7TOP Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_7TOP_001 | 1/A25S/38:45 | No text annotation | homologous HL_8C3A_001 NA | |
| HL_7TOP_002 | 1/A25S/69:74 | No text annotation | homologous HL_8C3A_002 NA | |
| HL_7TOP_003 | 1/A25S/90:96 | No text annotation | homologous HL_8C3A_003 NA | |
| HL_7TOP_004 | 1/A25S/132:136 | No text annotation | homologous HL_8C3A_004 NA | |
| HL_7TOP_005 | 1/A25S/194:201 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_005 NA | |
| HL_7TOP_006 | 1/A25S/208:212 | No text annotation | homologous HL_8C3A_006 NA | |
| HL_7TOP_007 | 1/A25S/216:224 | T-loop with unstacked turn | homologous HL_8C3A_007 NA | |
| HL_7TOP_008 | 1/A25S/278:287 | No text annotation | homologous HL_8C3A_008 NA | |
| HL_7TOP_009 | 1/A25S/303:312 | Pseudoknot geometry | homologous HL_8C3A_009 NA | |
| HL_7TOP_010 | 1/A25S/357:362 | GNRA | homologous HL_8C3A_010 NA | |
| HL_7TOP_011 | 1/A25S/382:387 | GNRA | homologous HL_8C3A_011 NA | |
| HL_7TOP_086 | 1/A25S/544:547 | No text annotation | ||
| HL_7TOP_013 | 1/A25S/599:604 | GNRA related | geometric HL_3OXE_002 HL_04783.2 | |
| HL_7TOP_014 | 1/A25S/640:649 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_014 NA | |
| HL_7TOP_015 | 1/A25S/686:694 | No text annotation | homologous HL_8C3A_015 NA | |
| HL_7TOP_016 | 1/A25S/707:712 | GNRA | homologous HL_8C3A_016 NA | |
| HL_7TOP_017 | 1/A25S/732:737 | GNRA | geometric HL_5TBW_017 NA | |
| HL_7TOP_018 | 1/A25S/763:768 | No text annotation | geometric HL_5TBW_018 NA | |
| HL_7TOP_019 | 1/A25S/844:849 | GNRA | homologous HL_8C3A_019 NA | |
| HL_7TOP_020 | 1/A25S/876:885 | No text annotation | homologous HL_8C3A_020 NA | |
| HL_7TOP_021 | 1/A25S/910:918 | No text annotation | homologous HL_8C3A_021 NA | |
| HL_7TOP_022 | 1/A25S/958:963 | Externally structured | homologous HL_8C3A_022 NA | |
| HL_7TOP_024 | 1/A25S/1076:1083 | No text annotation | geometric HL_5TBW_024 NA | |
| HL_7TOP_025 | 1/A25S/1126:1132 | GNRA | homologous HL_8C3A_025 NA | |
| HL_7TOP_026 | 1/A25S/1148:1155 | No text annotation | homologous HL_8C3A_026 NA | |
| HL_7TOP_027 | 1/A25S/1239:1249 | No text annotation | homologous HL_8C3A_027 NA | |
| HL_7TOP_081 | 1/A25S/1262:1277 | No text annotation | geometric HL_5TBW_227 NA | |
| HL_7TOP_028 | 1/A25S/1266:1275 | No text annotation | geometric HL_5TBW_028 NA | |
| HL_7TOP_029 | 1/A25S/1347:1357 | No text annotation | geometric HL_5TBW_029 NA | |
| HL_7TOP_030 | 1/A25S/1403:1408 | GNRA | homologous HL_8C3A_030 NA | |
| HL_7TOP_031 | 1/A25S/1462:1470 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_031 NA | |
| HL_7TOP_032 | 1/A25S/1506:1512 | Pseudoknot geometry with 3' bulge | homologous HL_8C3A_032 NA | |
| HL_7TOP_033 | 1/A25S/1544:1549 | GNRA variation | homologous HL_8C3A_033 NA | |
| HL_7TOP_034 | 1/A25S/1561:1578 | No text annotation | ||
| HL_7TOP_035 | 1/A25S/1599:1608 | No text annotation | homologous HL_8C3A_035 NA | |
| HL_7TOP_036 | 1/A25S/1634:1639 | GNRA | homologous HL_8C3A_036 NA | |
| HL_7TOP_037 | 1/A25S/1680:1688 | No text annotation | homologous HL_8C3A_037 NA | |
| HL_7TOP_038 | 1/A25S/1719:1725 | No text annotation | homologous HL_8C3A_038 NA | |
| HL_7TOP_039 | 1/A25S/1760:1765 | No text annotation | geometric HL_4WF9_003 HL_75660.2 | |
| HL_7TOP_040 | 1/A25S/1792:1796 | No text annotation | homologous HL_8C3A_040 NA | |
| HL_7TOP_041 | 1/A25S/1844:1851 | No text annotation | homologous HL_8C3A_041 NA | |
| HL_7TOP_042 | 1/A25S/1862:1868 | GNRA | homologous HL_8C3A_042 NA | |
| HL_7TOP_043 | 1/A25S/1923:1928 | No text annotation | geometric HL_7RQB_042 NA | |
| HL_7TOP_045 | 1/A25S/2110:2114 | No text annotation | homologous HL_8C3A_045 NA | |
| HL_7TOP_046 | 1/A25S/2135:2145 | No text annotation | homologous HL_8C3A_046 NA | |
| HL_7TOP_047 | 1/A25S/2164:2170 | GNRA | homologous HL_8C3A_047 NA | |
| HL_7TOP_048 | 1/A25S/2220:2225 | GNRA | homologous HL_8C3A_048 NA | |
| HL_7TOP_082 | 1/A25S/2252:2264 | No text annotation | homologous HL_8P9A_160 HL_70658.1 | |
| HL_7TOP_049 | 1/A25S/2253:2263 | No text annotation | homologous HL_8C3A_049 NA | |
| HL_7TOP_050 | 1/A25S/2292:2300 | No text annotation | homologous HL_8C3A_050 NA | |
| HL_7TOP_051 | 1/A25S/2369:2378 | No text annotation | homologous HL_8C3A_051 NA | |
| HL_7TOP_083 | 1/A25S/2444:2503 | No text annotation | ||
| HL_7TOP_052 | 1/A25S/2465:2490 | No text annotation | ||
| HL_7TOP_053 | 1/A25S/2534:2545 | No text annotation | ||
| HL_7TOP_054 | 1/A25S/2568:2573 | No text annotation | ||
| HL_7TOP_055 | 1/A25S/2616:2624 | No text annotation | homologous HL_8C3A_055 NA | |
| HL_7TOP_056 | 1/A25S/2633:2645 | No text annotation | homologous HL_8C3A_056 NA | |
| HL_7TOP_057 | 1/A25S/2673:2681 | No text annotation | homologous HL_8C3A_057 NA | |
| HL_7TOP_058 | 1/A25S/2693:2700 | Pseudoknot geometry | homologous HL_8C3A_058 NA | |
| HL_7TOP_059 | 1/A25S/2724:2732 | No text annotation | homologous HL_8C3A_059 NA | |
| HL_7TOP_060 | 1/A25S/2744:2749 | GNRA | homologous HL_8C3A_060 NA | |
| HL_7TOP_061 | 1/A25S/2776:2784 | Pseudoknot geometry | homologous HL_8C3A_061 NA | |
| HL_7TOP_062 | 1/A25S/2840:2848 | No text annotation | homologous HL_8C3A_062 NA | |
| HL_7TOP_087 | 1/A25S/2897:2904 | No text annotation | ||
| HL_7TOP_064 | 1/A25S/2920:2926 | No text annotation | geometric HL_4WF9_058 HL_30068.1 | |
| HL_7TOP_065 | 1/A25S/2963:2968 | GNRA | homologous HL_8C3A_065 NA | |
| HL_7TOP_066 | 1/A25S/3025:3030 | GNRA | geometric HL_7RQB_064 NA | |
| HL_7TOP_067 | 1/A25S/3068:3073 | Ribsomal LSU H95 | homologous HL_8C3A_067 NA | |
| HL_7TOP_068 | 1/A25S/3110:3124 | No text annotation | homologous HL_8C3A_068 NA | |
| HL_7TOP_069 | 1/A25S/3194:3197 | No text annotation | geometric HL_5TBW_068 NA | |
| HL_7TOP_070 | 1/A25S/3240:3247 | No text annotation | geometric HL_2Y9H_003 HL_75660.2 | |
| HL_7TOP_071 | 1/A25S/3303:3311 | No text annotation | homologous HL_8C3A_071 NA | |
| HL_7TOP_072 | 1/A25S/3350:3353 | No text annotation | geometric HL_6U8D_003 HL_32346.1 | |
| HL_7TOP_084 | 1/A58S/47:56 | Pseudoknot with intercalation | homologous HL_8C3A_229 NA | |
| HL_7TOP_073 | 1/A58S/69:89 | No text annotation | homologous HL_8P4V_073 NA | |
| HL_7TOP_074 | 1/A58S/108:114 | No text annotation | geometric HL_5TBW_075 NA | |
| HL_7TOP_075 | 1/A58S/124:129 | No text annotation | geometric HL_5TBW_076 NA | |
| HL_7TOP_085 | 1/A5S/32:45 | No text annotation | homologous HL_8C3A_228 HL_50688.1 | |
| HL_7TOP_076 | 1/A5S/36:41 | No text annotation | geometric HL_5TBW_185 NA | |
| HL_7TOP_077 | 1/A5S/88:93 | GNRA | homologous HL_5TBW_186 NA | |
| HL_7TOP_078 | 1/APTN/13:22 | tRNA D-loop | geometric HL_6JXM_001 HL_20811.2 | |
| HL_7TOP_079 | 1/APTN/31:39 | tRNA anticodon loop | geometric HL_4V9Q_214 HL_06059.2 | |
| HL_7TOP_080 | 1/APTN/53:61 | T-loop with 2 stacked bulged bases | geometric HL_6PMO_005 HL_28252.2 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7TOP_012 | No text annotation | ||
| HL_7TOP_023 | No text annotation | ||
| HL_7TOP_044 | No text annotation | ||
| HL_7TOP_063 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_7TOP_002 | 1/A25S/7:8, 1/A58S/150:152 | Single bulged C | homologous IL_8C3A_002 NA | |
| IL_7TOP_003 | 1/A25S/13:15, 1/A58S/144:145 | Single bulged U | homologous IL_8C3A_003 NA | |
| IL_7TOP_004 | 1/A25S/27:28, 1/A25S/56:58 | No text annotation | homologous IL_8C3A_004 NA | |
| IL_7TOP_005 | 1/A25S/31:38, 1/A25S/45:53 | tSH-tHW-tHH-tHS | geometric IL_5TBW_005 NA | |
| IL_7TOP_006 | 1/A25S/82:89, 1/A25S/97:103 | No text annotation | homologous IL_8C3A_006 NA | |
| IL_7TOP_007 | 1/A25S/123:124, 1/A25S/144:149 | No text annotation | homologous IL_8C3A_007 NA | |
| IL_7TOP_008 | 1/A25S/125:127, 1/A25S/141:143 | Isolated non-canonical cWW pair | homologous IL_8C3A_008 NA | |
| IL_7TOP_009 | 1/A25S/163:165, 1/A25S/257:258 | Single stack bend | geometric IL_5TBW_009 NA | |
| IL_7TOP_010 | 1/A25S/169:170, 1/A25S/248:253 | No text annotation | homologous IL_8C3A_010 NA | |
| IL_7TOP_011 | 1/A25S/177:178, 1/A25S/238:241 | Single stack bend | homologous IL_8C3A_012 NA | |
| IL_7TOP_012 | 1/A25S/189:191, 1/A25S/204:205 | Single bulged U | homologous IL_8C3A_013 NA | |
| IL_7TOP_013 | 1/A25S/337:339, 1/A58S/25:26 | Single bulged A | homologous IL_8C3A_014 NA | |
| IL_7TOP_014 | 1/A25S/376:379, 1/A25S/390:403 | No text annotation | homologous IL_8C3A_015 NA | |
| IL_7TOP_015 | 1/A25S/404:410, 1/A58S/13:19 | Triple sheared with non-canonical cWW | geometric IL_5TBW_015 NA | |
| IL_7TOP_016 | 1/A25S/429:431, 1/A25S/628:630 | Isolated non-canonical cWW | geometric IL_5TBW_016 NA | |
| IL_7TOP_018 | 1/A25S/512:513, 1/A25S/577:579 | Single bulged A | homologous IL_8C3A_020 NA | |
| IL_7TOP_019 | 1/A25S/517:525, 1/A25S/567:573 | No text annotation | geometric IL_5TBW_019 NA | |
| IL_7TOP_020 | 1/A25S/531:538, 1/A25S/553:561 | No text annotation | geometric IL_5TBW_020 NA | |
| IL_7TOP_021 | 1/A25S/668:670, 1/A25S/792:794 | Isolated non-canonical cWW pair | homologous IL_8C3A_023 NA | |
| IL_7TOP_022 | 1/A25S/680:684, 1/A25S/696:700 | No text annotation | homologous IL_8C3A_024 NA | |
| IL_7TOP_023 | 1/A25S/725:728, 1/A25S/741:745 | No text annotation | homologous IL_8C3A_025 NA | |
| IL_7TOP_024 | 1/A25S/752:753, 1/A25S/779:781 | Single bulged A | homologous IL_8C3A_026 NA | |
| IL_7TOP_025 | 1/A25S/755:756, 1/A25S/775:777 | Single bulged U | homologous IL_8C3A_027 NA | |
| IL_7TOP_026 | 1/A25S/758:763, 1/A25S/768:773 | No text annotation | homologous IL_8C3A_028 NA | |
| IL_7TOP_027 | 1/A25S/803:805, 1/A25S/938:940 | Isolated non-canonical cWW pair | homologous IL_8C3A_029 NA | |
| IL_7TOP_028 | 1/A25S/805:809, 1/A25S/931:938 | tHW-tHW cross-strand stack | geometric IL_5TBW_028 NA | |
| IL_7TOP_029 | 1/A25S/833:834, 1/A25S/859:861 | Single bulged G | homologous IL_8C3A_032 NA | |
| IL_7TOP_030 | 1/A25S/834:838, 1/A25S/855:859 | Triple sheared | geometric IL_4WF9_024 IL_50730.1 | |
| IL_7TOP_031 | 1/A25S/869:872, 1/A25S/888:890 | Major groove platform with extra cWW | homologous IL_8C3A_034 NA | |
| IL_7TOP_032 | 1/A25S/873:875, 1/A25S/886:887 | Single bulged U | homologous IL_8C3A_035 NA | |
| IL_7TOP_033 | 1/A25S/907:909, 1/A25S/919:923 | No text annotation | homologous IL_8C3A_036 NA | |
| IL_7TOP_034 | 1/A25S/954:956, 1/A25S/965:967 | Isolated non-canonical cWW pair | homologous IL_8C3A_037 NA | |
| IL_7TOP_035 | 1/A25S/969:970, 1/A25S/1111:1113 | No text annotation | homologous IL_8C3A_038 NA | |
| IL_7TOP_036 | 1/A25S/977:981, 1/A25S/1102:1104 | 180 degree turn | geometric IL_5TBW_036 NA | |
| IL_7TOP_037 | 1/A25S/983:985, 1/A25S/1099:1100 | Single bulged G | homologous IL_8C3A_040 NA | |
| IL_7TOP_038 | 1/A25S/991:997, 1/A25S/1052:1058 | No text annotation | homologous IL_8C3A_041 NA | |
| IL_7TOP_039 | 1/A25S/997:998, 1/A25S/1050:1052 | Minor groove platform | geometric IL_5TBW_039 NA | |
| IL_7TOP_040 | 1/A25S/999:1004, 1/A25S/1046:1049 | C-loop with bulged stacked A's | homologous IL_8C3A_043 NA | |
| IL_7TOP_153 | 1/A25S/1006:1009, 1/A25S/1041:1044 | No text annotation | ||
| IL_7TOP_042 | 1/A25S/1009:1011, 1/A25S/1039:1041 | Isolated non-canonical cWW pair | homologous IL_8C3A_045 NA | |
| IL_7TOP_043 | 1/A25S/1013:1018, 1/A25S/1034:1037 | Other IL | geometric IL_5TBW_043 NA | |
| IL_7TOP_044 | 1/A25S/1018:1020, 1/A25S/1033:1034 | Single stack bend | geometric IL_5J7L_032 IL_06586.1 | |
| IL_7TOP_045 | 1/A25S/1069:1071, 1/A25S/1087:1089 | Isolated non-canonical cWW pair | homologous IL_8C3A_047 NA | |
| IL_7TOP_046 | 1/A25S/1074:1076, 1/A25S/1083:1084 | Single bulged G | homologous IL_8C3A_048 NA | |
| IL_7TOP_047 | 1/A25S/1120:1122, 1/A25S/1136:1138 | Isolated non-canonical cWW pair | homologous IL_8C3A_049 NA | |
| IL_7TOP_048 | 1/A25S/1167:1171, 1/A25S/1328:1332 | UAA/GAN | homologous IL_8C3A_051 NA | |
| IL_7TOP_049 | 1/A25S/1173:1180, 1/A25S/1325:1326 | SSU/LSU pseudoknot | homologous IL_8C3A_052 NA | |
| IL_7TOP_050 | 1/A25S/1180:1182, 1/A25S/1324:1325 | Single bulged U | geometric IL_5TBW_050 NA | |
| IL_7TOP_051 | 1/A25S/1187:1194, 1/A25S/1314:1319 | No text annotation | homologous IL_8C3A_054 NA | |
| IL_7TOP_052 | 1/A25S/1194:1205, 1/A25S/1299:1314 | No text annotation | geometric IL_5TBW_052 NA | |
| IL_7TOP_053 | 1/A25S/1207:1209, 1/A25S/1296:1297 | Single bulged U | homologous IL_8C3A_056 NA | |
| IL_7TOP_054 | 1/A25S/1218:1226, 1/A25S/1283:1287 | Kink-turn | homologous IL_8C3A_057 NA | |
| IL_7TOP_055 | 1/A25S/1234:1239, 1/A25S/1249:1254 | No text annotation | ||
| IL_7TOP_056 | 1/A25S/1262:1266, 1/A25S/1275:1277 | Major groove platform with extra cWW | homologous IL_8C3A_059 NA | |
| IL_7TOP_057 | 1/A25S/1376:1378, 1/A25S/1428:1431 | No text annotation | homologous IL_8C3A_061 NA | |
| IL_7TOP_058 | 1/A25S/1385:1387, 1/A25S/1420:1421 | Single bulged A | homologous IL_8C3A_062 NA | |
| IL_7TOP_059 | 1/A25S/1388:1395, 1/A25S/1415:1419 | Kink-turn | homologous IL_8C3A_063 NA | |
| IL_7TOP_060 | 1/A25S/1398:1400, 1/A25S/1411:1412 | Single bulged A | geometric IL_5TBW_060 NA | |
| IL_7TOP_061 | 1/A25S/1444:1450, 1/A25S/2354:2359 | No text annotation | homologous IL_8C3A_065 NA | |
| IL_7TOP_062 | 1/A25S/1501:1505, 1/A25S/1513:1515 | C-loop | geometric IL_7RQB_051 NA | |
| IL_7TOP_063 | 1/A25S/1532:1536, 1/A25S/1585:1590 | UAA/GAN | homologous IL_8C3A_067 NA | |
| IL_7TOP_064 | 1/A25S/1618:1621, 1/A25S/1824:1826 | No text annotation | homologous IL_8C3A_070 NA | |
| IL_7TOP_148 | 1/A25S/1623:1624, 1/A25S/1819:1822 | No text annotation | homologous IL_8C3A_483 NA | |
| IL_7TOP_066 | 1/A25S/1627:1631, 1/A25S/1811:1816 | No text annotation | geometric IL_5TBW_066 NA | |
| IL_7TOP_067 | 1/A25S/1645:1649, 1/A25S/1806:1810 | Triple sheared | homologous IL_8C3A_073 NA | |
| IL_7TOP_068 | 1/A25S/1661:1663, 1/A25S/1786:1788 | Isolated non-canonical cWW pair | homologous IL_8C3A_074 NA | |
| IL_7TOP_069 | 1/A25S/1669:1670, 1/A25S/1778:1780 | Single bulged C | homologous IL_8C3A_075 NA | |
| IL_7TOP_070 | 1/A25S/1670:1671, 1/A25S/1776:1778 | Single stack bend | geometric IL_5TBW_070 NA | |
| IL_7TOP_071 | 1/A25S/1694:1698, 1/A25S/1747:1752 | No text annotation | homologous IL_8C3A_077 NA | |
| IL_7TOP_072 | 1/A25S/1702:1707, 1/A25S/1737:1743 | No text annotation | homologous IL_8C3A_078 NA | |
| IL_7TOP_073 | 1/A25S/1711:1717, 1/A25S/1727:1733 | No text annotation | homologous IL_8C3A_079 NA | |
| IL_7TOP_074 | 1/A25S/1883:1889, 1/A25S/2346:2349 | No text annotation | homologous IL_8C3A_080 NA | |
| IL_7TOP_075 | 1/A25S/1895:1897, 1/A25S/2338:2340 | No text annotation | homologous IL_8C3A_081 NA | |
| IL_7TOP_076 | 1/A25S/1898:1901, 1/A25S/2336:2337 | Major groove platform; stack outside cWW | homologous IL_8C3A_082 NA | |
| IL_7TOP_149 | 1/A25S/1898:1906, 1/A25S/2333:2337 | No text annotation | homologous IL_8C3A_484 NA | |
| IL_7TOP_077 | 1/A25S/1901:1906, 1/A25S/2333:2336 | Intercalated tWH | geometric IL_4V9F_062 IL_76758.1 | |
| IL_7TOP_078 | 1/A25S/1918:1923, 1/A25S/1928:1934 | No text annotation | homologous IL_8C3A_084 NA | |
| IL_7TOP_079 | 1/A25S/1940:1942, 1/A25S/2106:2108 | Isolated non-canonical cWW pair | homologous IL_8C3A_085 NA | |
| IL_7TOP_080 | 1/A25S/1947:1948, 1/A25S/2098:2101 | No text annotation | homologous IL_8C3A_086 NA | |
| IL_7TOP_081 | 1/A25S/2128:2129, 1/A25S/2323:2325 | Single bulged A | homologous IL_8C3A_087 NA | |
| IL_7TOP_082 | 1/A25S/2156:2161, 1/A25S/2173:2180 | No text annotation | homologous IL_8C3A_088 NA | |
| IL_7TOP_083 | 1/A25S/2196:2199, 1/A25S/2245:2246 | No text annotation | homologous IL_8C3A_089 NA | |
| IL_7TOP_084 | 1/A25S/2200:2201, 1/A25S/2241:2244 | Multiple bulged bases | homologous IL_8C3A_090 NA | |
| IL_7TOP_085 | 1/A25S/2204:2206, 1/A25S/2237:2238 | Single bulged U | geometric IL_5TBW_086 NA | |
| IL_7TOP_086 | 1/A25S/2206:2210, 1/A25S/2235:2237 | Major groove platform with extra pair | geometric IL_5TBW_087 NA | |
| IL_7TOP_087 | 1/A25S/2211:2217, 1/A25S/2228:2234 | No text annotation | homologous IL_8C3A_093 NA | |
| IL_7TOP_088 | 1/A25S/2276:2277, 1/A25S/2307:2310 | Bulged stacked bases | geometric IL_5TBW_089 NA | |
| IL_7TOP_089 | 1/A25S/2277:2288, 1/A25S/2304:2307 | No text annotation | homologous IL_8C3A_095 NA | |
| IL_7TOP_090 | 1/A25S/2391:2394, 1/A25S/2986:2988 | No text annotation | homologous IL_8C3A_096 NA | |
| IL_7TOP_091 | 1/A25S/2396:2398, 1/A25S/2981:2984 | No text annotation | homologous IL_8C3A_097 NA | |
| IL_7TOP_092 | 1/A25S/2409:2411, 1/A25S/2811:2812 | Single bulged U | homologous IL_8C3A_098 NA | |
| IL_7TOP_093 | 1/A25S/2412:2413, 1/A25S/2807:2810 | Minor groove platform | homologous IL_8C3A_099 NA | |
| IL_7TOP_094 | 1/A25S/2423:2425, 1/A25S/2604:2607 | No text annotation | homologous IL_8C3A_100 NA | |
| IL_7TOP_095 | 1/A25S/2520:2526, 1/A25S/2584:2587 | No text annotation | homologous IL_8C3A_106 NA | |
| IL_7TOP_096 | 1/A25S/2614:2615, 1/A25S/2625:2627 | Single bulged A | homologous IL_8C3A_107 NA | |
| IL_7TOP_097 | 1/A25S/2666:2668, 1/A25S/2686:2690 | Isolated tHS basepair with bulges | geometric IL_5TBW_099 NA | |
| IL_7TOP_098 | 1/A25S/2718:2721, 1/A25S/2735:2738 | Tandem non-canonical cWW pairs | homologous IL_8C3A_109 NA | |
| IL_7TOP_099 | 1/A25S/2770:2773, 1/A25S/2787:2788 | Single stack bend with bulge | homologous IL_8C3A_110 NA | |
| IL_7TOP_100 | 1/A25S/2823:2824, 1/A25S/2865:2867 | Major groove platform | geometric IL_5TBW_102 NA | |
| IL_7TOP_150 | 1/A25S/2823:2826, 1/A25S/2863:2867 | No text annotation | homologous IL_8C3A_111 NA | |
| IL_7TOP_101 | 1/A25S/2824:2826, 1/A25S/2863:2865 | Isolated non-canonical cWW pair | geometric IL_5TBW_103 NA | |
| IL_7TOP_102 | 1/A25S/2826:2828, 1/A25S/2862:2863 | Major groove platform | homologous IL_8C3A_112 NA | |
| IL_7TOP_103 | 1/A25S/2828:2830, 1/A25S/2858:2862 | Major groove minor groove platform with extra cWW | geometric IL_5TBW_105 NA | |
| IL_7TOP_104 | 1/A25S/2835:2839, 1/A25S/2849:2853 | No text annotation | homologous IL_8C3A_114 NA | |
| IL_7TOP_105 | 1/A25S/2876:2877, 1/A25S/2949:2951 | Major groove platform | homologous IL_8C3A_115 NA | |
| IL_7TOP_106 | 1/A25S/2879:2881, 1/A25S/2943:2947 | No text annotation | homologous IL_8C3A_116 NA | |
| IL_7TOP_107 | 1/A25S/2881:2882, 1/A25S/2940:2943 | Multiple bulged bases | geometric IL_5TBW_109 NA | |
| IL_7TOP_108 | 1/A25S/2889:2891, 1/A25S/2912:2914 | Isolated non-canonical cWW pair | geometric IL_5TBW_110 NA | |
| IL_7TOP_151 | 1/A25S/2889:2892, 1/A25S/2909:2914 | No text annotation | homologous IL_8P9A_338 IL_07469.1 | |
| IL_7TOP_109 | 1/A25S/2891:2892, 1/A25S/2909:2912 | Major groove platform with intercalation | geometric IL_5TBW_111 NA | |
| IL_7TOP_110 | 1/A25S/2918:2920, 1/A25S/2926:2928 | Isolated non-canonical cWW pair | homologous IL_8C3A_120 NA | |
| IL_7TOP_111 | 1/A25S/2960:2961, 1/A25S/2970:2972 | Single bulged A | homologous IL_8C3A_122 NA | |
| IL_7TOP_112 | 1/A25S/3004:3007, 1/A25S/3139:3144 | Double sheared | homologous IL_8C3A_123 NA | |
| IL_7TOP_113 | 1/A25S/3012:3014, 1/A25S/3040:3042 | Isolated non-canonical cWW pair | homologous IL_8C3A_124 NA | |
| IL_7TOP_114 | 1/A25S/3018:3025, 1/A25S/3030:3036 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_8C3A_125 NA | |
| IL_7TOP_115 | 1/A25S/3047:3051, 1/A25S/3091:3094 | Major groove minor groove platform with tHH | homologous IL_8C3A_126 NA | |
| IL_7TOP_116 | 1/A25S/3054:3059, 1/A25S/3084:3088 | UAA/GAN related | homologous IL_8C3A_127 NA | |
| IL_7TOP_117 | 1/A25S/3063:3064, 1/A25S/3077:3080 | No text annotation | homologous IL_8C3A_128 NA | |
| IL_7TOP_118 | 1/A25S/3103:3107, 1/A25S/3127:3131 | UAA/GAN | homologous IL_8C3A_129 NA | |
| IL_7TOP_119 | 1/A25S/3164:3166, 1/A25S/3284:3286 | Isolated non-canonical cWW pair | homologous IL_8C3A_130 NA | |
| IL_7TOP_120 | 1/A25S/3168:3170, 1/A25S/3280:3282 | Isolated non-canonical cWW pair | geometric IL_5B2P_001 NA | |
| IL_7TOP_121 | 1/A25S/3177:3179, 1/A25S/3210:3211 | Single bulged A | geometric IL_5TBW_123 NA | |
| IL_7TOP_122 | 1/A25S/3179:3188, 1/A25S/3204:3210 | No text annotation | geometric IL_5TBW_124 NA | |
| IL_7TOP_123 | 1/A25S/3193:3194, 1/A25S/3197:3199 | Single bulged U | geometric IL_5TBW_125 NA | |
| IL_7TOP_124 | 1/A25S/3225:3229, 1/A25S/3258:3260 | No text annotation | homologous IL_8C3A_133 NA | |
| IL_7TOP_125 | 1/A25S/3233:3235, 1/A25S/3252:3254 | Isolated non-canonical cWW pair | geometric IL_4M4O_002 IL_10289.1 | |
| IL_7TOP_126 | 1/A25S/3235:3238, 1/A25S/3249:3252 | Tandem non-canonical cWW pairs | geometric IL_4UYK_003 IL_54697.2 | |
| IL_7TOP_127 | 1/A25S/3300:3303, 1/A25S/3311:3314 | Tandem non-canonical cWW pairs | homologous IL_8C3A_135 NA | |
| IL_7TOP_128 | 1/A25S/3318:3320, 1/A25S/3387:3388 | Single bulged U | geometric IL_5TBW_130 NA | |
| IL_7TOP_129 | 1/A25S/3324:3325, 1/A25S/3381:3383 | Single bulged U | homologous IL_8C3A_137 NA | |
| IL_7TOP_130 | 1/A25S/3328:3330, 1/A25S/3373:3378 | No text annotation | homologous IL_8C3A_138 NA | |
| IL_7TOP_131 | 1/A25S/3332:3337, 1/A25S/3367:3371 | No text annotation | homologous IL_8C3A_139 NA | |
| IL_7TOP_132 | 1/A25S/3340:3342, 1/A25S/3363:3364 | Single bulged U | geometric IL_5TBW_134 NA | |
| IL_7TOP_133 | 1/A25S/3342:3345, 1/A25S/3360:3363 | Double sheared; A in syn | homologous IL_8C3A_141 NA | |
| IL_7TOP_152 | 1/A25S/3347:3350, 1/A25S/3353:3358 | Tandem non-canonical cWW pairs | geometric IL_3WBM_003 IL_54697.2 | |
| IL_7TOP_134 | 1/A25S/3349:3350, 1/A25S/3353:3356 | Multiple bulged bases | homologous IL_8C3A_142 NA | |
| IL_7TOP_135 | 1/A58S/44:64, 1/A58S/96:100 | No text annotation | geometric IL_5TBW_144 NA | |
| IL_7TOP_136 | 1/A58S/64:66, 1/A58S/93:96 | Isolated non-canonical cWW pair | geometric IL_5TBW_145 NA | |
| IL_7TOP_137 | 1/A58S/68:69, 1/A58S/89:91 | Single bulged U | geometric IL_5TBW_146 NA | |
| IL_7TOP_138 | 1/A5S/15:16, 1/A5S/63:65 | Single bulged A | homologous IL_5TBW_372 NA | |
| IL_7TOP_139 | 1/A5S/21:27, 1/A5S/53:58 | Minor groove platform related | homologous IL_5TBW_373 NA | |
| IL_7TOP_140 | 1/A5S/28:29, 1/A5S/49:52 | Minor groove platform | homologous IL_5TBW_374 NA | |
| IL_7TOP_141 | 1/A5S/29:30, 1/A5S/47:49 | Single stack bend | geometric IL_5TBW_375 NA | |
| IL_7TOP_142 | 1/A5S/32:36, 1/A5S/41:45 | Symmetric double minor groove platform | homologous IL_5TBW_376 NA | |
| IL_7TOP_143 | 1/A5S/72:80, 1/A5S/100:106 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5TBW_377 NA | |
| IL_7TOP_144 | 1/A5S/84:87, 1/A5S/94:96 | Isolated non-canonical cWW pair | homologous IL_5TBW_378 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7TOP_001 | No text annotation | ||
| IL_7TOP_145 | No text annotation | ||
| IL_7TOP_017 | No text annotation | ||
| IL_7TOP_041 | No text annotation | ||
| IL_7TOP_146 | No text annotation | ||
| IL_7TOP_147 | No text annotation | ||
| IL_7TOP_065 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_7TOP_001 | 1/A25S/113:123, 1/A25S/149:158, 1/A25S/263:267 | No text annotation | homologous J3_8C3A_001 NA | |
| J3_7TOP_017 | 1/A25S/113:124, 1/A25S/144:158, 1/A25S/263:267 | No text annotation | ||
| J3_7TOP_018 | 1/A25S/185:189, 1/A25S/205:214, 1/A25S/226:231 | No text annotation | homologous J3_8P9A_044 NA | |
| J3_7TOP_019 | 1/A25S/340:356, 1/A25S/363:368, 1/A58S/21:24 | No text annotation | homologous J3_8P9A_045 NA | |
| J3_7TOP_002 | 1/A25S/369:376, 1/A25S/403:404, 1/A58S/19:20 | No text annotation | geometric J3_5TBW_002 NA | |
| J3_7TOP_020 | 1/A25S/369:379, 1/A25S/390:404, 1/A58S/19:20 | No text annotation | homologous J3_8P9A_047 NA | |
| J3_7TOP_003 | 1/A25S/502:503, 1/A25S/588:597, 1/A25S/606:611 | No text annotation | homologous J3_8P9A_048 NA | |
| J3_7TOP_004 | 1/A25S/814:820, 1/A25S/905:907, 1/A25S/923:926 | No text annotation | homologous J3_8C3A_003 NA | |
| J3_7TOP_005 | 1/A25S/828:831, 1/A25S/863:867, 1/A25S/892:897 | No text annotation | homologous J3_8P9A_050 NA | |
| J3_7TOP_006 | 1/A25S/986:987, 1/A25S/1062:1066, 1/A25S/1092:1098 | No text annotation | homologous J3_8P9A_051 NA | |
| J3_7TOP_029 | 1/A25S/1230:1232, 1/A25S/1256:1262, 1/A25S/1277:1279 | No text annotation | ||
| J3_7TOP_008 | 1/A25S/1479:1485, 1/A25S/1857:1859, 1/A25S/1871:1874 | No text annotation | homologous J3_8C3A_006 NA | |
| J3_7TOP_009 | 1/A25S/1488:1491, 1/A25S/1837:1843, 1/A25S/1852:1854 | No text annotation | homologous J3_8C3A_007 NA | |
| J3_7TOP_010 | 1/A25S/1526:1531, 1/A25S/1591:1595, 1/A25S/1612:1613 | No text annotation | homologous J3_8P9A_055 NA | |
| J3_7TOP_021 | 1/A25S/1537:1542, 1/A25S/1551:1560, 1/A25S/1579:1584 | No text annotation | ||
| J3_7TOP_011 | 1/A25S/1631:1632, 1/A25S/1641:1645, 1/A25S/1810:1811 | No text annotation | geometric J3_5TBW_090 NA | |
| J3_7TOP_022 | 1/A25S/1631:1632, 1/A25S/1641:1649, 1/A25S/1806:1811 | No text annotation | ||
| J3_7TOP_023 | 1/A25S/1654:1658, 1/A25S/1791:1792, 1/A25S/1796:1801 | No text annotation | homologous J3_8P9A_058 NA | |
| J3_7TOP_024 | 1/A25S/2432:2435, 1/A25S/2512:2516, 1/A25S/2591:2597 | No text annotation | ||
| J3_7TOP_030 | 1/A25S/2529:2532, 1/A25S/2547:2563, 1/A25S/2578:2581 | No text annotation | ||
| J3_7TOP_026 | 1/A25S/2651:2653, 1/A25S/2754:2765, 1/A25S/2793:2798 | No text annotation | homologous J3_8P9A_061 NA | |
| J3_7TOP_013 | 1/A25S/2664:2666, 1/A25S/2690:2692, 1/A25S/2701:2706 | No text annotation | homologous J3_8C3A_010 NA | |
| J3_7TOP_014 | 1/A25S/2886:2889, 1/A25S/2914:2916, 1/A25S/2930:2936 | No text annotation | homologous J3_8C3A_011 NA | |
| J3_7TOP_027 | 1/A25S/3171:3176, 1/A25S/3212:3220, 1/A25S/3265:3279 | No text annotation | homologous J3_8P9A_064 NA | |
| J3_7TOP_015 | 1/A25S/3298:3300, 1/A25S/3314:3318, 1/A25S/3388:3390 | No text annotation | homologous J3_8P9A_065 NA | |
| J3_7TOP_028 | 1/A58S/44:45, 1/A58S/58:64, 1/A58S/96:100 | No text annotation | homologous J3_8P4V_024 NA | |
| J3_7TOP_016 | 1/A5S/9:14, 1/A5S/66:67, 1/A5S/111:112 | No text annotation | homologous J3_5TBW_045 NA | |
| J4_7TOP_001 | 1/A25S/112:113, 1/A25S/267:272, 1/A25S/293:299, 1/A25S/316:319 | No text annotation | homologous J4_8P9A_012 NA | |
| J4_7TOP_002 | 1/A25S/185:189, 1/A25S/205:208, 1/A25S/212:214, 1/A25S/226:231 | No text annotation | homologous J4_8P9A_013 NA | |
| J4_7TOP_003 | 1/A25S/1451:1457, 1/A25S/1475:1476, 1/A25S/1877:1880, 1/A25S/2352:2353 | No text annotation | homologous J4_8P9A_014 NA | |
| J4_7TOP_004 | 1/A25S/1492:1496, 1/A25S/1520:1525, 1/A25S/1614:1615, 1/A25S/1829:1836 | No text annotation | homologous J4_8P9A_015 NA | |
| J4_7TOP_005 | 1/A25S/1674:1675, 1/A25S/1693:1694, 1/A25S/1752:1753, 1/A25S/1772:1773 | No text annotation | homologous J4_8P9A_016 NA | |
| J4_7TOP_006 | 1/A25S/2130:2134, 1/A25S/2146:2150, 1/A25S/2186:2190, 1/A25S/2317:2322 | No text annotation | homologous J4_8P9A_017 NA | |
| J4_7TOP_007 | 1/A25S/2192:2194, 1/A25S/2248:2249, 1/A25S/2267:2276, 1/A25S/2310:2315 | No text annotation | homologous J4_8C3A_007 NA | |
| J4_7TOP_008 | 1/A25S/2654:2658, 1/A25S/2712:2716, 1/A25S/2740:2742, 1/A25S/2751:2753 | No text annotation | homologous J4_8C3A_008 NA | |
| J4_7TOP_009 | 1/A25S/3010:3012, 1/A25S/3042:3043, 1/A25S/3098:3100, 1/A25S/3134:3136 | No text annotation | homologous J4_8P9A_020 NA | |
| J4_7TOP_010 | 1/APTN/7:10, 1/APTN/25:27, 1/APTN/43:49, 1/APTN/65:66 | No text annotation | homologous J4_6UFG_001 NA | |
| J5_7TOP_001 | 1/A25S/20:22, 1/A58S/35:42, 1/A58S/102:107, 1/A58S/115:116, 1/A58S/137:139 | No text annotation | homologous J5_8C3A_001 NA | |
| J5_7TOP_002 | 1/A25S/658:663, 1/A25S/799:802, 1/A25S/941:944, 1/A25S/1375:1376, 1/A25S/1431:1437 | No text annotation | homologous J5_8C3A_002 NA | |
| J5_7TOP_003 | 1/A25S/675:678, 1/A25S/702:706, 1/A25S/713:721, 1/A25S/749:751, 1/A25S/782:787 | No text annotation | homologous J5_8P9A_012 NA | |
| J5_7TOP_004 | 1/A25S/1906:1914, 1/A25S/1938:1939, 1/A25S/2109:2110, 1/A25S/2114:2122, 1/A25S/2331:2333 | No text annotation | homologous J5_8P9A_013 NA | |
| J5_7TOP_005 | 1/A25S/2399:2406, 1/A25S/2815:2823, 1/A25S/2867:2876, 1/A25S/2951:2957, 1/A25S/2975:2980 | No text annotation | ||
| J5_7TOP_006 | 1/A25S/2416:2419, 1/A25S/2611:2614, 1/A25S/2627:2628, 1/A25S/2650:2651, 1/A25S/2798:2804 | No text annotation | homologous J5_8C3A_006 NA | |
| J6_7TOP_001 | 1/A25S/22:27, 1/A25S/58:68, 1/A25S/75:79, 1/A25S/106:110, 1/A25S/321:331, 1/A58S/32:35 | No text annotation | ||
| J6_7TOP_002 | 1/A25S/2416:2419, 1/A25S/2611:2614, 1/A25S/2627:2628, 1/A25S/2650:2653, 1/A25S/2754:2765, 1/A25S/2793:2804 | No text annotation | ||
| J7_7TOP_001 | 1/A25S/949:954, 1/A25S/967:968, 1/A25S/1114:1117, 1/A25S/1141:1146, 1/A25S/1157:1161, 1/A25S/1338:1339, 1/A25S/1365:1370 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_7TOP_007 | No text annotation | ||
| J3_7TOP_012 | No text annotation | ||
| J3_7TOP_025 | No text annotation |
Coloring options: