8JDK Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_8JDK_113 | 1/B/13:22 | tRNA D-loop | homologous HL_1IL2_007 HL_45175.1 | |
| HL_8JDK_002 | 1/B/31:39 | tRNA anticodon loop | homologous HL_9DFC_104 NA | |
| HL_8JDK_003 | 1/B/52:60 | T-loop with 2 stacked bulged bases | homologous HL_3KFU_006 HL_33597.1 | |
| HL_8JDK_114 | 1/C/13:22 | No text annotation | geometric HL_1N78_001 HL_78347.5 | |
| HL_8JDK_005 | 1/C/31:39 | tRNA anticodon loop | homologous HL_7U2I_104 NA | |
| HL_8JDK_006 | 1/C/52:60 | T-loop with 2 stacked bulged bases | homologous HL_3KFU_006 HL_33597.1 | |
| HL_8JDK_007 | 1/D/37:44 | No text annotation | geometric HL_5TBW_001 NA | |
| HL_8JDK_008 | 1/D/68:73 | No text annotation | homologous HL_8C3A_002 NA | |
| HL_8JDK_009 | 1/D/89:95 | No text annotation | homologous HL_5TBW_003 NA | |
| HL_8JDK_010 | 1/D/204:211 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_005 NA | |
| HL_8JDK_011 | 1/D/222:226 | No text annotation | homologous HL_5TBW_006 NA | |
| HL_8JDK_012 | 1/D/230:238 | T-loop with unstacked turn | homologous HL_5TBW_007 NA | |
| HL_8JDK_013 | 1/D/289:298 | No text annotation | homologous HL_8C3A_008 NA | |
| HL_8JDK_014 | 1/D/314:323 | Pseudoknot geometry | homologous HL_8C3A_009 NA | |
| HL_8JDK_015 | 1/D/368:373 | GNRA | homologous HL_8C3A_010 NA | |
| HL_8JDK_115 | 1/D/393:398 | GNRA | homologous HL_8C3A_011 NA | |
| HL_8JDK_019 | 1/D/1171:1190 | No text annotation | ||
| HL_8JDK_116 | 1/D/1317:1326 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_014 NA | |
| HL_8JDK_117 | 1/D/1364:1373 | No text annotation | ||
| HL_8JDK_022 | 1/D/1389:1394 | GNRA | homologous HL_8C3A_016 NA | |
| HL_8JDK_024 | 1/D/1436:1448 | Purine riboswitch | geometric HL_4LX6_002 HL_78364.1 | |
| HL_8JDK_025 | 1/D/1480:1484 | No text annotation | ||
| HL_8JDK_026 | 1/D/1561:1566 | GNRA | homologous HL_5TBW_019 NA | |
| HL_8JDK_027 | 1/D/1593:1602 | No text annotation | homologous HL_5TBW_020 NA | |
| HL_8JDK_028 | 1/D/1627:1635 | No text annotation | homologous HL_8C3A_021 NA | |
| HL_8JDK_029 | 1/D/1675:1680 | Externally structured | homologous HL_5TBW_022 NA | |
| HL_8JDK_031 | 1/D/1816:1823 | No text annotation | homologous HL_5TBW_024 NA | |
| HL_8JDK_032 | 1/D/1864:1870 | GNRA | homologous HL_5TBW_025 NA | |
| HL_8JDK_033 | 1/D/1886:1893 | No text annotation | homologous HL_5TBW_026 NA | |
| HL_8JDK_034 | 1/D/2257:2261 | Mini UNCG | geometric HL_4V9F_021 HL_90436.1 | |
| HL_8JDK_035 | 1/D/2317:2322 | GNRA | homologous HL_8C3A_030 NA | |
| HL_8JDK_036 | 1/D/2376:2384 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_031 NA | |
| HL_8JDK_037 | 1/D/2420:2426 | Pseudoknot geometry with 3' bulge | homologous HL_5TBW_032 NA | |
| HL_8JDK_038 | 1/D/2458:2463 | GNRA variation | homologous HL_5TBW_033 NA | |
| HL_8JDK_040 | 1/D/2523:2532 | No text annotation | homologous HL_5TBW_035 NA | |
| HL_8JDK_042 | 1/D/2578:2583 | GNRA | homologous HL_5TBW_036 NA | |
| HL_8JDK_118 | 1/D/2624:2632 | No text annotation | homologous HL_8C3A_037 NA | |
| HL_8JDK_044 | 1/D/2664:2670 | No text annotation | homologous HL_8C3A_038 NA | |
| HL_8JDK_046 | 1/D/2738:2742 | No text annotation | homologous HL_8C3A_040 NA | |
| HL_8JDK_047 | 1/D/2792:2799 | No text annotation | homologous HL_5TBW_041 NA | |
| HL_8JDK_048 | 1/D/2810:2816 | GNRA | homologous HL_5TBW_042 NA | |
| HL_8JDK_049 | 1/D/2872:2877 | No text annotation | geometric HL_7RQB_042 NA | |
| HL_8JDK_050 | 1/D/3614:3618 | No text annotation | homologous HL_8C3A_045 NA | |
| HL_8JDK_119 | 1/D/3639:3649 | No text annotation | homologous HL_8P9A_157 HL_87681.1 | |
| HL_8JDK_052 | 1/D/3668:3674 | GNRA | homologous HL_8C3A_047 NA | |
| HL_8JDK_120 | 1/D/3724:3729 | GNRA | homologous HL_8P9A_159 HL_34789.1 | |
| HL_8JDK_054 | 1/D/3757:3767 | No text annotation | homologous HL_5TBW_049 NA | |
| HL_8JDK_055 | 1/D/3796:3804 | No text annotation | homologous HL_8C3A_050 NA | |
| HL_8JDK_056 | 1/D/3873:3882 | No text annotation | homologous HL_8C3A_051 NA | |
| HL_8JDK_058 | 1/D/4193:4201 | No text annotation | homologous HL_8C3A_055 NA | |
| HL_8JDK_059 | 1/D/4210:4222 | No text annotation | homologous HL_8P9A_166 HL_02042.1 | |
| HL_8JDK_060 | 1/D/4250:4258 | No text annotation | homologous HL_5TBW_056 NA | |
| HL_8JDK_061 | 1/D/4270:4277 | Pseudoknot geometry | homologous HL_5TBW_057 NA | |
| HL_8JDK_062 | 1/D/4301:4309 | No text annotation | homologous HL_8C3A_059 NA | |
| HL_8JDK_063 | 1/D/4321:4326 | GNRA | homologous HL_5TBW_059 NA | |
| HL_8JDK_064 | 1/D/4352:4362 | Pseudoknot geometry | homologous HL_5TBW_060 NA | |
| HL_8JDK_065 | 1/D/4417:4425 | No text annotation | homologous HL_5TBW_061 NA | |
| HL_8JDK_066 | 1/D/4474:4481 | No text annotation | homologous HL_5TBW_062 NA | |
| HL_8JDK_067 | 1/D/4497:4503 | No text annotation | homologous HL_8C3A_064 NA | |
| HL_8JDK_068 | 1/D/4540:4545 | GNRA | homologous HL_5TBW_064 NA | |
| HL_8JDK_069 | 1/D/4603:4608 | GNRA | geometric HL_5J7L_197 NA | |
| HL_8JDK_070 | 1/D/4646:4651 | Ribsomal LSU H95 | homologous HL_8C3A_067 NA | |
| HL_8JDK_071 | 1/D/4688:4702 | No text annotation | homologous HL_8C3A_068 NA | |
| HL_8JDK_073 | 1/D/4907:4914 | No text annotation | geometric HL_2Y9H_003 HL_75660.6 | |
| HL_8JDK_074 | 1/D/4975:4983 | No text annotation | homologous HL_8C3A_071 NA | |
| HL_8JDK_122 | 1/E/32:45 | No text annotation | homologous HL_8C3A_228 NA | |
| HL_8JDK_076 | 1/E/36:41 | No text annotation | geometric HL_5TBW_185 NA | |
| HL_8JDK_077 | 1/E/86:91 | GNRA | homologous HL_8C3A_074 NA | |
| HL_8JDK_078 | 1/F/47:56 | No text annotation | geometric HL_7RQB_001 NA | |
| HL_8JDK_079 | 1/F/68:90 | No text annotation | homologous HL_8C3A_075 NA | |
| HL_8JDK_080 | 1/F/107:112 | No text annotation | homologous HL_5TBW_075 NA | |
| HL_8JDK_081 | 1/F/122:128 | GNRA related | geometric HL_5J7L_179 NA | |
| HL_8JDK_082 | 1/w/7:17 | No text annotation | homologous HL_4V88_186 NA | |
| HL_8JDK_084 | 1/w/156:162 | GNRA related | geometric HL_4V88_188 NA | |
| HL_8JDK_086 | 1/w/288:295 | No text annotation | geometric HL_5U3G_001 NA | |
| HL_8JDK_087 | 1/w/377:387 | No text annotation | ||
| HL_8JDK_088 | 1/w/416:421 | No text annotation | geometric HL_5HR7_005 HL_50006.4 | |
| HL_8JDK_089 | 1/w/441:452 | No text annotation | homologous HL_4V88_195 NA | |
| HL_8JDK_124 | 1/w/462:467 | UNCG | homologous HL_8P9A_200 HL_61337.1 | |
| HL_8JDK_091 | 1/w/498:505 | No text annotation | ||
| HL_8JDK_092 | 1/w/569:581 | No text annotation | geometric HL_4V88_199 NA | |
| HL_8JDK_093 | 1/w/618:623 | GNRA variation | homologous HL_8C3A_206 NA | |
| HL_8JDK_094 | 1/w/820:828 | No text annotation | homologous HL_4V88_203 NA | |
| HL_8JDK_126 | 1/w/957:966 | No text annotation | homologous HL_8C3A_211 NA | |
| HL_8JDK_098 | 1/w/994:999 | GNRA | homologous HL_4V88_207 NA | |
| HL_8JDK_099 | 1/w/1054:1064 | No text annotation | homologous HL_4V88_208 NA | |
| HL_8JDK_101 | 1/w/1141:1146 | GNRA | homologous HL_4V88_210 NA | |
| HL_8JDK_102 | 1/w/1178:1183 | GNRA | homologous HL_8C3A_216 NA | |
| HL_8JDK_103 | 1/w/1245:1254 | No text annotation | homologous HL_8P9A_215 HL_97521.1 | |
| HL_8JDK_104 | 1/w/1295:1304 | Anticodon loop related | homologous HL_8C3A_218 NA | |
| HL_8JDK_105 | 1/w/1353:1358 | GNRA | homologous HL_8C3A_219 NA | |
| HL_8JDK_106 | 1/w/1366:1373 | T-loop related | homologous HL_8C3A_220 NA | |
| HL_8JDK_108 | 1/w/1460:1466 | No text annotation | homologous HL_8C3A_222 NA | |
| HL_8JDK_109 | 1/w/1565:1570 | GNRA | homologous HL_8C3A_223 NA | |
| HL_8JDK_128 | 1/w/1614:1625 | No text annotation | homologous HL_8C3A_224 NA | |
| HL_8JDK_111 | 1/w/1658:1666 | No text annotation | homologous HL_4V88_220 NA | |
| HL_8JDK_112 | 1/w/1847:1852 | GNRA variation | homologous HL_8C3A_227 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_8JDK_001 | No text annotation | ||
| HL_8JDK_004 | No text annotation | ||
| HL_8JDK_016 | tRNA anticodon loop | ||
| HL_8JDK_017 | No text annotation | ||
| HL_8JDK_018 | No text annotation | ||
| HL_8JDK_020 | No text annotation | ||
| HL_8JDK_021 | No text annotation | ||
| HL_8JDK_023 | No text annotation | ||
| HL_8JDK_129 | No text annotation | ||
| HL_8JDK_030 | No text annotation | ||
| HL_8JDK_039 | No text annotation | ||
| HL_8JDK_041 | GNRA | ||
| HL_8JDK_043 | No text annotation | ||
| HL_8JDK_045 | No text annotation | ||
| HL_8JDK_051 | No text annotation | ||
| HL_8JDK_053 | No text annotation | ||
| HL_8JDK_121 | No text annotation | ||
| HL_8JDK_057 | Mini UNCG | ||
| HL_8JDK_072 | No text annotation | ||
| HL_8JDK_075 | No text annotation | ||
| HL_8JDK_083 | No text annotation | ||
| HL_8JDK_123 | No text annotation | ||
| HL_8JDK_085 | No text annotation | ||
| HL_8JDK_090 | No text annotation | ||
| HL_8JDK_125 | No text annotation | ||
| HL_8JDK_095 | No text annotation | ||
| HL_8JDK_096 | Externally structured | ||
| HL_8JDK_097 | No text annotation | ||
| HL_8JDK_100 | No text annotation | ||
| HL_8JDK_127 | No text annotation | ||
| HL_8JDK_107 | No text annotation | ||
| HL_8JDK_110 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_8JDK_003 | 1/D/6:7, 1/F/149:151 | Single bulged C | homologous IL_8C3A_002 NA | |
| IL_8JDK_004 | 1/D/12:14, 1/F/143:144 | Single bulged U | homologous IL_8C3A_003 NA | |
| IL_8JDK_005 | 1/D/16:18, 1/F/139:141 | Isolated non-canonical cWW pair | geometric IL_1Y27_001 NA | |
| IL_8JDK_006 | 1/D/26:27, 1/D/55:57 | Single stack bend | homologous IL_5TBW_004 NA | |
| IL_8JDK_007 | 1/D/30:37, 1/D/44:52 | 9x8 Sarcin-Ricin; G-bulge | geometric IL_4WF9_008 IL_93502.1 | |
| IL_8JDK_008 | 1/D/81:88, 1/D/96:102 | No text annotation | homologous IL_8C3A_006 NA | |
| IL_8JDK_009 | 1/D/118:122, 1/D/147:153 | No text annotation | ||
| IL_8JDK_010 | 1/D/125:126, 1/D/142:144 | Single bulged C | geometric IL_1DQF_001 NA | |
| IL_8JDK_011 | 1/D/169:173, 1/D/263:266 | No text annotation | ||
| IL_8JDK_015 | 1/D/195:196, 1/D/244:246 | Single bulged C | geometric IL_1DQF_001 NA | |
| IL_8JDK_016 | 1/D/199:201, 1/D/214:215 | Single bulged U | homologous IL_8C3A_013 NA | |
| IL_8JDK_017 | 1/D/339:342, 1/F/32:33 | Minor groove platform | geometric IL_7RQB_073 NA | |
| IL_8JDK_018 | 1/D/348:350, 1/F/25:26 | Single bulged A | homologous IL_8C3A_014 NA | |
| IL_8JDK_019 | 1/D/387:390, 1/D/401:414 | No text annotation | homologous IL_8C3A_015 NA | |
| IL_8JDK_021 | 1/D/415:421, 1/F/13:19 | Triple sheared with non-canonical cWW | homologous IL_5TBW_015 NA | |
| IL_8JDK_022 | 1/D/443:446, 1/D/1300:1304 | No text annotation | geometric IL_6AZ4_001 NA | |
| IL_8JDK_281 | 1/D/448:450, 1/D/1297:1298 | No text annotation | ||
| IL_8JDK_025 | 1/D/462:464, 1/D/691:693 | Isolated non-canonical cWW pair | geometric IL_5TBW_042 NA | |
| IL_8JDK_026 | 1/D/466:472, 1/D/682:689 | No text annotation | ||
| IL_8JDK_027 | 1/D/482:485, 1/D/671:672 | Multiple bulged bases | geometric IL_1R3E_002 IL_44609.1 | |
| IL_8JDK_028 | 1/D/488:489, 1/D/666:668 | Single bulged A | geometric IL_8VM9_003 IL_14190.1 | |
| IL_8JDK_029 | 1/D/489:490, 1/D/664:666 | No text annotation | ||
| IL_8JDK_031 | 1/D/497:500, 1/D/654:657 | Tandem non-canonical cWW pairs | geometric IL_1MFQ_004 IL_15225.1 | |
| IL_8JDK_033 | 1/D/508:510, 1/D/649:650 | Single bulged A | geometric IL_6WPI_001 IL_14190.1 | |
