 | tSH-tHW-tHS | homologous IL_4LFB_033 IL_05821.1 | |
| IL_7QV1_153 | 1/a/897:904, 1/a/915:920 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_7QV1_154 | 1/a/932:933, 1/a/1402:1404 | Single bulged A | homologous IL_5J7L_039 NA | |
| IL_7QV1_155 | 1/a/935:937, 1/a/1399:1400 | Single bulged G | homologous IL_5J7L_040 NA | |
| IL_7QV1_156 | 1/a/943:945, 1/a/1389:1393 | Minor groove platform | homologous IL_5J7L_041 NA | |
| IL_7QV1_161 | 1/a/1062:1066, 1/a/1213:1215 | Isolated cWS basepair | homologous IL_4LFB_044 IL_82453.1 | |
| IL_7QV1_162 | 1/a/1067:1068, 1/a/1208:1212 | Minor groove platform | homologous IL_5J7L_048 NA | |
| IL_7QV1_163 | 1/a/1070:1071, 1/a/1204:1206 | Single bulged A | geometric IL_5J7L_049 NA | |
| IL_7QV1_164 | 1/a/1071:1073, 1/a/1202:1204 | Isolated non-canonical cWW pair | geometric IL_5J7L_050 NA | |
| IL_7QV1_172 | 1/a/1408:1410, 1/a/1511:1514 | No text annotation | homologous IL_5J7L_058 NA | |
| IL_7QV1_173 | 1/a/1410:1413, 1/a/1507:1511 | No text annotation | geometric IL_4V88_464 NA | |
| IL_7QV1_174 | 1/a/1414:1416, 1/a/1504:1506 | Isolated non-canonical cWW pair | geometric IL_5VCI_002 IL_01003.4 | |
| IL_7QV1_175 | 1/a/1416:1418, 1/a/1501:1504 | Stack and bulge | geometric IL_2O3X_001 IL_53541.1 | |
| IL_7QV1_176 | 1/a/1421:1423, 1/a/1496:1498 | Isolated non-canonical cWW pair | homologous IL_5J7L_061 NA | |
| IL_7QV1_177 | 1/a/1425:1428, 1/a/1491:1494 | Double sheared | homologous IL_6CZR_169 NA | |
| IL_7QV1_178 | 1/a/1433:1436, 1/a/1483:1486 | Tandem non-canonical cWW pairs | geometric IL_5TBW_100 NA | |
| IL_7QV1_179 | 1/a/1439:1444, 1/a/1476:1480 | Triple sheared related | geometric IL_5J7L_063 NA | |
| IL_7QV1_180 | 1/a/1444:1446, 1/a/1474:1476 | Isolated non-canonical cWW pair | homologous IL_4LFB_063 IL_01003.4 | |
| IL_7QV1_181 | 1/a/1449:1452, 1/a/1469:1471 | Isolated tHS basepair with bulges | geometric IL_4V9F_076 IL_87316.2 | |
| IL_7QV1_182 | 1/a/1454:1457, 1/a/1465:1467 | No text annotation | homologous IL_5J7L_065 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7QV1_003 | Major groove minor groove platform; mini C-loop | ||
| IL_7QV1_184 | Isolated cWS basepair | ||
| IL_7QV1_036 | Double sheared with non-canonical cWW | ||
| IL_7QV1_037 | No text annotation | ||
| IL_7QV1_046 | Kink-turn | ||
| IL_7QV1_047 | No text annotation | ||
| IL_7QV1_048 | Single stack bend | ||
| IL_7QV1_049 | Isolated cWS basepair | ||
| IL_7QV1_060 | No text annotation | ||
| IL_7QV1_063 | tSH-tHW-tHS | ||
| IL_7QV1_188 | No text annotation | ||
| IL_7QV1_067 | No text annotation | ||
| IL_7QV1_082 | No text annotation | ||
| IL_7QV1_190 | No text annotation | ||
| IL_7QV1_191 | No text annotation | ||
| IL_7QV1_192 | No text annotation | ||
| IL_7QV1_092 | Tandem non-canonical cWW pairs | ||
| IL_7QV1_093 | No text annotation | ||
| IL_7QV1_094 | No text annotation | ||
| IL_7QV1_095 | Kink-turn | ||
| IL_7QV1_193 | No text annotation | ||
| IL_7QV1_121 | Minor groove platform | ||
| IL_7QV1_123 | No text annotation | ||
| IL_7QV1_194 | No text annotation | ||
| IL_7QV1_124 | No text annotation | ||
| IL_7QV1_195 | No text annotation | ||
| IL_7QV1_125 | No text annotation | ||
| IL_7QV1_135 | No text annotation | ||
| IL_7QV1_136 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_7QV1_149 | No text annotation | ||
| IL_7QV1_157 | No text annotation | ||
| IL_7QV1_158 | Minor groove platform | ||
| IL_7QV1_159 | Single stack bend | ||
| IL_7QV1_160 | Single bulged U | ||
| IL_7QV1_165 | Minor groove platform | ||
| IL_7QV1_166 | Minor groove platform | ||
| IL_7QV1_167 | No text annotation | ||
| IL_7QV1_168 | No text annotation | ||
| IL_7QV1_169 | 180 degree turn | ||
| IL_7QV1_170 | Double sheared | ||
| IL_7QV1_171 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_7QV1_001 | 1/B/9:14, 1/B/66:68, 1/B/104:107 | No text annotation | ||
| J3_7QV1_002 | 1/V/30:31, 1/V/521:528, 1/V/555:556 | No text annotation | homologous J3_5J7L_036 NA | |
| J3_7QV1_028 | 1/V/32:35, 1/V/492:508, 1/V/515:520 | No text annotation | homologous J3_9DFE_003 J3_07616.1 | |
| J3_7QV1_003 | 1/V/56:67, 1/V/74:76, 1/V/109:113 | No text annotation | homologous J3_4WF9_001 J3_47707.1 | |
| J3_7QV1_004 | 1/V/272:276, 1/V/295:302, 1/V/416:417 | No text annotation | homologous J3_7RQB_003 NA | |
| J3_7QV1_029 | 1/V/340:344, 1/V/360:369, 1/V/381:385 | No text annotation | homologous J3_5J7L_068 NA | |
| J3_7QV1_005 | 1/V/730:736, 1/V/820:822, 1/V/838:841 | No text annotation | homologous J3_5J7L_038 NA | |
| J3_7QV1_030 | 1/V/744:747, 1/V/779:783, 1/V/807:812 | No text annotation | geometric J3_5TBW_005 NA | |
| J3_7QV1_006 | 1/V/745:747, 1/V/779:783, 1/V/807:810 | No text annotation | homologous J3_7RQB_005 NA | |
| J3_7QV1_008 | 1/V/1337:1342, 1/V/1670:1672, 1/V/1684:1687 | No text annotation | homologous J3_7RQB_007 NA | |
| J3_7QV1_009 | 1/V/1344:1348, 1/V/1650:1656, 1/V/1665:1668 | No text annotation | homologous J3_4WF9_005 J3_68164.1 | |
| J3_7QV1_010 | 1/V/1383:1389, 1/V/1420:1424, 1/V/1441:1442 | No text annotation | homologous J3_7RQB_009 NA | |
| J3_7QV1_031 | 1/V/1470:1475, 1/V/1612:1613, 1/V/1616:1622 | No text annotation | homologous J3_7A0S_019 J3_34864.3 | |
| J3_7QV1_011 | 1/V/2120:2122, 1/V/2225:2230, 1/V/2251:2257 | No text annotation | homologous J3_4WF9_007 J3_07703.1 | |
| J3_7QV1_032 | 1/V/2311:2313, 1/V/2413:2424, 1/V/2450:2456 | No text annotation | homologous J3_5J7L_070 NA | |
| J3_7QV1_012 | 1/V/2324:2328, 1/V/2346:2352, 1/V/2361:2366 | No text annotation | homologous J3_5J7L_071 NA | |
