6Y6X Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6Y6X_001 | 1/L5/37:44 | No text annotation | homologous HL_5TBW_001 NA | |
| HL_6Y6X_002 | 1/L5/68:73 | No text annotation | homologous HL_8C3A_002 NA | |
| HL_6Y6X_003 | 1/L5/89:95 | No text annotation | homologous HL_5TBW_003 NA | |
| HL_6Y6X_005 | 1/L5/204:211 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_005 NA | |
| HL_6Y6X_006 | 1/L5/222:226 | No text annotation | homologous HL_5TBW_006 NA | |
| HL_6Y6X_007 | 1/L5/230:238 | T-loop with unstacked turn | homologous HL_5TBW_007 NA | |
| HL_6Y6X_008 | 1/L5/289:298 | No text annotation | homologous HL_8C3A_008 NA | |
| HL_6Y6X_009 | 1/L5/314:323 | Pseudoknot geometry | homologous HL_8C3A_009 NA | |
| HL_6Y6X_010 | 1/L5/368:373 | GNRA | homologous HL_5TBW_010 NA | |
| HL_6Y6X_011 | 1/L5/393:398 | GNRA | homologous HL_8C3A_011 NA | |
| HL_6Y6X_082 | 1/L5/1170:1191 | No text annotation | ||
| HL_6Y6X_014 | 1/L5/1174:1186 | No text annotation | ||
| HL_6Y6X_016 | 1/L5/1317:1326 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_014 NA | |
| HL_6Y6X_017 | 1/L5/1364:1373 | No text annotation | ||
| HL_6Y6X_018 | 1/L5/1389:1394 | GNRA | homologous HL_8C3A_016 NA | |
| HL_6Y6X_020 | 1/L5/1436:1448 | Externally structured | geometric HL_8C3A_022 NA | |
| HL_6Y6X_021 | 1/L5/1480:1484 | No text annotation | ||
| HL_6Y6X_022 | 1/L5/1561:1566 | GNRA | homologous HL_8C3A_019 NA | |
| HL_6Y6X_023 | 1/L5/1593:1602 | No text annotation | homologous HL_5TBW_020 NA | |
| HL_6Y6X_024 | 1/L5/1627:1635 | No text annotation | homologous HL_5TBW_021 NA | |
| HL_6Y6X_025 | 1/L5/1675:1680 | Externally structured | homologous HL_8C3A_022 NA | |
| HL_6Y6X_026 | 1/L5/1759:1773 | No text annotation | ||
| HL_6Y6X_027 | 1/L5/1816:1823 | T-loop related | geometric HL_3R4F_001 NA | |
| HL_6Y6X_028 | 1/L5/1864:1870 | GNRA | homologous HL_5TBW_025 NA | |
| HL_6Y6X_029 | 1/L5/1886:1893 | No text annotation | homologous HL_5TBW_026 NA | |
| HL_6Y6X_032 | 1/L5/2317:2322 | GNRA | homologous HL_8C3A_030 NA | |
| HL_6Y6X_033 | 1/L5/2376:2384 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_031 NA | |
| HL_6Y6X_034 | 1/L5/2420:2426 | Pseudoknot geometry with 3' bulge | homologous HL_5TBW_032 NA | |
| HL_6Y6X_035 | 1/L5/2458:2463 | GNRA variation | homologous HL_5TBW_033 NA | |
| HL_6Y6X_037 | 1/L5/2523:2532 | No text annotation | homologous HL_5TBW_035 NA | |
| HL_6Y6X_039 | 1/L5/2578:2583 | GNRA | homologous HL_8C3A_036 NA | |
| HL_6Y6X_040 | 1/L5/2624:2632 | No text annotation | homologous HL_8C3A_037 NA | |
| HL_6Y6X_041 | 1/L5/2664:2670 | No text annotation | homologous HL_8C3A_038 NA | |
| HL_6Y6X_042 | 1/L5/2704:2712 | No text annotation | ||
| HL_6Y6X_043 | 1/L5/2738:2742 | No text annotation | homologous HL_8C3A_040 NA | |
| HL_6Y6X_044 | 1/L5/2792:2799 | No text annotation | homologous HL_8C3A_041 NA | |
| HL_6Y6X_045 | 1/L5/2810:2816 | GNRA | homologous HL_5TBW_042 NA | |
| HL_6Y6X_046 | 1/L5/2872:2877 | UNCG | geometric HL_4PMI_004 NA | |
| HL_6Y6X_048 | 1/L5/3614:3618 | No text annotation | homologous HL_8C3A_045 NA | |
| HL_6Y6X_049 | 1/L5/3639:3649 | No text annotation | homologous HL_5TBW_046 NA | |
| HL_6Y6X_050 | 1/L5/3668:3674 | No text annotation | geometric HL_5J7L_143 NA | |
| HL_6Y6X_051 | 1/L5/3724:3729 | GNRA | homologous HL_8C3A_048 NA | |
| HL_6Y6X_052 | 1/L5/3757:3767 | No text annotation | homologous HL_8C3A_049 NA | |
| HL_6Y6X_053 | 1/L5/3796:3804 | No text annotation | homologous HL_8C3A_050 NA | |
| HL_6Y6X_054 | 1/L5/3873:3882 | No text annotation | homologous HL_8C3A_051 NA | |
| HL_6Y6X_058 | 1/L5/4193:4201 | No text annotation | homologous HL_8C3A_055 NA | |
| HL_6Y6X_059 | 1/L5/4210:4222 | No text annotation | homologous HL_8C3A_056 NA | |
| HL_6Y6X_060 | 1/L5/4250:4258 | No text annotation | homologous HL_8C3A_057 NA | |
| HL_6Y6X_061 | 1/L5/4270:4277 | Pseudoknot geometry | homologous HL_8C3A_058 NA | |
| HL_6Y6X_062 | 1/L5/4301:4309 | No text annotation | homologous HL_8C3A_059 NA | |
| HL_6Y6X_063 | 1/L5/4321:4326 | GNRA | homologous HL_8C3A_060 NA | |
| HL_6Y6X_064 | 1/L5/4352:4362 | No text annotation | geometric HL_4V83_139 NA | |
| HL_6Y6X_065 | 1/L5/4417:4425 | No text annotation | homologous HL_8C3A_062 NA | |
| HL_6Y6X_066 | 1/L5/4474:4481 | No text annotation | homologous HL_5TBW_062 NA | |
| HL_6Y6X_067 | 1/L5/4497:4503 | No text annotation | homologous HL_5TBW_063 NA | |
| HL_6Y6X_068 | 1/L5/4540:4545 | GNRA | homologous HL_8C3A_065 NA | |
| HL_6Y6X_069 | 1/L5/4603:4608 | GNRA | homologous HL_8C3A_066 NA | |
| HL_6Y6X_070 | 1/L5/4646:4651 | Ribsomal LSU H95 | homologous HL_8C3A_067 NA | |
| HL_6Y6X_071 | 1/L5/4688:4702 | No text annotation | homologous HL_8C3A_068 NA | |
| HL_6Y6X_073 | 1/L5/4907:4914 | No text annotation | geometric HL_2Y9H_003 HL_75660.6 | |
| HL_6Y6X_074 | 1/L5/4975:4983 | No text annotation | geometric HL_5J7L_201 NA | |
| HL_6Y6X_075 | 1/L5/5021:5028 | No text annotation | geometric HL_2Y8W_001 NA | |
| HL_6Y6X_086 | 1/L7/32:45 | No text annotation | homologous HL_8C3A_228 NA | |
| HL_6Y6X_076 | 1/L7/36:41 | No text annotation | homologous HL_5TBW_185 NA | |
| HL_6Y6X_077 | 1/L7/86:91 | GNRA | homologous HL_5TBW_186 NA | |
| HL_6Y6X_078 | 1/L8/47:56 | Pseudoknot with intercalation | geometric HL_4V9F_001 HL_17803.1 | |
| HL_6Y6X_079 | 1/L8/68:90 | No text annotation | homologous HL_8C3A_075 NA | |
| HL_6Y6X_080 | 1/L8/107:112 | No text annotation | homologous HL_5TBW_075 NA | |
| HL_6Y6X_087 | 1/L8/122:128 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6Y6X_004 | No text annotation | ||
| HL_6Y6X_012 | No text annotation | ||
| HL_6Y6X_013 | No text annotation | ||
| HL_6Y6X_015 | No text annotation | ||
| HL_6Y6X_019 | No text annotation | ||
| HL_6Y6X_030 | No text annotation | ||
| HL_6Y6X_031 | No text annotation | ||
| HL_6Y6X_036 | No text annotation | ||
| HL_6Y6X_038 | GNRA | ||
| HL_6Y6X_083 | No text annotation | ||
| HL_6Y6X_047 | No text annotation | ||
| HL_6Y6X_055 | No text annotation | ||
| HL_6Y6X_084 | No text annotation | ||
| HL_6Y6X_085 | No text annotation | ||
| HL_6Y6X_056 | No text annotation | ||
| HL_6Y6X_057 | No text annotation | ||
| HL_6Y6X_072 | No text annotation | ||
| HL_6Y6X_081 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6Y6X_001 | 1/L5/6:7, 1/L8/149:151 | Single bulged C | homologous IL_8C3A_002 NA | |
| IL_6Y6X_002 | 1/L5/12:14, 1/L8/143:144 | Single bulged U | homologous IL_8C3A_003 NA | |
| IL_6Y6X_003 | 1/L5/16:18, 1/L8/139:141 | Isolated non-canonical cWW pair | geometric IL_1Y27_001 NA | |
| IL_6Y6X_004 | 1/L5/26:27, 1/L5/55:57 | No text annotation | homologous IL_8C3A_004 NA | |
| IL_6Y6X_005 | 1/L5/30:37, 1/L5/44:52 | 9x8 Sarcin-Ricin; G-bulge | geometric IL_4WF9_008 IL_93502.1 | |
| IL_6Y6X_006 | 1/L5/81:88, 1/L5/96:102 | No text annotation | homologous IL_8C3A_006 NA | |
| IL_6Y6X_007 | 1/L5/118:122, 1/L5/147:153 | No text annotation | ||
| IL_6Y6X_008 | 1/L5/125:126, 1/L5/142:144 | Single bulged C | geometric IL_1DQF_001 NA | |
| IL_6Y6X_009 | 1/L5/169:173, 1/L5/263:266 | No text annotation | ||
| IL_6Y6X_012 | 1/L5/180:189, 1/L5/252:256 | No text annotation | ||
| IL_6Y6X_013 | 1/L5/195:196, 1/L5/244:246 | Single bulged C | geometric IL_1DQF_001 NA | |
| IL_6Y6X_014 | 1/L5/199:201, 1/L5/214:215 | Single bulged U | homologous IL_8C3A_013 NA | |
| IL_6Y6X_015 | 1/L5/339:342, 1/L8/32:33 | Minor groove platform | geometric IL_7RQB_073 NA | |
| IL_6Y6X_016 | 1/L5/348:350, 1/L8/25:26 | Single bulged A | homologous IL_8C3A_014 NA | |
| IL_6Y6X_017 | 1/L5/387:390, 1/L5/401:414 | No text annotation | homologous IL_5TBW_014 NA | |
| IL_6Y6X_018 | 1/L5/415:421, 1/L8/13:19 | Triple sheared with non-canonical cWW | homologous IL_5TBW_015 NA | |
| IL_6Y6X_019 | 1/L5/443:446, 1/L5/1300:1304 | No text annotation | geometric IL_4PHY_003 NA | |
| IL_6Y6X_020 | 1/L5/448:450, 1/L5/1297:1298 | Single bulged C | geometric IL_4C7O_003 NA | |
| IL_6Y6X_022 | 1/L5/462:464, 1/L5/691:693 | Isolated non-canonical cWW pair | geometric IL_3D0U_006 IL_01003.1 | |
| IL_6Y6X_023 | 1/L5/466:472, 1/L5/682:689 | No text annotation | ||
| IL_6Y6X_024 | 1/L5/482:485, 1/L5/671:672 | Multiple bulged bases | geometric IL_4LFB_007 IL_75289.1 | |
| IL_6Y6X_025 | 1/L5/487:488, 1/L5/665:669 | Minor groove platform | geometric IL_5J7L_247 NA | |
| IL_6Y6X_029 | 1/L5/500:505, 1/L5/653:654 | Multiple bulged bases | geometric IL_4LFB_007 IL_75289.1 | |
| IL_6Y6X_030 | 1/L5/508:510, 1/L5/649:650 | Single bulged A | geometric IL_2VPL_002 IL_14190.1 | |
| IL_6Y6X_032 | 1/L5/709:710, 1/L5/1286:1288 | Single bulged G | geometric IL_4LFB_036 IL_28408.1 | |
| IL_6Y6X_033 | 1/L5/723:724, 1/L5/942:945 | Multiple bulged bases | geometric IL_7V9E_001 NA | |
| IL_6Y6X_034 | 1/L5/727:731, 1/L5/938:939 | No text annotation | ||
| IL_6Y6X_035 | 1/L5/732:735, 1/L5/928:937 | No text annotation | ||
| IL_6Y6X_036 | 1/L5/737:739, 1/L5/925:926 | No text annotation | ||
| IL_6Y6X_037 | 1/L5/739:742, 1/L5/922:925 | No text annotation | ||
| IL_6Y6X_038 | 1/L5/745:752, 1/L5/911:919 | No text annotation | geometric IL_5TBW_020 NA | |
| IL_6Y6X_040 | 1/L5/1073:1074, 1/L5/1237:1239 | Single bulged A | geometric IL_4R4V_003 IL_14190.1 | |
| IL_6Y6X_041 | 1/L5/1077:1079, 1/L5/1220:1234 | No text annotation | ||
| IL_6Y6X_042 | 1/L5/1082:1084, 1/L5/1213:1217 | Isolated non-canonical cWW pair | geometric IL_5ZTM_001 NA | |
| IL_6Y6X_043 | 1/L5/1086:1087, 1/L5/1209:1211 | Single bulged C | geometric IL_3W3S_001 NA | |
| IL_6Y6X_046 | 1/L5/1099:1100, 1/L5/1194:1196 | Single stack bend | geometric IL_4WF9_007 IL_15011.1 | |
| IL_6Y6X_047 | 1/L5/1100:1168, 1/L5/1193:1194 | Multiple bulged bases | geometric IL_4LFB_007 IL_75289.1 | |
| IL_6Y6X_048 | 1/L5/1170:1174, 1/L5/1186:1191 | No text annotation | ||
| IL_6Y6X_049 | 1/L5/1244:1245, 1/L5/1265:1267 | Single bulged G | geometric IL_4V88_442 NA | |
| IL_6Y6X_050 | 1/L5/1357:1360, 1/L5/1379:1382 | No text annotation | ||
| IL_6Y6X_185 | 1/L5/1357:1361, 1/L5/1376:1382 | No text annotation | ||
| IL_6Y6X_051 | 1/L5/1360:1361, 1/L5/1376:1379 | Major groove intercalation | geometric IL_1NBS_009 IL_71421.1 | |
| IL_6Y6X_052 | 1/L5/1425:1429, 1/L5/1455:1460 | Triple sheared related | geometric IL_4V9F_018 IL_67427.1 | |
| IL_6Y6X_053 | 1/L5/1431:1434, 1/L5/1450:1453 | Double sheared | geometric IL_4WF9_087 IL_58355.1 | |
| IL_6Y6X_054 | 1/L5/1467:1468, 1/L5/1496:1498 | Single bulged A | homologous IL_8C3A_026 NA | |
| IL_6Y6X_055 | 1/L5/1474:1476, 1/L5/1489:1490 | Single stack bend | geometric IL_7A0S_005 IL_15011.1 | |
| IL_6Y6X_056 | 1/L5/1479:1480, 1/L5/1484:1486 | Single bulged C | geometric IL_5J7L_311 NA | |
| IL_6Y6X_057 | 1/L5/1520:1522, 1/L5/1655:1657 | No text annotation | geometric IL_7RQB_017 NA | |
| IL_6Y6X_058 | 1/L5/1522:1526, 1/L5/1648:1655 | No text annotation | homologous IL_8C3A_030 NA | |
| IL_6Y6X_059 | 1/L5/1545:1546, 1/L5/1612:1614 | Single bulged A | homologous IL_8C3A_031 NA | |
| IL_6Y6X_060 | 1/L5/1550:1551, 1/L5/1576:1578 | Single bulged G | homologous IL_8C3A_032 NA | |
| IL_6Y6X_061 | 1/L5/1551:1555, 1/L5/1572:1576 | Triple sheared | geometric IL_4V9F_027 IL_15190.1 | |
| IL_6Y6X_062 | 1/L5/1586:1589, 1/L5/1605:1607 | Major groove platform with extra cWW | homologous IL_8C3A_034 NA | |
| IL_6Y6X_063 | 1/L5/1590:1592, 1/L5/1603:1604 | Single bulged U | homologous IL_8C3A_035 NA | |
| IL_6Y6X_064 | 1/L5/1624:1626, 1/L5/1636:1640 | No text annotation | homologous IL_8C3A_036 NA | |
| IL_6Y6X_065 | 1/L5/1671:1673, 1/L5/1682:1684 | Isolated non-canonical cWW pair | homologous IL_8C3A_037 NA | |
| IL_6Y6X_066 | 1/L5/1686:1688, 1/L5/1848:1851 | No text annotation | ||
| IL_6Y6X_067 | 1/L5/1694:1721, 1/L5/1841:1842 | No text annotation | ||
| IL_6Y6X_068 | 1/L5/1723:1725, 1/L5/1838:1839 | Single bulged G | homologous IL_8C3A_040 NA | |
| IL_6Y6X_069 | 1/L5/1732:1737, 1/L5/1792:1797 | 5x5 Sarcin-Ricin with intercalated A; G-bulge | geometric IL_7A0S_027 NA | |
| IL_6Y6X_070 | 1/L5/1737:1738, 1/L5/1790:1792 | Minor groove platform | homologous IL_8C3A_042 NA | |
| IL_6Y6X_071 | 1/L5/1739:1744, 1/L5/1786:1789 | C-loop with bulged stacked A's | homologous IL_8C3A_043 NA | |
| IL_6Y6X_072 | 1/L5/1746:1749, 1/L5/1781:1784 | Tandem non-canonical cWW pairs | geometric IL_5TBW_041 NA | |
| IL_6Y6X_073 | 1/L5/1749:1751, 1/L5/1779:1781 | Isolated non-canonical cWW pair | homologous IL_8C3A_045 NA | |
| IL_6Y6X_074 | 1/L5/1753:1756, 1/L5/1775:1777 | No text annotation | geometric IL_4V84_070 NA | |
| IL_6Y6X_075 | 1/L5/1756:1759, 1/L5/1773:1775 | Isolated cWH basepair | geometric IL_1L9A_007 NA | |
| IL_6Y6X_076 | 1/L5/1814:1816, 1/L5/1823:1824 | Single bulged A | homologous IL_5TBW_045 NA | |
| IL_6Y6X_077 | 1/L5/1858:1860, 1/L5/1874:1876 | Isolated non-canonical cWW pair | homologous IL_5TBW_046 NA | |
| IL_6Y6X_079 | 1/L5/1905:1909, 1/L5/2067:2071 | UAA/GAN | homologous IL_8C3A_051 NA | |
| IL_6Y6X_080 | 1/L5/1911:1918, 1/L5/2064:2065 | SSU/LSU pseudoknot | homologous IL_8C3A_052 NA | |
| IL_6Y6X_081 | 1/L5/1918:1920, 1/L5/2063:2064 | No text annotation | ||
| IL_6Y6X_082 | 1/L5/1920:1922, 1/L5/2062:2063 | No text annotation | ||
| IL_6Y6X_083 | 1/L5/1926:1933, 1/L5/2053:2058 | No text annotation | homologous IL_8C3A_054 NA | |
| IL_6Y6X_084 | 1/L5/1933:1944, 1/L5/2038:2053 | No text annotation | geometric IL_5TBW_052 NA | |
| IL_6Y6X_085 | 1/L5/1946:1948, 1/L5/2035:2036 | Single bulged U | homologous IL_5TBW_053 NA | |
| IL_6Y6X_086 | 1/L5/1957:1965, 1/L5/2022:2026 | Kink-turn | homologous IL_8C3A_057 NA | |
| IL_6Y6X_090 | 1/L5/2083:2085, 1/L5/2272:2273 | Single bulged C | geometric IL_4C7O_003 NA | |
| IL_6Y6X_186 | 1/L5/2087:2110, 1/L5/2252:2270 | No text annotation | ||
| IL_6Y6X_091 | 1/L5/2290:2292, 1/L5/2342:2345 | No text annotation | homologous IL_8C3A_061 NA | |
| IL_6Y6X_092 | 1/L5/2299:2301, 1/L5/2334:2335 | Single bulged A | homologous IL_8C3A_062 NA | |
| IL_6Y6X_093 | 1/L5/2302:2309, 1/L5/2329:2333 | Kink-turn | homologous IL_5TBW_059 NA | |
| IL_6Y6X_094 | 1/L5/2312:2314, 1/L5/2325:2326 | Single bulged A | homologous IL_5TBW_060 NA | |
| IL_6Y6X_095 | 1/L5/2358:2364, 1/L5/3858:3863 | No text annotation | homologous IL_8C3A_065 NA | |
| IL_6Y6X_096 | 1/L5/2415:2419, 1/L5/2427:2429 | C-loop | geometric IL_7A0S_047 IL_06671.1 | |
| IL_6Y6X_097 | 1/L5/2446:2450, 1/L5/2509:2514 | UAA/GAN | homologous IL_8C3A_067 NA | |
| IL_6Y6X_098 | 1/L5/2477:2479, 1/L5/2499:2500 | No text annotation | ||
| IL_6Y6X_100 | 1/L5/2542:2547, 1/L5/2772:2774 | Isolated non-canonical cWW pair | geometric IL_1U6B_001 IL_42997.4 | |
| IL_6Y6X_101 | 1/L5/2549:2550, 1/L5/2768:2770 | Single bulged U | geometric IL_2R8S_004 IL_97561.1 | |
| IL_6Y6X_102 | 1/L5/2589:2593, 1/L5/2752:2756 | Triple sheared | homologous IL_5TBW_067 NA | |
| IL_6Y6X_103 | 1/L5/2613:2614, 1/L5/2724:2726 | Single bulged C | homologous IL_5TBW_069 NA | |
| IL_6Y6X_104 | 1/L5/2614:2615, 1/L5/2722:2724 | Single stack bend | geometric IL_5TBW_070 NA | |
| IL_6Y6X_105 | 1/L5/2646:2648, 1/L5/2685:2688 | Isolated tHS basepair with bulges | geometric IL_4V9F_076 IL_87316.1 | |
| IL_6Y6X_106 | 1/L5/2651:2653, 1/L5/2681:2682 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_6Y6X_107 | 1/L5/2656:2662, 1/L5/2672:2678 | Kink-turn | homologous IL_5TBW_073 NA | |
| IL_6Y6X_108 | 1/L5/2832:2838, 1/L5/3850:3853 | No text annotation | homologous IL_8C3A_080 NA | |
| IL_6Y6X_109 | 1/L5/2844:2846, 1/L5/3842:3844 | No text annotation | homologous IL_8C3A_081 NA | |
| IL_6Y6X_110 | 1/L5/2847:2850, 1/L5/3840:3841 | Major groove platform; stack outside cWW | homologous IL_5TBW_076 NA | |
| IL_6Y6X_187 | 1/L5/2847:2855, 1/L5/3837:3841 | No text annotation | homologous IL_8C3A_484 NA | |
| IL_6Y6X_111 | 1/L5/2850:2855, 1/L5/3837:3840 | No text annotation | homologous IL_8C3A_083 NA | |
| IL_6Y6X_112 | 1/L5/2867:2872, 1/L5/2877:2883 | No text annotation | homologous IL_8C3A_084 NA | |
| IL_6Y6X_113 | 1/L5/2889:2891, 1/L5/3610:3612 | Isolated non-canonical cWW pair | homologous IL_8C3A_085 NA | |
| IL_6Y6X_114 | 1/L5/2896:2897, 1/L5/3602:3605 | No text annotation | homologous IL_8C3A_086 NA | |
| IL_6Y6X_115 | 1/L5/2901:2905, 1/L5/3589:3598 | No text annotation | ||
| IL_6Y6X_117 | 1/L5/3632:3633, 1/L5/3827:3829 | Single bulged A | homologous IL_5TBW_082 NA | |
| IL_6Y6X_118 | 1/L5/3660:3665, 1/L5/3677:3684 | Kink-turn related | homologous IL_5TBW_083 NA | |
| IL_6Y6X_119 | 1/L5/3700:3703, 1/L5/3749:3750 | No text annotation | homologous IL_8C3A_089 NA | |
| IL_6Y6X_120 | 1/L5/3704:3705, 1/L5/3745:3748 | Major groove intercalation | homologous IL_5TBW_085 NA | |
| IL_6Y6X_121 | 1/L5/3708:3710, 1/L5/3741:3742 | Single stack bend | homologous IL_8C3A_091 NA | |
| IL_6Y6X_122 | 1/L5/3710:3714, 1/L5/3739:3741 | Isolated non-canonical cWW pair | geometric IL_4V88_455 NA | |
| IL_6Y6X_123 | 1/L5/3715:3721, 1/L5/3732:3738 | No text annotation | homologous IL_8C3A_093 NA | |
| IL_6Y6X_124 | 1/L5/3780:3781, 1/L5/3811:3814 | Bulged stacked bases | geometric IL_5TBW_089 NA | |
| IL_6Y6X_125 | 1/L5/3781:3792, 1/L5/3808:3811 | No text annotation | homologous IL_8C3A_095 NA | |
| IL_6Y6X_126 | 1/L5/3895:3898, 1/L5/4563:4565 | Major groove platform with extra pair | homologous IL_5TBW_091 NA | |
| IL_6Y6X_127 | 1/L5/3900:3902, 1/L5/4558:4561 | No text annotation | homologous IL_8C3A_097 NA | |
| IL_6Y6X_128 | 1/L5/3913:3915, 1/L5/4388:4389 | Single bulged U | homologous IL_5TBW_093 NA | |
| IL_6Y6X_129 | 1/L5/3916:3917, 1/L5/4384:4387 | Minor groove platform | homologous IL_5TBW_094 NA | |
| IL_6Y6X_130 | 1/L5/3927:3929, 1/L5/4181:4184 | No text annotation | homologous IL_8C3A_100 NA | |
| IL_6Y6X_131 | 1/L5/4082:4088, 1/L5/4161:4164 | No text annotation | homologous IL_8C3A_106 NA | |
| IL_6Y6X_133 | 1/L5/4191:4192, 1/L5/4202:4204 | Single bulged A | homologous IL_8C3A_107 NA | |
| IL_6Y6X_134 | 1/L5/4243:4245, 1/L5/4263:4267 | Isolated tHS basepair with bulges | geometric IL_5TBW_099 NA | |
| IL_6Y6X_135 | 1/L5/4291:4293, 1/L5/4317:4318 | Single bulged A | geometric IL_5WWT_001 IL_14190.1 | |
| IL_6Y6X_136 | 1/L5/4295:4298, 1/L5/4312:4315 | Tandem non-canonical cWW pairs | homologous IL_5TBW_100 NA | |
| IL_6Y6X_137 | 1/L5/4347:4350, 1/L5/4364:4365 | Single stack bend | geometric IL_5J7L_032 NA | |
| IL_6Y6X_138 | 1/L5/4400:4401, 1/L5/4442:4444 | Major groove platform | homologous IL_5TBW_102 NA | |
| IL_6Y6X_139 | 1/L5/4401:4403, 1/L5/4440:4442 | Isolated non-canonical cWW pair | geometric IL_5TBW_103 NA | |
| IL_6Y6X_140 | 1/L5/4403:4405, 1/L5/4439:4440 | Major groove platform | geometric IL_5TBW_104 NA | |
| IL_6Y6X_141 | 1/L5/4405:4407, 1/L5/4435:4439 | Major groove minor groove platform with extra cWW | homologous IL_5TBW_105 NA | |
| IL_6Y6X_142 | 1/L5/4412:4416, 1/L5/4426:4430 | No text annotation | homologous IL_8C3A_114 NA | |
| IL_6Y6X_143 | 1/L5/4453:4454, 1/L5/4526:4528 | Major groove platform | homologous IL_8C3A_115 NA | |
| IL_6Y6X_144 | 1/L5/4456:4458, 1/L5/4520:4524 | Isolated non-canonical cWW with bulges | geometric IL_5TBW_108 NA | |
| IL_6Y6X_145 | 1/L5/4458:4459, 1/L5/4517:4520 | No text annotation | homologous IL_8C3A_117 NA | |
| IL_6Y6X_146 | 1/L5/4466:4468, 1/L5/4489:4491 | Isolated non-canonical cWW pair | geometric IL_5TBW_110 NA | |
| IL_6Y6X_188 | 1/L5/4466:4470, 1/L5/4485:4491 | No text annotation | ||
| IL_6Y6X_147 | 1/L5/4468:4470, 1/L5/4485:4489 | No text annotation | geometric IL_3DD2_004 NA | |
| IL_6Y6X_148 | 1/L5/4495:4497, 1/L5/4503:4505 | Isolated non-canonical cWW pair | geometric IL_5TBW_112 NA | |
| IL_6Y6X_149 | 1/L5/4537:4538, 1/L5/4547:4549 | Single bulged A | homologous IL_5TBW_113 NA | |
| IL_6Y6X_150 | 1/L5/4580:4582, 1/L5/4721:4723 | No text annotation | geometric IL_3ICQ_003 NA | |
| IL_6Y6X_151 | 1/L5/4582:4585, 1/L5/4717:4721 | Double sheared | geometric IL_5J7L_256 NA | |
| IL_6Y6X_152 | 1/L5/4590:4592, 1/L5/4618:4620 | Isolated non-canonical cWW pair | homologous IL_8C3A_124 NA | |
| IL_6Y6X_153 | 1/L5/4596:4603, 1/L5/4608:4614 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_5TBW_116 NA | |
| IL_6Y6X_154 | 1/L5/4624:4629, 1/L5/4669:4673 | No text annotation | ||
| IL_6Y6X_155 | 1/L5/4632:4637, 1/L5/4662:4666 | UAA/GAN related | homologous IL_5TBW_118 NA | |
| IL_6Y6X_156 | 1/L5/4638:4640, 1/L5/4659:4661 | Isolated cWH basepair | geometric IL_3R1C_012 IL_10892.1 | |
| IL_6Y6X_157 | 1/L5/4641:4642, 1/L5/4655:4658 | Multiple bulged bases | homologous IL_5TBW_119 NA | |
| IL_6Y6X_158 | 1/L5/4680:4685, 1/L5/4705:4710 | UAA/GAN with extra cWW | geometric IL_5J7L_350 NA | |
| IL_6Y6X_159 | 1/L5/4740:4742, 1/L5/4958:4959 | No text annotation | ||
| IL_6Y6X_160 | 1/L5/4743:4746, 1/L5/4954:4957 | Tandem non-canonical cWW pairs | geometric IL_4V88_438 NA | |
| IL_6Y6X_161 | 1/L5/4749:4751, 1/L5/4948:4951 | No text annotation | ||
| IL_6Y6X_162 | 1/L5/4756:4765, 1/L5/4869:4877 | No text annotation | ||
| IL_6Y6X_163 | 1/L5/4769:4771, 1/L5/4863:4865 | Isolated non-canonical cWW pair | geometric IL_3GM7_006 IL_01003.1 | |
| IL_6Y6X_164 | 1/L5/4885:4889, 1/L5/4930:4934 | Triple non-canonical cWW pairs | geometric IL_8S95_002 NA | |
| IL_6Y6X_165 | 1/L5/4890:4896, 1/L5/4924:4929 | No text annotation | ||
| IL_6Y6X_167 | 1/L5/4972:4975, 1/L5/4983:4986 | Tandem non-canonical cWW pairs | homologous IL_8C3A_135 NA | |
| IL_6Y6X_168 | 1/L5/4992:4994, 1/L5/5057:5059 | Isolated non-canonical cWW pair | geometric IL_3IVK_002 IL_01003.1 | |
| IL_6Y6X_169 | 1/L5/4996:4997, 1/L5/5053:5055 | Single bulged C | geometric IL_1KUQ_002 IL_05642.1 | |
| IL_6Y6X_170 | 1/L5/5000:5002, 1/L5/5045:5050 | Isolated non-canonical cWW pair | homologous IL_5TBW_132 NA | |
| IL_6Y6X_171 | 1/L5/5003:5009, 1/L5/5039:5044 | No text annotation | ||
| IL_6Y6X_172 | 1/L5/5012:5014, 1/L5/5035:5036 | Single bulged U | homologous IL_8C3A_140 NA | |
| IL_6Y6X_173 | 1/L5/5014:5017, 1/L5/5032:5035 | Double sheared | geometric IL_4V9F_100 IL_58355.1 | |
| IL_6Y6X_174 | 1/L7/15:16, 1/L7/62:64 | Single bulged A | homologous IL_5TBW_372 NA | |
| IL_6Y6X_175 | 1/L7/21:27, 1/L7/52:57 | Minor groove platform related | homologous IL_5TBW_373 NA | |
| IL_6Y6X_176 | 1/L7/28:29, 1/L7/48:51 | Major groove minor groove platform; mini C-loop | homologous IL_7RQB_113 NA | |
| IL_6Y6X_177 | 1/L7/32:36, 1/L7/41:45 | Symmetric double minor groove platform | geometric IL_7RQB_114 NA | |
| IL_6Y6X_178 | 1/L7/71:78, 1/L7/98:104 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_7A0S_007 IL_62167.1 | |
| IL_6Y6X_179 | 1/L7/79:81, 1/L7/95:97 | Isolated non-canonical cWW pair | geometric IL_4V88_470 NA | |
| IL_6Y6X_180 | 1/L7/82:85, 1/L7/92:94 | Isolated non-canonical cWW pair | homologous IL_5TBW_378 NA | |
| IL_6Y6X_181 | 1/L8/64:66, 1/L8/92:95 | Isolated non-canonical cWW pair | homologous IL_5TBW_145 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6Y6X_182 | No text annotation | ||
| IL_6Y6X_010 | Single stack bend | ||
| IL_6Y6X_011 | Single stack bend | ||
| IL_6Y6X_021 | Single bulged C | ||
| IL_6Y6X_026 | Tandem non-canonical cWW pairs | ||
| IL_6Y6X_027 | Single stack bend | ||
| IL_6Y6X_028 | No text annotation | ||
| IL_6Y6X_183 | Isolated non-canonical cWW pair | ||
| IL_6Y6X_031 | No text annotation | ||
| IL_6Y6X_039 | No text annotation | ||
| IL_6Y6X_184 | No text annotation | ||
| IL_6Y6X_044 | No text annotation | ||
| IL_6Y6X_045 | Isolated non-canonical cWW contact | ||
| IL_6Y6X_078 | No text annotation | ||
| IL_6Y6X_087 | Single stack bend | ||
| IL_6Y6X_088 | No text annotation | ||
| IL_6Y6X_089 | No text annotation | ||
| IL_6Y6X_099 | No text annotation | ||
| IL_6Y6X_116 | No text annotation | ||
| IL_6Y6X_132 | No text annotation | ||
| IL_6Y6X_166 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6Y6X_001 | 1/L5/112:116, 1/L5/155:160, 1/L5/275:278 | No text annotation | ||
| J3_6Y6X_017 | 1/L5/196:199, 1/L5/215:228, 1/L5/240:244 | No text annotation | ||
| J3_6Y6X_018 | 1/L5/351:367, 1/L5/374:379, 1/L8/21:24 | No text annotation | homologous J3_8P9A_045 J3_07616.1 | |
| J3_6Y6X_002 | 1/L5/380:387, 1/L5/414:415, 1/L8/19:20 | No text annotation | homologous J3_5TBW_002 NA | |
| J3_6Y6X_019 | 1/L5/380:390, 1/L5/401:415, 1/L8/19:20 | No text annotation | homologous J3_8C3A_049 NA | |
| J3_6Y6X_020 | 1/L5/451:455, 1/L5/701:705, 1/L5/1292:1296 | No text annotation | ||
| J3_6Y6X_003 | 1/L5/712:713, 1/L5/955:976, 1/L5/1278:1284 | No text annotation | ||
| J3_6Y6X_004 | 1/L5/1531:1537, 1/L5/1622:1624, 1/L5/1640:1643 | No text annotation | homologous J3_8C3A_003 NA | |
| J3_6Y6X_005 | 1/L5/1546:1548, 1/L5/1580:1584, 1/L5/1609:1612 | No text annotation | homologous J3_8C3A_004 NA | |
| J3_6Y6X_021 | 1/L5/1726:1727, 1/L5/1802:1806, 1/L5/1832:1837 | No text annotation | homologous J3_8P9A_051 J3_84137.1 | |
| J3_6Y6X_006 | 1/L5/2393:2399, 1/L5/2805:2807, 1/L5/2819:2822 | No text annotation | homologous J3_5TBW_008 NA | |
| J3_6Y6X_007 | 1/L5/2402:2405, 1/L5/2785:2791, 1/L5/2800:2802 | No text annotation | homologous J3_8C3A_007 NA | |
| J3_6Y6X_008 | 1/L5/2440:2445, 1/L5/2515:2519, 1/L5/2536:2537 | No text annotation | homologous J3_5TBW_010 NA | |
| J3_6Y6X_022 | 1/L5/2451:2456, 1/L5/2465:2476, 1/L5/2501:2508 | No text annotation | ||
| J3_6Y6X_009 | 1/L5/2551:2555, 1/L5/2572:2575, 1/L5/2757:2767 | No text annotation | ||
| J3_6Y6X_010 | 1/L5/2575:2576, 1/L5/2585:2589, 1/L5/2756:2757 | No text annotation | homologous J3_8C3A_054 NA | |
| J3_6Y6X_023 | 1/L5/2598:2602, 1/L5/2737:2738, 1/L5/2742:2747 | No text annotation | homologous J3_8C3A_055 NA | |
| J3_6Y6X_011 | 1/L5/3937:3939, 1/L5/4074:4078, 1/L5/4168:4173 | Kink-turn 3-way junction | geometric J3_5J7L_044 NA | |
| J3_6Y6X_024 | 1/L5/4091:4097, 1/L5/4112:4129, 1/L5/4155:4158 | No text annotation | ||
| J3_6Y6X_025 | 1/L5/4228:4230, 1/L5/4331:4342, 1/L5/4370:4375 | No text annotation | homologous J3_8C3A_056 NA | |
| J3_6Y6X_012 | 1/L5/4241:4243, 1/L5/4267:4269, 1/L5/4278:4283 | No text annotation | homologous J3_5TBW_013 NA | |
| J3_6Y6X_013 | 1/L5/4463:4466, 1/L5/4491:4493, 1/L5/4507:4513 | No text annotation | homologous J3_5TBW_014 NA | |
| J3_6Y6X_026 | 1/L5/4751:4754, 1/L5/4879:4883, 1/L5/4936:4948 | No text annotation | ||
| J3_6Y6X_014 | 1/L5/4970:4972, 1/L5/4986:4991, 1/L5/5060:5063 | No text annotation | ||
| J3_6Y6X_027 | 1/L7/9:14, 1/L7/65:66, 1/L7/109:110 | No text annotation | homologous J3_8P9A_066 J3_26985.1 | |
| J3_6Y6X_016 | 1/L8/44:45, 1/L8/58:64, 1/L8/95:99 | No text annotation | homologous J3_8C3A_060 NA | |
| J4_6Y6X_001 | 1/L5/111:112, 1/L5/278:283, 1/L5/304:310, 1/L5/327:330 | No text annotation | homologous J4_8P9A_012 J4_94698.1 | |
| J4_6Y6X_002 | 1/L5/196:199, 1/L5/215:222, 1/L5/226:228, 1/L5/240:244 | No text annotation | ||
| J4_6Y6X_003 | 1/L5/981:983, 1/L5/1070:1072, 1/L5/1240:1243, 1/L5/1268:1273 | No text annotation | ||
| J4_6Y6X_004 | 1/L5/2365:2371, 1/L5/2389:2391, 1/L5/2824:2829, 1/L5/3856:3857 | No text annotation | ||
| J4_6Y6X_005 | 1/L5/2406:2410, 1/L5/2434:2439, 1/L5/2538:2539, 1/L5/2777:2784 | No text annotation | homologous J4_8C3A_004 NA | |
| J4_6Y6X_006 | 1/L5/2618:2619, 1/L5/2637:2642, 1/L5/2692:2698, 1/L5/2718:2719 | No text annotation | ||
| J4_6Y6X_007 | 1/L5/3634:3638, 1/L5/3650:3654, 1/L5/3690:3694, 1/L5/3821:3826 | No text annotation | homologous J4_8C3A_006 NA | |
| J4_6Y6X_008 | 1/L5/3696:3698, 1/L5/3752:3753, 1/L5/3771:3780, 1/L5/3814:3819 | No text annotation | homologous J4_8C3A_007 NA | |
| J4_6Y6X_009 | 1/L5/4231:4235, 1/L5/4289:4291, 1/L5/4318:4319, 1/L5/4328:4330 | No text annotation | ||
| J4_6Y6X_010 | 1/L5/4231:4235, 1/L5/4289:4293, 1/L5/4317:4319, 1/L5/4328:4330 | No text annotation | homologous J4_8C3A_008 NA | |
| J4_6Y6X_011 | 1/L5/4587:4590, 1/L5/4620:4621, 1/L5/4676:4678, 1/L5/4712:4715 | No text annotation | ||
| J5_6Y6X_001 | 1/L5/19:21, 1/L8/35:42, 1/L8/101:106, 1/L8/113:114, 1/L8/136:138 | No text annotation | homologous J5_8P9A_010 J5_27223.1 | |
| J5_6Y6X_002 | 1/L5/1335:1340, 1/L5/1516:1519, 1/L5/1658:1661, 1/L5/2288:2290, 1/L5/2345:2351 | No text annotation | homologous J5_8P9A_011 J5_08384.1 | |
| J5_6Y6X_003 | 1/L5/2855:2863, 1/L5/2887:2888, 1/L5/3613:3614, 1/L5/3618:3626, 1/L5/3835:3837 | No text annotation | homologous J5_8C3A_004 NA | |
| J5_6Y6X_004 | 1/L5/3902:3910, 1/L5/4392:4400, 1/L5/4444:4453, 1/L5/4528:4534, 1/L5/4552:4558 | No text annotation | ||
| J5_6Y6X_005 | 1/L5/3920:3923, 1/L5/4188:4191, 1/L5/4204:4205, 1/L5/4227:4228, 1/L5/4375:4381 | No text annotation | homologous J5_8C3A_006 NA | |
| J6_6Y6X_001 | 1/L5/21:26, 1/L5/57:67, 1/L5/74:78, 1/L5/105:109, 1/L5/332:339, 1/L8/33:35 | No text annotation | ||
| J6_6Y6X_002 | 1/L5/1352:1355, 1/L5/1384:1388, 1/L5/1395:1399, 1/L5/1418:1421, 1/L5/1464:1466, 1/L5/1499:1504 | No text annotation | ||
| J6_6Y6X_003 | 1/L5/3920:3923, 1/L5/4188:4191, 1/L5/4204:4205, 1/L5/4227:4230, 1/L5/4331:4342, 1/L5/4370:4381 | No text annotation | ||
| J7_6Y6X_001 | 1/L5/1666:1671, 1/L5/1684:1685, 1/L5/1852:1855, 1/L5/1879:1884, 1/L5/1895:1899, 1/L5/2077:2078, 1/L5/2278:2283 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6Y6X_015 | No text annotation |
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