| IL_8JDK_035 | 1/D/709:710, 1/D/1286:1288 | Single bulged G | geometric IL_4LFB_036 IL_28408.1 | |
| IL_8JDK_036 | 1/D/723:724, 1/D/942:945 | Multiple bulged bases | geometric IL_1R3E_001 IL_44609.1 | |
| IL_8JDK_037 | 1/D/727:731, 1/D/938:939 | No text annotation | ||
| IL_8JDK_038 | 1/D/732:735, 1/D/928:937 | No text annotation | ||
| IL_8JDK_039 | 1/D/737:739, 1/D/925:926 | No text annotation | ||
| IL_8JDK_040 | 1/D/740:742, 1/D/922:924 | Isolated non-canonical cWW pair | geometric IL_1T0E_002 NA | |
| IL_8JDK_041 | 1/D/745:752, 1/D/911:919 | No text annotation | geometric IL_5TBW_020 NA | |
| IL_8JDK_042 | 1/D/1073:1074, 1/D/1237:1239 | Single bulged A | geometric IL_2VPL_002 IL_14190.1 | |
| IL_8JDK_044 | 1/D/1082:1084, 1/D/1213:1217 | Isolated cWH basepair | geometric IL_4KQ0_001 NA | |
| IL_8JDK_045 | 1/D/1086:1087, 1/D/1209:1211 | Single bulged C | geometric IL_3W3S_001 NA | |
| IL_8JDK_046 | 1/D/1093:1094, 1/D/1201:1203 | No text annotation | ||
| IL_8JDK_047 | 1/D/1094:1096, 1/D/1199:1201 | Isolated non-canonical cWW pair | geometric IL_5MSF_001 IL_01003.1 | |
| IL_8JDK_049 | 1/D/1244:1245, 1/D/1265:1267 | Single bulged G | geometric IL_4V88_442 NA | |
| IL_8JDK_050 | 1/D/1357:1360, 1/D/1379:1382 | No text annotation | ||
| IL_8JDK_282 | 1/D/1357:1361, 1/D/1376:1382 | No text annotation | ||
| IL_8JDK_051 | 1/D/1360:1361, 1/D/1376:1379 | Multiple bulged bases | geometric IL_1R3E_002 IL_44609.1 | |
| IL_8JDK_052 | 1/D/1425:1429, 1/D/1455:1460 | Triple sheared related | geometric IL_4V9F_018 IL_67427.1 | |
| IL_8JDK_053 | 1/D/1431:1434, 1/D/1450:1453 | Double sheared | geometric IL_4WF9_087 IL_58355.1 | |
| IL_8JDK_054 | 1/D/1467:1468, 1/D/1496:1498 | Single bulged A | homologous IL_5TBW_024 NA | |
| IL_8JDK_055 | 1/D/1474:1476, 1/D/1489:1490 | Single base bend | geometric IL_5IBB_340 NA | |
| IL_8JDK_056 | 1/D/1479:1480, 1/D/1484:1486 | No text annotation | ||
| IL_8JDK_283 | 1/D/1520:1522, 1/D/1655:1657 | Isolated non-canonical cWW pair | homologous IL_8C3A_029 NA | |
| IL_8JDK_284 | 1/D/1522:1526, 1/D/1648:1655 | No text annotation | homologous IL_8P9A_256 IL_73855.1 | |
| IL_8JDK_058 | 1/D/1545:1546, 1/D/1612:1614 | Single bulged A | geometric IL_4WF9_022 IL_14190.1 | |
| IL_8JDK_059 | 1/D/1550:1551, 1/D/1576:1578 | Single bulged G | geometric IL_4V9F_026 IL_28408.1 | |
| IL_8JDK_060 | 1/D/1551:1555, 1/D/1572:1576 | Triple sheared | homologous IL_8C3A_033 NA | |
| IL_8JDK_061 | 1/D/1586:1589, 1/D/1605:1607 | Major groove platform with extra cWW | homologous IL_8C3A_034 NA | |
| IL_8JDK_062 | 1/D/1590:1592, 1/D/1603:1604 | Single bulged U | homologous IL_8C3A_035 NA | |
| IL_8JDK_063 | 1/D/1624:1626, 1/D/1636:1640 | No text annotation | homologous IL_8C3A_036 NA | |
| IL_8JDK_064 | 1/D/1671:1673, 1/D/1682:1684 | Isolated non-canonical cWW pair | homologous IL_8C3A_037 NA | |
| IL_8JDK_065 | 1/D/1686:1688, 1/D/1848:1851 | No text annotation | ||
| IL_8JDK_067 | 1/D/1723:1725, 1/D/1838:1839 | Single bulged G | homologous IL_8C3A_040 NA | |
| IL_8JDK_285 | 1/D/1732:1737, 1/D/1792:1797 | No text annotation | ||
| IL_8JDK_286 | 1/D/1737:1738, 1/D/1790:1792 | Minor groove platform | homologous IL_8C3A_042 NA | |
| IL_8JDK_287 | 1/D/1739:1744, 1/D/1786:1789 | C-loop with bulged stacked A's | homologous IL_8C3A_043 NA | |
| IL_8JDK_288 | 1/D/1746:1749, 1/D/1781:1784 | Tandem non-canonical cWW pairs | homologous IL_8P9A_269 IL_71194.1 | |
| IL_8JDK_289 | 1/D/1749:1751, 1/D/1779:1781 | Isolated non-canonical cWW pair | homologous IL_8C3A_045 NA | |
| IL_8JDK_071 | 1/D/1754:1756, 1/D/1775:1776 | Multiple bulged bases | geometric IL_4V88_392 NA | |
| IL_8JDK_290 | 1/D/1754:1758, 1/D/1774:1776 | No text annotation | geometric IL_6CK5_011 IL_32983.1 | |
| IL_8JDK_072 | 1/D/1756:1758, 1/D/1774:1775 | Single bulged U | geometric IL_5TBW_025 NA | |
| IL_8JDK_074 | 1/D/1814:1816, 1/D/1823:1824 | Single bulged G | geometric IL_4V88_442 NA | |
| IL_8JDK_291 | 1/D/1858:1860, 1/D/1874:1876 | Isolated non-canonical cWW pair | homologous IL_8P9A_274 IL_01003.1 | |
| IL_8JDK_077 | 1/D/1905:1909, 1/D/2067:2071 | UAA/GAN | homologous IL_8C3A_051 NA | |
| IL_8JDK_078 | 1/D/1911:1918, 1/D/2064:2065 | SSU/LSU pseudoknot | geometric IL_7RQB_037 NA | |
| IL_8JDK_079 | 1/D/1918:1920, 1/D/2063:2064 | No text annotation | ||
| IL_8JDK_080 | 1/D/1920:1922, 1/D/2062:2063 | No text annotation | ||
| IL_8JDK_081 | 1/D/1926:1933, 1/D/2053:2058 | No text annotation | homologous IL_8C3A_054 NA | |
| IL_8JDK_082 | 1/D/1933:1944, 1/D/2038:2053 | No text annotation | geometric IL_5TBW_052 NA | |
| IL_8JDK_083 | 1/D/1946:1948, 1/D/2035:2036 | Single bulged U | homologous IL_5TBW_053 NA | |
| IL_8JDK_084 | 1/D/1957:1965, 1/D/2022:2026 | Kink-turn | homologous IL_8C3A_057 NA | |
| IL_8JDK_085 | 1/D/2083:2085, 1/D/2272:2273 | Single bulged C | geometric IL_4C7O_003 NA | |
| IL_8JDK_086 | 1/D/2290:2292, 1/D/2342:2345 | Isolated cWS basepair | homologous IL_5TBW_057 NA | |
| IL_8JDK_087 | 1/D/2299:2301, 1/D/2334:2335 | Single bulged A | homologous IL_8C3A_062 NA | |
| IL_8JDK_088 | 1/D/2302:2309, 1/D/2329:2333 | Kink-turn | homologous IL_5TBW_059 NA | |
| IL_8JDK_089 | 1/D/2312:2314, 1/D/2325:2326 | Single bulged A | geometric IL_5WWT_001 IL_14190.1 | |
| IL_8JDK_293 | 1/D/2358:2364, 1/D/3858:3863 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_8P9A_289 IL_02666.1 | |
| IL_8JDK_091 | 1/D/2406:2409, 1/D/2783:2784 | Major groove platform; stack outside cWW | geometric IL_4V9F_050 IL_74641.1 | |
| IL_8JDK_294 | 1/D/2415:2419, 1/D/2427:2429 | C-loop | homologous IL_8C3A_482 NA | |
| IL_8JDK_093 | 1/D/2446:2450, 1/D/2509:2514 | UAA/GAN | homologous IL_8C3A_067 NA | |
| IL_8JDK_094 | 1/D/2477:2479, 1/D/2499:2500 | Single stack bend | geometric IL_7KGA_003 NA | |
| IL_8JDK_095 | 1/D/2542:2547, 1/D/2772:2774 | No text annotation | geometric IL_6DME_003 IL_75527.1 | |
| IL_8JDK_096 | 1/D/2549:2550, 1/D/2768:2770 | Single bulged U | geometric IL_2A64_002 NA | |
| IL_8JDK_097 | 1/D/2589:2593, 1/D/2752:2756 | Triple sheared | homologous IL_5TBW_067 NA | |
| IL_8JDK_098 | 1/D/2613:2614, 1/D/2724:2726 | Single bulged A | geometric IL_4P3U_002 NA | |
| IL_8JDK_099 | 1/D/2614:2615, 1/D/2722:2724 | Single stack bend | homologous IL_5TBW_070 NA | |
| IL_8JDK_100 | 1/D/2646:2648, 1/D/2685:2688 | Isolated tHS basepair with bulges | geometric IL_4V9F_076 IL_87316.1 | |
| IL_8JDK_101 | 1/D/2651:2653, 1/D/2681:2682 | Single bulged G | geometric IL_3NDB_004 NA | |
| IL_8JDK_102 | 1/D/2656:2662, 1/D/2672:2678 | Kink-turn | homologous IL_5TBW_073 NA | |
| IL_8JDK_103 | 1/D/2704:2705, 1/D/2710:2712 | No text annotation | ||
| IL_8JDK_295 | 1/D/2832:2838, 1/D/3850:3853 | No text annotation | homologous IL_8C3A_080 NA | |
| IL_8JDK_105 | 1/D/2844:2846, 1/D/3842:3844 | Isolated tWW turn | geometric IL_4WF9_063 IL_10432.1 | |
| IL_8JDK_296 | 1/D/2847:2850, 1/D/3840:3841 | Major groove platform; stack outside cWW | geometric IL_5TBW_076 NA | |
| IL_8JDK_297 | 1/D/2847:2855, 1/D/3837:3841 | No text annotation | homologous IL_8P9A_305 IL_80252.1 | |
| IL_8JDK_107 | 1/D/2850:2855, 1/D/3837:3840 | Intercalated tWH | geometric IL_5TBW_077 NA | |
| IL_8JDK_108 | 1/D/2867:2872, 1/D/2877:2883 | No text annotation | homologous IL_8C3A_084 NA | |
| IL_8JDK_109 | 1/D/2889:2891, 1/D/3610:3612 | Isolated non-canonical cWW pair | homologous IL_8C3A_085 NA | |
| IL_8JDK_110 | 1/D/2896:2897, 1/D/3602:3605 | No text annotation | homologous IL_8C3A_086 NA | |
| IL_8JDK_113 | 1/D/3632:3633, 1/D/3827:3829 | Single bulged A | geometric IL_4V9F_064 IL_14190.1 | |
| IL_8JDK_114 | 1/D/3660:3665, 1/D/3677:3684 | Kink-turn related | homologous IL_5TBW_083 NA | |
| IL_8JDK_116 | 1/D/3700:3703, 1/D/3749:3750 | Major groove intercalation | homologous IL_5TBW_084 NA | |
| IL_8JDK_117 | 1/D/3704:3705, 1/D/3745:3748 | Major groove intercalation | geometric IL_4V9F_067 IL_71421.1 | |
| IL_8JDK_119 | 1/D/3708:3714, 1/D/3739:3742 | No text annotation | ||
| IL_8JDK_298 | 1/D/3715:3721, 1/D/3732:3738 | No text annotation | homologous IL_8P9A_316 IL_65359.1 | |
| IL_8JDK_123 | 1/D/3780:3781, 1/D/3811:3814 | No text annotation | homologous IL_8C3A_094 NA | |
| IL_8JDK_299 | 1/D/3781:3792, 1/D/3808:3811 | No text annotation | homologous IL_8P9A_318 IL_84014.1 | |
| IL_8JDK_125 | 1/D/3895:3898, 1/D/4563:4565 | Major groove platform with extra pair | homologous IL_5TBW_091 NA | |
| IL_8JDK_127 | 1/D/3900:3902, 1/D/4558:4561 | No text annotation | homologous IL_8C3A_097 NA | |
| IL_8JDK_128 | 1/D/3913:3915, 1/D/4388:4389 | Single bulged U | homologous IL_8C3A_098 NA | |
| IL_8JDK_129 | 1/D/3916:3917, 1/D/4384:4387 | Minor groove platform | homologous IL_5TBW_094 NA | |
| IL_8JDK_131 | 1/D/3927:3929, 1/D/4181:4184 | No text annotation | homologous IL_8C3A_100 NA | |
| IL_8JDK_133 | 1/D/4082:4088, 1/D/4161:4164 | No text annotation | homologous IL_8C3A_106 NA | |
| IL_8JDK_134 | 1/D/4095:4098, 1/D/4111:4113 | No text annotation | ||
| IL_8JDK_135 | 1/D/4191:4192, 1/D/4202:4204 | Single bulged A | homologous IL_5TBW_098 NA | |
| IL_8JDK_136 | 1/D/4243:4245, 1/D/4263:4267 | No text annotation | homologous IL_8C3A_108 NA | |
| IL_8JDK_300 | 1/D/4291:4293, 1/D/4317:4318 | Single bulged A | geometric IL_7A0S_064 IL_14190.1 | |
| IL_8JDK_301 | 1/D/4295:4298, 1/D/4312:4315 | Tandem non-canonical cWW pairs | homologous IL_8C3A_109 NA | |
| IL_8JDK_139 | 1/D/4347:4350, 1/D/4364:4365 | Single stack bend | geometric IL_5J7L_032 NA | |
| IL_8JDK_302 | 1/D/4400:4401, 1/D/4442:4444 | Major groove platform | homologous IL_8P9A_329 IL_48076.7 | |
| IL_8JDK_303 | 1/D/4401:4403, 1/D/4440:4442 | Isolated non-canonical cWW pair | homologous IL_8P9A_330 IL_01003.1 | |
| IL_8JDK_304 | 1/D/4403:4405, 1/D/4439:4440 | No text annotation | homologous IL_8P9A_331 IL_46637.1 | |
| IL_8JDK_141 | 1/D/4405:4407, 1/D/4435:4439 | Major groove minor groove platform with extra cWW | homologous IL_5TBW_105 NA | |
| IL_8JDK_143 | 1/D/4412:4416, 1/D/4426:4430 | No text annotation | homologous IL_8C3A_114 NA | |
| IL_8JDK_144 | 1/D/4453:4454, 1/D/4526:4528 | Major groove platform | homologous IL_8C3A_115 NA | |
| IL_8JDK_305 | 1/D/4456:4458, 1/D/4520:4524 | No text annotation | homologous IL_8C3A_116 NA | |
| IL_8JDK_146 | 1/D/4458:4459, 1/D/4517:4520 | No text annotation | homologous IL_8C3A_117 NA | |
| IL_8JDK_147 | 1/D/4466:4468, 1/D/4489:4491 | Isolated non-canonical cWW pair | homologous IL_5TBW_110 NA | |
| IL_8JDK_306 | 1/D/4466:4470, 1/D/4485:4491 | No text annotation | ||
| IL_8JDK_148 | 1/D/4468:4470, 1/D/4485:4489 | No text annotation | geometric IL_3DD2_004 NA | |
| IL_8JDK_151 | 1/D/4495:4497, 1/D/4503:4505 | Isolated non-canonical cWW pair | homologous IL_5TBW_112 NA | |
| IL_8JDK_153 | 1/D/4537:4538, 1/D/4547:4549 | Single bulged A | geometric IL_7RQB_101 NA | |
| IL_8JDK_156 | 1/D/4580:4582, 1/D/4721:4723 | No text annotation | geometric IL_3ICQ_003 NA | |
| IL_8JDK_157 | 1/D/4582:4585, 1/D/4717:4721 | Double sheared | geometric IL_6E7L_002 NA | |
| IL_8JDK_307 | 1/D/4590:4592, 1/D/4618:4620 | Isolated non-canonical cWW pair | homologous IL_8P9A_343 IL_71625.1 | |
| IL_8JDK_158 | 1/D/4596:4603, 1/D/4608:4614 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_8C3A_125 NA | |
| IL_8JDK_160 | 1/D/4624:4629, 1/D/4669:4673 | No text annotation | ||
| IL_8JDK_308 | 1/D/4632:4637, 1/D/4662:4666 | No text annotation | homologous IL_8P9A_346 IL_98200.1 | |
| IL_8JDK_162 | 1/D/4638:4640, 1/D/4659:4661 | Isolated cWH basepair | geometric IL_3R1C_012 IL_10892.1 | |
| IL_8JDK_163 | 1/D/4641:4642, 1/D/4655:4658 | Multiple bulged bases | homologous IL_5TBW_119 NA | |
| IL_8JDK_164 | 1/D/4680:4685, 1/D/4705:4710 | UAA/GAN with extra cWW | geometric IL_5J7L_350 NA | |
| IL_8JDK_165 | 1/D/4740:4742, 1/D/4958:4959 | No text annotation | ||
| IL_8JDK_166 | 1/D/4743:4746, 1/D/4954:4957 | Tandem non-canonical cWW pairs | geometric IL_4V88_438 NA | |
| IL_8JDK_167 | 1/D/4749:4751, 1/D/4948:4951 | No text annotation | ||
| IL_8JDK_168 | 1/D/4756:4765, 1/D/4869:4877 | No text annotation | ||
| IL_8JDK_169 | 1/D/4769:4771, 1/D/4863:4865 | Isolated non-canonical cWW pair | geometric IL_3GM7_006 IL_01003.1 | |
| IL_8JDK_170 | 1/D/4885:4889, 1/D/4930:4934 | Triple non-canonical cWW pairs | geometric IL_8S95_002 NA | |
| IL_8JDK_171 | 1/D/4891:4896, 1/D/4924:4928 | No text annotation | ||
| IL_8JDK_309 | 1/D/4972:4975, 1/D/4983:4986 | Tandem non-canonical cWW pairs | geometric IL_3TZR_003 NA | |
| IL_8JDK_173 | 1/D/4992:4994, 1/D/5057:5059 | Isolated non-canonical cWW pair | geometric IL_3HHN_004 IL_01003.1 | |
| IL_8JDK_174 | 1/D/4996:4997, 1/D/5053:5055 | Single bulged C | geometric IL_7RQB_108 NA | |
| IL_8JDK_175 | 1/D/5000:5002, 1/D/5045:5050 | Isolated non-canonical cWW pair | homologous IL_5TBW_132 NA | |
| IL_8JDK_176 | 1/D/5003:5009, 1/D/5039:5044 | No text annotation | ||
| IL_8JDK_178 | 1/D/5012:5014, 1/D/5035:5036 | Single bulged U | homologous IL_8C3A_140 NA | |
| IL_8JDK_179 | 1/D/5014:5017, 1/D/5032:5035 | Double sheared | geometric IL_4V9F_100 IL_58355.1 | |
| IL_8JDK_180 | 1/E/15:16, 1/E/62:64 | Single bulged A | homologous IL_8C3A_143 NA | |
| IL_8JDK_181 | 1/E/21:27, 1/E/52:57 | Minor groove platform related | homologous IL_8C3A_144 NA | |
| IL_8JDK_182 | 1/E/28:29, 1/E/48:51 | Major groove minor groove platform; mini C-loop | homologous IL_7RQB_113 NA | |
| IL_8JDK_183 | 1/E/32:36, 1/E/41:45 | Symmetric double minor groove platform | homologous IL_7RQB_114 NA | |
| IL_8JDK_184 | 1/E/71:78, 1/E/98:104 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5TBW_377 NA | |
| IL_8JDK_185 | 1/E/79:81, 1/E/95:97 | Isolated non-canonical cWW pair | geometric IL_4V88_470 NA | |
| IL_8JDK_186 | 1/E/82:85, 1/E/92:94 | Isolated non-canonical cWW pair | homologous IL_5TBW_378 NA | |
| IL_8JDK_187 | 1/F/64:66, 1/F/92:95 | Isolated non-canonical cWW pair | homologous IL_5TBW_145 NA | |
| IL_8JDK_310 | 1/w/23:25, 1/w/649:651 | Isolated non-canonical cWW pair | geometric IL_4M4O_001 NA | |
| IL_8JDK_311 | 1/w/34:36, 1/w/519:521 | Isolated non-canonical cWW pair | homologous IL_8C3A_393 NA | |
| IL_8JDK_190 | 1/w/37:40, 1/w/514:518 | Double sheared | geometric IL_4WF9_016 IL_58355.1 | |
| IL_8JDK_191 | 1/w/41:47, 1/w/479:481 | No text annotation | homologous IL_4V88_387 NA | |
| IL_8JDK_192 | 1/w/49:51, 1/w/476:477 | Minor groove platform | homologous IL_4V88_388 NA | |
| IL_8JDK_193 | 1/w/57:62, 1/w/86:88 | No text annotation | homologous IL_4V88_389 NA | |
| IL_8JDK_194 | 1/w/63:68, 1/w/81:85 | No text annotation | homologous IL_4V88_390 NA | |
| IL_8JDK_195 | 1/w/108:112, 1/w/349:353 | No text annotation | geometric IL_5TBW_121 NA | |
| IL_8JDK_196 | 1/w/112:115, 1/w/348:349 | Multiple bulged bases | geometric IL_5WLH_001 NA | |
| IL_8JDK_312 | 1/w/116:121, 1/w/343:347 | No text annotation | homologous IL_8P9A_382 IL_31545.1 | |
| IL_8JDK_198 | 1/w/123:124, 1/w/339:341 | Minor groove platform | geometric IL_4UYK_001 IL_34520.1 | |
| IL_8JDK_334 | 1/w/152:154, 1/w/164:166 | No text annotation | homologous IL_8P9A_384 IL_23751.1 | |
| IL_8JDK_206 | 1/w/312:314, 1/w/336:337 | Single bulged A | homologous IL_4V88_399 NA | |
| IL_8JDK_208 | 1/w/359:364, 1/w/396:403 | Kink-turn with non-sequential stacking | homologous IL_8C3A_410 NA | |
| IL_8JDK_209 | 1/w/366:371, 1/w/393:394 | No text annotation | homologous IL_8C3A_411 NA | |
| IL_8JDK_210 | 1/w/411:413, 1/w/424:429 | No text annotation | homologous IL_8C3A_412 NA | |
| IL_8JDK_211 | 1/w/437:439, 1/w/454:456 | Isolated cWH basepair | homologous IL_8C3A_413 NA | |
| IL_8JDK_316 | 1/w/459:461, 1/w/468:470 | Isolated non-canonical cWW pair | homologous IL_8C3A_414 NA | |
| IL_8JDK_317 | 1/w/487:489, 1/w/511:512 | Single bulged U | homologous IL_8P9A_396 IL_97561.1 | |
| IL_8JDK_318 | 1/w/491:497, 1/w/506:509 | No text annotation | ||
| IL_8JDK_213 | 1/w/527:531, 1/w/553:558 | No text annotation | ||
| IL_8JDK_320 | 1/w/599:608, 1/w/635:637 | No text annotation | ||
| IL_8JDK_219 | 1/w/611:617, 1/w/624:632 | Kink-turn related | homologous IL_4V88_415 NA | |
| IL_8JDK_220 | 1/w/663:665, 1/w/1162:1164 | Isolated non-canonical cWW pair | geometric IL_1Y27_001 NA | |
| IL_8JDK_221 | 1/w/665:671, 1/w/1161:1162 | No text annotation | geometric IL_4LFB_022 IL_20847.1 | |
| IL_8JDK_222 | 1/w/673:675, 1/w/1030:1032 | Isolated non-canonical cWW pair | homologous IL_4V88_417 NA | |
| IL_8JDK_223 | 1/w/676:680, 1/w/1025:1029 | tSH-tHW-tHS | geometric IL_4V88_418 NA | |
| IL_8JDK_321 | 1/w/802:803, 1/w/860:863 | No text annotation | homologous IL_8P9A_412 IL_73108.1 | |
| IL_8JDK_226 | 1/w/874:876, 1/w/910:912 | Isolated non-canonical cWW pair | geometric IL_6IA2_005 NA | |
| IL_8JDK_229 | 1/w/922:923, 1/w/1019:1022 | Major groove platform; stack outside cWW | homologous IL_4V88_428 NA | |
| IL_8JDK_230 | 1/w/925:927, 1/w/1014:1017 | Isolated non-canonical cWW pair | geometric IL_3TD0_005 NA | |
| IL_8JDK_231 | 1/w/928:931, 1/w/1010:1013 | Tandem non-canonical cWW pairs | homologous IL_4V88_430 NA | |
| IL_8JDK_232 | 1/w/931:935, 1/w/1007:1010 | Tandem non-canonical cWW pairs | geometric IL_4V88_431 NA | |
| IL_8JDK_233 | 1/w/942:945, 1/w/981:984 | Tandem non-canonical cWW pairs | homologous IL_4V88_432 NA | |
| IL_8JDK_234 | 1/w/952:956, 1/w/967:974 | Kink-turn | homologous IL_4V88_434 NA | |
| IL_8JDK_235 | 1/w/1042:1047, 1/w/1071:1073 | Other IL | homologous IL_4V88_435 NA | |
| IL_8JDK_236 | 1/w/1047:1051, 1/w/1067:1071 | tSH-tHW-tHS | geometric IL_5J7L_037 NA | |
| IL_8JDK_322 | 1/w/1091:1093, 1/w/1152:1158 | No text annotation | homologous IL_8P9A_425 IL_82706.2 | |
| IL_8JDK_238 | 1/w/1098:1101, 1/w/1131:1134 | Tandem non-canonical cWW pairs | geometric IL_4V88_438 NA | |
| IL_8JDK_239 | 1/w/1101:1103, 1/w/1129:1131 | Isolated non-canonical cWW pair | geometric IL_1MFQ_003 IL_01003.1 | |
| IL_8JDK_240 | 1/w/1108:1110, 1/w/1123:1124 | Minor groove platform | geometric IL_4V88_412 NA | |
| IL_8JDK_241 | 1/w/1168:1175, 1/w/1186:1191 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_4V88_440 NA | |
| IL_8JDK_243 | 1/w/1203:1205, 1/w/1693:1696 | Isolated non-canonical cWW with bulges | geometric IL_4V9F_097 IL_68118.1 | |
| IL_8JDK_323 | 1/w/1206:1208, 1/w/1691:1692 | Single bulged G | homologous IL_8C3A_448 NA | |
| IL_8JDK_245 | 1/w/1214:1217, 1/w/1681:1685 | C-loop | homologous IL_8C3A_449 NA | |
| IL_8JDK_324 | 1/w/1230:1232, 1/w/1526:1528 | Isolated non-canonical cWW pair | homologous IL_8P9A_432 IL_01003.1 | |
| IL_8JDK_248 | 1/w/1235:1236, 1/w/1521:1523 | Minor groove platform | homologous IL_4V88_445 NA | |
| IL_8JDK_249 | 1/w/1270:1272, 1/w/1510:1512 | Isolated cWH basepair | geometric IL_3FOZ_001 NA | |
| IL_8JDK_250 | 1/w/1281:1287, 1/w/1314:1316 | No text annotation | ||
| IL_8JDK_325 | 1/w/1281:1290, 1/w/1309:1316 | No text annotation | homologous IL_8P9A_470 IL_28304.1 | |
| IL_8JDK_251 | 1/w/1287:1290, 1/w/1309:1314 | No text annotation | ||
| IL_8JDK_326 | 1/w/1325:1327, 1/w/1502:1503 | Single bulged U | homologous IL_8C3A_455 NA | |
| IL_8JDK_327 | 1/w/1329:1333, 1/w/1498:1500 | No text annotation | geometric IL_8C3A_456 NA | |
| IL_8JDK_328 | 1/w/1329:1335, 1/w/1492:1500 | No text annotation | homologous IL_8P9A_439 IL_99893.1 | |
| IL_8JDK_254 | 1/w/1333:1335, 1/w/1492:1498 | Minor groove platform with extra cWW | homologous IL_4V88_451 NA | |
| IL_8JDK_329 | 1/w/1337:1338, 1/w/1488:1490 | Single bulged A | homologous IL_8C3A_458 NA | |
| IL_8JDK_330 | 1/w/1347:1349, 1/w/1380:1382 | Isolated cWH basepair | homologous IL_8P9A_442 IL_10892.1 | |
| IL_8JDK_257 | 1/w/1363:1365, 1/w/1374:1375 | Minor groove platform | homologous IL_8C3A_460 NA | |
| IL_8JDK_258 | 1/w/1395:1399, 1/w/1447:1450 | Tandem non-canonical cWW pairs | geometric IL_3CUL_002 NA | |
| IL_8JDK_260 | 1/w/1402:1405, 1/w/1441:1444 | Minor groove platform | homologous IL_4V88_456 NA | |
| IL_8JDK_331 | 1/w/1408:1409, 1/w/1432:1438 | Multiple bulged bases | geometric IL_1R3E_002 IL_44609.1 | |
| IL_8JDK_262 | 1/w/1412:1413, 1/w/1427:1429 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_8JDK_263 | 1/w/1537:1539, 1/w/1594:1596 | Isolated non-canonical cWW pair | geometric IL_4P3T_001 NA | |
| IL_8JDK_332 | 1/w/1541:1550, 1/w/1582:1592 | No text annotation | ||
| IL_8JDK_264 | 1/w/1550:1558, 1/w/1577:1582 | No text annotation | homologous IL_8CRE_463 IL_22564.1 | |
| IL_8JDK_265 | 1/w/1560:1562, 1/w/1573:1575 | Isolated non-canonical cWW pair | homologous IL_8C3A_468 NA | |
| IL_8JDK_266 | 1/w/1604:1610, 1/w/1629:1635 | No text annotation | homologous IL_8C3A_469 NA | |
| IL_8JDK_267 | 1/w/1700:1702, 1/w/1833:1836 | No text annotation | homologous IL_4V88_463 NA | |
| IL_8JDK_268 | 1/w/1702:1705, 1/w/1829:1833 | No text annotation | homologous IL_8P9A_453 IL_25873.1 | |
| IL_8JDK_269 | 1/w/1706:1708, 1/w/1826:1828 | Isolated non-canonical cWW pair | geometric IL_5MWI_007 NA | |
| IL_8JDK_270 | 1/w/1708:1711, 1/w/1822:1826 | No text annotation | homologous IL_8CRE_469 IL_28833.1 | |
| IL_8JDK_271 | 1/w/1714:1716, 1/w/1817:1819 | Isolated non-canonical cWW pair | homologous IL_8C3A_474 NA | |
| IL_8JDK_272 | 1/w/1717:1720, 1/w/1813:1816 | Double sheared | geometric IL_4V88_468 NA | |
| IL_8JDK_273 | 1/w/1720:1722, 1/w/1812:1813 | Single bulged U | homologous IL_4V88_469 NA | |
| IL_8JDK_274 | 1/w/1729:1731, 1/w/1803:1805 | Isolated non-canonical cWW pair | homologous IL_8C3A_477 NA | |
| IL_8JDK_275 | 1/w/1733:1736, 1/w/1798:1801 | Double sheared | homologous IL_8C3A_478 NA | |
| IL_8JDK_276 | 1/w/1739:1741, 1/w/1793:1795 | Isolated non-canonical cWW pair | geometric IL_3SZX_002 IL_01003.1 | |
| IL_8JDK_277 | 1/w/1742:1746, 1/w/1788:1792 | Triple sheared | homologous IL_8C3A_480 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_8JDK_001 | No text annotation | ||
| IL_8JDK_002 | No text annotation | ||
| IL_8JDK_012 | Single stack bend | ||
| IL_8JDK_013 | Single stack bend | ||
| IL_8JDK_014 | No text annotation | ||
| IL_8JDK_020 | Isolated non-canonical cWW pair | ||
| IL_8JDK_023 | Isolated non-canonical cWW pair | ||
| IL_8JDK_024 | Single bulged C | ||
| IL_8JDK_030 | Tandem non-canonical cWW pairs | ||
| IL_8JDK_032 | No text annotation | ||
| IL_8JDK_034 | No text annotation | ||
| IL_8JDK_043 | No text annotation | ||
| IL_8JDK_048 | No text annotation | ||
| IL_8JDK_057 | No text annotation | ||
| IL_8JDK_066 | No text annotation | ||
| IL_8JDK_068 | No text annotation | ||
| IL_8JDK_069 | No text annotation | ||
| IL_8JDK_070 | No text annotation | ||
| IL_8JDK_073 | Tandem non-canonical cWW pairs | ||
| IL_8JDK_075 | Tandem non-canonical cWW pairs | ||
| IL_8JDK_292 | No text annotation | ||
| IL_8JDK_076 | Tandem non-canonical cWW pairs | ||
| IL_8JDK_090 | Tandem non-canonical cWW pairs | ||
| IL_8JDK_092 | No text annotation | ||
| IL_8JDK_104 | No text annotation | ||
| IL_8JDK_106 | Major groove platform with extra pair | ||
| IL_8JDK_111 | Isolated non-canonical cWW pair | ||
| IL_8JDK_112 | No text annotation | ||
| IL_8JDK_115 | Stack and bulge | ||
| IL_8JDK_118 | No text annotation | ||
| IL_8JDK_120 | No text annotation | ||
| IL_8JDK_121 | Not an internal loop | ||
| IL_8JDK_122 | Isolated cWH basepair | ||
| IL_8JDK_124 | No text annotation | ||
| IL_8JDK_126 | Isolated non-canonical cWW pair | ||
| IL_8JDK_130 | Isolated non-canonical cWW pair | ||
| IL_8JDK_132 | Isolated non-canonical cWW pair | ||
| IL_8JDK_137 | Decoding loop related | ||
| IL_8JDK_138 | No text annotation | ||
| IL_8JDK_140 | No text annotation | ||
| IL_8JDK_142 | Not an internal loop | ||
| IL_8JDK_145 | No text annotation | ||
| IL_8JDK_149 | Not an internal loop | ||
| IL_8JDK_150 | Isolated non-canonical cWW pair | ||
| IL_8JDK_152 | No text annotation | ||
| IL_8JDK_154 | Isolated non-canonical cWW pair | ||
| IL_8JDK_155 | Stack and bulge | ||
| IL_8JDK_159 | Isolated non-canonical cWW pair | ||
| IL_8JDK_161 | No text annotation | ||
| IL_8JDK_172 | Single bulged C | ||
| IL_8JDK_177 | Stack and bulge | ||
| IL_8JDK_188 | Partly complementary | ||
| IL_8JDK_189 | No text annotation | ||
| IL_8JDK_197 | No text annotation | ||
| IL_8JDK_199 | No text annotation | ||
| IL_8JDK_200 | No text annotation | ||
| IL_8JDK_313 | No text annotation | ||
| IL_8JDK_201 | Tandem non-canonical cWW pairs | ||
| IL_8JDK_314 | Tandem non-canonical cWW pairs | ||
| IL_8JDK_202 | Isolated near basepair | ||
| IL_8JDK_203 | Double sheared with near cWW | ||
| IL_8JDK_204 | No text annotation | ||
| IL_8JDK_205 | No text annotation | ||
| IL_8JDK_207 | No text annotation | ||
| IL_8JDK_315 | No text annotation | ||
| IL_8JDK_212 | No text annotation | ||
| IL_8JDK_214 | No text annotation | ||
| IL_8JDK_215 | No text annotation | ||
| IL_8JDK_319 | No text annotation | ||
| IL_8JDK_216 | Tandem non-canonical cWW pairs | ||
| IL_8JDK_217 | No text annotation | ||
| IL_8JDK_218 | Not an internal loop | ||
| IL_8JDK_224 | Stack and bulge | ||
| IL_8JDK_225 | No text annotation | ||
| IL_8JDK_227 | Isolated non-canonical cWW pair | ||
| IL_8JDK_228 | No text annotation | ||
| IL_8JDK_237 | No text annotation | ||
| IL_8JDK_242 | Stack and bulge | ||
| IL_8JDK_244 | Intercalated cWW | ||
| IL_8JDK_246 | Isolated cWS basepair | ||
| IL_8JDK_247 | Tandem non-canonical cWW pairs | ||
| IL_8JDK_252 | Tandem non-canonical cWW pairs | ||
| IL_8JDK_253 | No text annotation | ||
| IL_8JDK_255 | Isolated non-canonical cWW pair | ||
| IL_8JDK_256 | No text annotation | ||
| IL_8JDK_259 | Isolated non-canonical cWW pair | ||
| IL_8JDK_261 | Isolated non-canonical cWW pair | ||
| IL_8JDK_278 | Multiple bulged bases | ||
| IL_8JDK_333 | No text annotation | ||
| IL_8JDK_279 | No text annotation | ||
| IL_8JDK_280 | Isolated non-canonical cWW pair |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_8JDK_001 | 1/D/112:116, 1/D/155:160, 1/D/275:278 | No text annotation | ||
| J3_8JDK_022 | 1/D/196:199, 1/D/215:228, 1/D/240:244 | No text annotation | ||
| J3_8JDK_023 | 1/D/351:367, 1/D/374:379, 1/F/21:24 | No text annotation | homologous J3_8P9A_045 J3_07616.1 | |
| J3_8JDK_024 | 1/D/380:387, 1/D/414:415, 1/F/19:20 | No text annotation | geometric J3_5TBW_002 NA | |
| J3_8JDK_025 | 1/D/380:390, 1/D/401:415, 1/F/19:20 | No text annotation | homologous J3_8P9A_047 J3_17917.1 | |
| J3_8JDK_026 | 1/D/451:455, 1/D/701:705, 1/D/1292:1296 | No text annotation | ||
| J3_8JDK_027 | 1/D/712:713, 1/D/955:976, 1/D/1278:1284 | No text annotation | ||
| J3_8JDK_002 | 1/D/1531:1537, 1/D/1622:1624, 1/D/1640:1643 | No text annotation | homologous J3_8C3A_003 NA | |
| J3_8JDK_003 | 1/D/1546:1548, 1/D/1580:1584, 1/D/1609:1612 | No text annotation | homologous J3_8C3A_004 NA | |
| J3_8JDK_028 | 1/D/1726:1727, 1/D/1802:1806, 1/D/1832:1837 | No text annotation | homologous J3_8P9A_051 J3_84137.1 | |
| J3_8JDK_004 | 1/D/2393:2399, 1/D/2805:2807, 1/D/2819:2822 | No text annotation | homologous J3_8C3A_006 NA | |
| J3_8JDK_005 | 1/D/2402:2405, 1/D/2785:2791, 1/D/2800:2802 | No text annotation | homologous J3_5TBW_009 NA | |
| J3_8JDK_029 | 1/D/2440:2445, 1/D/2515:2519, 1/D/2536:2537 | No text annotation | homologous J3_8P9A_055 J3_94309.1 | |
| J3_8JDK_030 | 1/D/2451:2456, 1/D/2465:2476, 1/D/2501:2508 | No text annotation | homologous J3_8CRE_016 NA | |
| J3_8JDK_006 | 1/D/2551:2555, 1/D/2572:2575, 1/D/2757:2767 | No text annotation | ||
| J3_8JDK_031 | 1/D/2575:2576, 1/D/2585:2589, 1/D/2756:2757 | No text annotation | homologous J3_8C3A_054 NA | |
| J3_8JDK_032 | 1/D/2598:2602, 1/D/2737:2738, 1/D/2742:2747 | No text annotation | homologous J3_8P9A_058 J3_08594.1 | |
| J3_8JDK_007 | 1/D/3937:3939, 1/D/4074:4078, 1/D/4168:4173 | No text annotation | geometric J3_8VTW_006 NA | |
| J3_8JDK_008 | 1/D/4091:4094, 1/D/4114:4129, 1/D/4155:4158 | No text annotation | homologous J3_8C3A_009 NA | |
| J3_8JDK_033 | 1/D/4228:4230, 1/D/4331:4342, 1/D/4370:4375 | No text annotation | homologous J3_8C3A_056 NA | |
| J3_8JDK_009 | 1/D/4241:4243, 1/D/4267:4269, 1/D/4278:4283 | No text annotation | homologous J3_5TBW_013 NA | |
| J3_8JDK_010 | 1/D/4463:4466, 1/D/4491:4493, 1/D/4507:4513 | No text annotation | homologous J3_5TBW_014 NA | |
| J3_8JDK_034 | 1/D/4751:4754, 1/D/4879:4883, 1/D/4936:4948 | No text annotation | ||
| J3_8JDK_035 | 1/D/4970:4972, 1/D/4986:4991, 1/D/5060:5063 | No text annotation | ||
| J3_8JDK_036 | 1/E/9:14, 1/E/65:66, 1/E/109:110 | No text annotation | homologous J3_8P9A_066 J3_26985.1 | |
| J3_8JDK_037 | 1/F/44:45, 1/F/58:64, 1/F/95:99 | No text annotation | homologous J3_8C3A_060 NA | |
| J3_8JDK_038 | 1/w/40:41, 1/w/481:487, 1/w/512:514 | No text annotation | geometric J3_4V88_078 NA | |
| J3_8JDK_039 | 1/w/40:47, 1/w/479:487, 1/w/512:514 | No text annotation | homologous J3_8C3A_083 NA | |
| J3_8JDK_040 | 1/w/682:685, 1/w/917:922, 1/w/1022:1023 | No text annotation | ||
| J3_8JDK_041 | 1/w/682:685, 1/w/917:923, 1/w/1019:1023 | No text annotation | ||
| J3_8JDK_042 | 1/w/805:819, 1/w/829:831, 1/w/843:858 | No text annotation | ||
| J3_8JDK_043 | 1/w/938:941, 1/w/985:993, 1/w/1000:1004 | No text annotation | homologous J3_8P9A_074 J3_23895.1 | |
| J3_8JDK_015 | 1/w/1094:1096, 1/w/1136:1140, 1/w/1147:1151 | No text annotation | ||
| J3_8JDK_016 | 1/w/1218:1221, 1/w/1645:1651, 1/w/1673:1680 | No text annotation | homologous J3_4V88_035 NA | |
| J3_8JDK_017 | 1/w/1225:1228, 1/w/1530:1532, 1/w/1638:1641 | No text annotation | homologous J3_8C3A_039 NA | |
| J3_8JDK_044 | 1/w/1237:1244, 1/w/1255:1266, 1/w/1516:1520 | No text annotation | homologous J3_8P9A_078 J3_88451.1 | |
| J3_8JDK_019 | 1/w/1272:1277, 1/w/1320:1324, 1/w/1504:1510 | No text annotation | homologous J3_8C3A_041 NA | |
| J3_8JDK_020 | 1/w/1340:1345, 1/w/1384:1389, 1/w/1481:1486 | No text annotation | homologous J3_8P9A_080 J3_17077.1 | |
| J3_8JDK_045 | 1/w/1350:1351, 1/w/1360:1363, 1/w/1375:1379 | No text annotation | homologous J3_8P9A_081 J3_76043.4 | |
| J3_8JDK_046 | 1/w/1391:1395, 1/w/1450:1456, 1/w/1470:1479 | No text annotation | ||
| J3_8JDK_021 | 1/w/1532:1536, 1/w/1597:1604, 1/w/1635:1638 | No text annotation | homologous J3_8C3A_044 NA | |
| J3_8JDK_047 | 1/w/1532:1536, 1/w/1597:1610, 1/w/1629:1638 | No text annotation | ||
| J4_8JDK_001 | 1/B/7:10, 1/B/25:27, 1/B/43:48, 1/B/64:65 | tRNA junction | homologous J4_1IL2_001 J4_58311.1 | |
| J4_8JDK_002 | 1/C/7:10, 1/C/25:27, 1/C/43:48, 1/C/64:65 | tRNA junction | homologous J4_1IL2_001 J4_58311.1 | |
| J4_8JDK_003 | 1/D/111:112, 1/D/278:283, 1/D/304:310, 1/D/327:330 | No text annotation | homologous J4_8P9A_012 J4_94698.1 | |
| J4_8JDK_004 | 1/D/196:199, 1/D/215:222, 1/D/226:228, 1/D/240:244 | No text annotation | ||
| J4_8JDK_005 | 1/D/981:983, 1/D/1070:1072, 1/D/1240:1243, 1/D/1268:1273 | No text annotation | ||
| J4_8JDK_006 | 1/D/2365:2371, 1/D/2389:2391, 1/D/2824:2829, 1/D/3856:3857 | No text annotation | ||
| J4_8JDK_007 | 1/D/2406:2410, 1/D/2434:2439, 1/D/2538:2539, 1/D/2777:2784 | No text annotation | ||
| J4_8JDK_008 | 1/D/2409:2410, 1/D/2434:2439, 1/D/2538:2539, 1/D/2777:2783 | No text annotation | ||
| J4_8JDK_009 | 1/D/2618:2619, 1/D/2637:2642, 1/D/2692:2698, 1/D/2718:2719 | No text annotation | ||
| J4_8JDK_010 | 1/D/3634:3638, 1/D/3650:3654, 1/D/3690:3694, 1/D/3821:3826 | No text annotation | homologous J4_8P9A_017 J4_78485.1 | |
| J4_8JDK_011 | 1/D/3696:3698, 1/D/3752:3753, 1/D/3771:3780, 1/D/3814:3819 | No text annotation | homologous J4_8C3A_007 NA | |
| J4_8JDK_012 | 1/D/4231:4235, 1/D/4289:4291, 1/D/4318:4319, 1/D/4328:4330 | No text annotation | ||
| J4_8JDK_013 | 1/D/4231:4235, 1/D/4289:4293, 1/D/4317:4319, 1/D/4328:4330 | No text annotation | homologous J4_8P9A_019 J4_59590.1 | |
| J4_8JDK_014 | 1/D/4587:4590, 1/D/4620:4621, 1/D/4676:4678, 1/D/4712:4715 | No text annotation | ||
| J4_8JDK_015 | 1/w/98:106, 1/w/355:357, 1/w/405:409, 1/w/431:432 | No text annotation | homologous J4_8P9A_021 J4_15241.2 | |
| J4_8JDK_016 | 1/w/671:673, 1/w/1032:1037, 1/w/1078:1089, 1/w/1160:1161 | No text annotation | homologous J4_8P9A_022 J4_14595.1 | |
| J5_8JDK_001 | 1/D/19:21, 1/F/35:42, 1/F/101:106, 1/F/113:114, 1/F/136:138 | No text annotation | homologous J5_8P9A_010 J5_27223.1 | |
| J5_8JDK_002 | 1/D/1335:1340, 1/D/1516:1519, 1/D/1658:1661, 1/D/2288:2290, 1/D/2345:2351 | No text annotation | homologous J5_8P9A_011 J5_08384.1 | |
| J5_8JDK_003 | 1/D/2855:2863, 1/D/2887:2888, 1/D/3613:3614, 1/D/3618:3626, 1/D/3835:3837 | No text annotation | homologous J5_8P9A_013 J5_99177.1 | |
| J5_8JDK_004 | 1/D/3903:3910, 1/D/4392:4400, 1/D/4444:4453, 1/D/4528:4534, 1/D/4552:4557 | No text annotation | ||
| J5_8JDK_005 | 1/D/3920:3923, 1/D/4188:4191, 1/D/4204:4205, 1/D/4227:4228, 1/D/4375:4381 | No text annotation | homologous J5_8P9A_015 J5_96125.1 | |
| J5_8JDK_006 | 1/w/30:34, 1/w/521:527, 1/w/558:563, 1/w/592:595, 1/w/641:644 | No text annotation | homologous J5_8C3A_018 NA | |
| J5_8JDK_007 | 1/w/53:56, 1/w/89:96, 1/w/434:436, 1/w/457:459, 1/w/470:474 | No text annotation | homologous J5_8C3A_020 NA | |
| J5_8JDK_008 | 1/w/123:129, 1/w/183:185, 1/w/214:216, 1/w/309:312, 1/w/337:341 | No text annotation | ||
| J6_8JDK_001 | 1/D/21:26, 1/D/57:67, 1/D/74:78, 1/D/105:109, 1/D/332:339, 1/F/33:35 | No text annotation | ||
| J6_8JDK_002 | 1/D/1352:1355, 1/D/1384:1388, 1/D/1395:1399, 1/D/1418:1421, 1/D/1464:1466, 1/D/1499:1504 | No text annotation | ||
| J6_8JDK_003 | 1/D/3920:3923, 1/D/4188:4191, 1/D/4204:4205, 1/D/4227:4230, 1/D/4331:4342, 1/D/4370:4381 | No text annotation | ||
| J7_8JDK_001 | 1/D/1666:1671, 1/D/1684:1685, 1/D/1852:1855, 1/D/1879:1884, 1/D/1895:1899, 1/D/2077:2078, 1/D/2278:2283 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_8JDK_011 | No text annotation | ||
| J3_8JDK_012 | No text annotation | ||
| J3_8JDK_013 | No text annotation | ||
| J3_8JDK_014 | No text annotation | ||
| J3_8JDK_018 | No text annotation |
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