| J3_7QV1_013 | 1/V/2546:2549, 1/V/2574:2576, 1/V/2590:2596 | No text annotation | homologous J3_4WF9_009 J3_32601.6 | |
| J3_7QV1_014 | 1/V/2838:2840, 1/V/2856:2861, 1/V/2907:2912 | No text annotation | ||
| J3_7QV1_015 | 1/a/48:49, 1/a/369:375, 1/a/401:403 | No text annotation | homologous J3_6CZR_015 NA | |
| J3_7QV1_033 | 1/a/48:54, 1/a/367:375, 1/a/401:403 | No text annotation | homologous J3_4LFB_014 J3_63856.1 | |
| J3_7QV1_016 | 1/a/595:597, 1/a/660:663, 1/a/763:764 | No text annotation | homologous J3_5J7L_002 NA | |
| J3_7QV1_034 | 1/a/595:597, 1/a/660:664, 1/a/760:764 | No text annotation | homologous J3_5J7L_051 NA | |
| J3_7QV1_017 | 1/a/681:682, 1/a/726:734, 1/a/741:743 | No text annotation | homologous J3_5J7L_003 NA | |
| J3_7QV1_018 | 1/a/835:838, 1/a/867:871, 1/a/878:884 | No text annotation | homologous J3_4LFB_001 J3_02285.1 | |
| J3_7QV1_019 | 1/a/946:949, 1/a/1353:1359, 1/a/1381:1388 | No text annotation | homologous J3_4LFB_002 J3_85722.1 | |
| J3_7QV1_020 | 1/a/953:956, 1/a/1244:1246, 1/a/1346:1349 | No text annotation | homologous J3_4LFB_003 J3_44359.1 | |
| J3_7QV1_021 | 1/a/965:972, 1/a/983:994, 1/a/1230:1234 | No text annotation | homologous J3_5J7L_006 NA | |
| J3_7QV1_024 | 1/a/1073:1078, 1/a/1117:1123, 1/a/1196:1202 | No text annotation | homologous J3_4LFB_007 J3_01343.1 | |
| J3_7QV1_036 | 1/a/1083:1084, 1/a/1093:1096, 1/a/1109:1112 | No text annotation | homologous J3_4LFB_017 J3_11018.1 | |
| J3_7QV1_027 | 1/a/1246:1250, 1/a/1305:1312, 1/a/1343:1346 | No text annotation | homologous J3_4LFB_009 J3_03192.1 | |
| J4_7QV1_001 | 1/H/7:10, 1/H/25:27, 1/H/43:49, 1/H/65:66 | tRNA junction | homologous J4_5E81_027 NA | |
| J4_7QV1_002 | 1/V/271:272, 1/V/417:422, 1/V/446:453, 1/V/468:471 | No text annotation | homologous J4_4WF9_001 J4_94698.1 | |
| J4_7QV1_003 | 1/V/340:344, 1/V/360:363, 1/V/367:369, 1/V/381:385 | No text annotation | homologous J4_7A0S_002 J4_16174.1 | |
| J4_7QV1_004 | 1/V/645:648, 1/V/670:674, 1/V/681:684, 1/V/696:703 | No text annotation | homologous J4_5J7L_020 NA | |
| J4_7QV1_005 | 1/V/1310:1315, 1/V/1333:1334, 1/V/1690:1694, 1/V/2037:2039 | No text annotation | ||
| J4_7QV1_006 | 1/V/1349:1353, 1/V/1377:1382, 1/V/1443:1444, 1/V/1642:1649 | No text annotation | homologous J4_9DFE_004 J4_77353.1 | |
| J4_7QV1_007 | 1/V/1352:1353, 1/V/1377:1382, 1/V/1443:1444, 1/V/1642:1648 | No text annotation | homologous J4_9DFE_005 J4_48150.1 | |
| J4_7QV1_008 | 1/V/1491:1492, 1/V/1513:1514, 1/V/1572:1573, 1/V/1594:1595 | No text annotation | homologous J4_5J7L_024 NA | |
| J4_7QV1_009 | 1/V/1801:1805, 1/V/1817:1821, 1/V/1856:1859, 1/V/2004:2008 | No text annotation | homologous J4_5J7L_025 NA | |
| J4_7QV1_016 | 1/V/1862:1864, 1/V/1934:1935, 1/V/1953:1962, 1/V/1996:2001 | No text annotation | homologous J4_9DFE_008 J4_42306.1 | |
| J4_7QV1_011 | 1/V/2314:2318, 1/V/2372:2376, 1/V/2399:2401, 1/V/2410:2412 | No text annotation | homologous J4_9DFE_009 J4_98139.1 | |
| J4_7QV1_012 | 1/V/2672:2675, 1/V/2703:2705, 1/V/2760:2764, 1/V/2798:2800 | No text annotation | homologous J4_9DFE_010 J4_77044.5 | |
| J4_7QV1_013 | 1/a/113:121, 1/a/246:248, 1/a/294:297, 1/a/319:320 | No text annotation | ||
| J4_7QV1_014 | 1/a/141:143, 1/a/177:183, 1/a/206:212, 1/a/227:229 | No text annotation | homologous J4_5J7L_002 NA | |
| J4_7QV1_015 | 1/a/584:586, 1/a/773:778, 1/a/819:830, 1/a/889:890 | No text annotation | homologous J4_4LFB_003 J4_14595.1 | |
| J5_7QV1_001 | 1/V/47:54, 1/V/115:120, 1/V/129:130, 1/V/149:151, 1/V/178:180 | No text annotation | homologous J5_5J7L_013 NA | |
| J5_7QV1_002 | 1/V/271:276, 1/V/295:302, 1/V/416:422, 1/V/446:453, 1/V/468:471 | No text annotation | ||
| J5_7QV1_003 | 1/V/577:579, 1/V/604:608, 1/V/621:623, 1/V/1301:1302, 1/V/2046:2047 | No text annotation | homologous J5_5J7L_014 NA | |
| J5_7QV1_004 | 1/V/628:633, 1/V/715:718, 1/V/856:859, 1/V/1236:1237, 1/V/1290:1296 | No text annotation | homologous J5_9DFE_004 J5_74302.6 | |
| J5_7QV1_005 | 1/V/1719:1727, 1/V/1751:1752, 1/V/1780:1781, 1/V/1785:1793, 1/V/2017:2019 | No text annotation | homologous J5_4WF9_005 J5_99177.1 | |
| J5_7QV1_006 | 1/V/2086:2093, 1/V/2475:2482, 1/V/2529:2536, 1/V/2611:2617, 1/V/2635:2640 | No text annotation | ||
| J5_7QV1_007 | 1/V/2103:2106, 1/V/2272:2275, 1/V/2287:2288, 1/V/2310:2311, 1/V/2456:2464 | No text annotation | homologous J5_7A0S_007 J5_39529.2 | |
| J5_7QV1_008 | 1/a/38:41, 1/a/411:414, 1/a/444:449, 1/a/502:509, 1/a/554:557 | No text annotation | ||
| J5_7QV1_009 | 1/a/60:63, 1/a/104:111, 1/a/322:324, 1/a/345:347, 1/a/358:362 | No text annotation | homologous J5_5J7L_003 NA | |
| J6_7QV1_002 | 1/V/45:47, 1/V/180:186, 1/V/217:227, 1/V/234:238, 1/V/265:269, 1/V/473:480 | No text annotation | ||
| J7_7QV1_001 | 1/V/864:869, 1/V/882:883, 1/V/989:992, 1/V/1017:1022, 1/V/1033:1037, 1/V/1209:1210, 1/V/1226:1231 | No text annotation | ||
| J8_7QV1_001 | 1/V/8:15, 1/V/571:577, 1/V/2047:2052, 1/V/2069:2072, 1/V/2654:2659, 1/V/2817:2820, 1/V/2831:2836, 1/V/2914:2919 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_7QV1_007 | No text annotation | ||
| J3_7QV1_022 | No text annotation | ||
| J3_7QV1_035 | No text annotation | ||
| J3_7QV1_023 | No text annotation | ||
| J3_7QV1_025 | No text annotation | ||
| J3_7QV1_026 | No text annotation | ||
| J3_7QV1_037 | No text annotation | ||
| J3_7QV1_039 | No text annotation | ||
| J3_7QV1_038 | No text annotation | ||
| J4_7QV1_010 | No text annotation | ||
| J6_7QV1_001 | No text annotation |
Coloring options: