6CB1 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6CB1_002 | 1/1/69:74 | No text annotation | homologous HL_8C3A_002 NA | |
| HL_6CB1_003 | 1/1/90:96 | No text annotation | homologous HL_8C3A_003 NA | |
| HL_6CB1_004 | 1/1/132:136 | No text annotation | homologous HL_8C3A_004 NA | |
| HL_6CB1_005 | 1/1/194:201 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_005 NA | |
| HL_6CB1_006 | 1/1/208:212 | No text annotation | homologous HL_5TBW_006 NA | |
| HL_6CB1_007 | 1/1/216:224 | T-loop with unstacked turn | homologous HL_8C3A_007 NA | |
| HL_6CB1_009 | 1/1/304:311 | No text annotation | geometric HL_5TBW_012 NA | |
| HL_6CB1_010 | 1/1/357:362 | GNRA | homologous HL_8C3A_010 NA | |
| HL_6CB1_011 | 1/1/382:387 | GNRA | homologous HL_5TBW_011 NA | |
| HL_6CB1_012 | 1/1/462:468 | No text annotation | geometric HL_6VMY_004 HL_53890.2 | |
| HL_6CB1_013 | 1/1/543:548 | No text annotation | homologous HL_5TBW_012 NA | |
| HL_6CB1_014 | 1/1/599:604 | GNRA | homologous HL_5TBW_013 NA | |
| HL_6CB1_038 | 1/1/687:693 | No text annotation | geometric HL_5J7L_151 HL_80922.2 | |
| HL_6CB1_016 | 1/1/732:737 | GNRA | homologous HL_5TBW_017 NA | |
| HL_6CB1_017 | 1/1/763:768 | No text annotation | homologous HL_5TBW_018 NA | |
| HL_6CB1_020 | 1/1/1347:1357 | No text annotation | homologous HL_8C3A_029 NA | |
| HL_6CB1_021 | 1/1/1403:1408 | GNRA | homologous HL_5TBW_030 NA | |
| HL_6CB1_022 | 1/1/1544:1549 | GNRA variation | homologous HL_8C3A_033 NA | |
| HL_6CB1_023 | 1/1/1565:1574 | No text annotation | ||
| HL_6CB1_024 | 1/1/1599:1608 | No text annotation | homologous HL_5TBW_035 NA | |
| HL_6CB1_025 | 1/1/1634:1639 | GNRA | homologous HL_5TBW_036 NA | |
| HL_6CB1_026 | 1/1/1680:1688 | No text annotation | homologous HL_8C3A_037 NA | |
| HL_6CB1_027 | 1/1/1719:1725 | No text annotation | homologous HL_5TBW_038 NA | |
| HL_6CB1_028 | 1/1/1759:1766 | No text annotation | geometric HL_5NFV_001 HL_69752.2 | |
| HL_6CB1_029 | 1/1/1792:1796 | Mini UNCG | homologous HL_5TBW_040 NA | |
| HL_6CB1_031 | 1/1/3194:3197 | No text annotation | geometric HL_6U8D_003 HL_32346.4 | |
| HL_6CB1_040 | 1/2/47:56 | No text annotation | homologous HL_8P9A_186 HL_93438.2 | |
| HL_6CB1_032 | 1/2/69:89 | No text annotation | homologous HL_8C3A_230 NA | |
| HL_6CB1_033 | 1/2/108:114 | No text annotation | homologous HL_5TBW_075 NA | |
| HL_6CB1_034 | 1/2/124:129 | No text annotation | homologous HL_5TBW_076 NA | |
| HL_6CB1_035 | 1/6/11:17 | No text annotation | ||
| HL_6CB1_041 | 1/6/38:41 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6CB1_001 | No text annotation | ||
| HL_6CB1_008 | No text annotation | ||
| HL_6CB1_015 | No text annotation | ||
| HL_6CB1_018 | No text annotation | ||
| HL_6CB1_019 | No text annotation | ||
| HL_6CB1_039 | No text annotation | ||
| HL_6CB1_030 | No text annotation | ||
| HL_6CB1_036 | No text annotation | ||
| HL_6CB1_037 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6CB1_001 | 1/1/7:8, 1/2/150:152 | Single bulged C | homologous IL_8C3A_002 NA | |
| IL_6CB1_002 | 1/1/13:15, 1/2/144:145 | Single bulged U | homologous IL_8C3A_003 NA | |
| IL_6CB1_003 | 1/1/27:28, 1/1/56:58 | No text annotation | homologous IL_8C3A_004 NA | |
| IL_6CB1_004 | 1/1/82:89, 1/1/97:103 | No text annotation | homologous IL_8C3A_006 NA | |
| IL_6CB1_005 | 1/1/123:124, 1/1/144:149 | No text annotation | homologous IL_5TBW_007 NA | |
| IL_6CB1_006 | 1/1/125:127, 1/1/141:143 | Isolated non-canonical cWW pair | homologous IL_8C3A_008 NA | |
| IL_6CB1_007 | 1/1/164:166, 1/1/256:257 | Single stack bend | homologous IL_5TBW_009 NA | |
| IL_6CB1_055 | 1/1/169:170, 1/1/248:253 | No text annotation | ||
| IL_6CB1_009 | 1/1/177:178, 1/1/238:241 | No text annotation | geometric IL_5TBW_501 NA | |
| IL_6CB1_010 | 1/1/189:191, 1/1/204:205 | Single bulged U | homologous IL_8C3A_013 NA | |
| IL_6CB1_011 | 1/1/337:339, 1/2/25:26 | Single bulged A | homologous IL_5TBW_013 NA | |
| IL_6CB1_012 | 1/1/376:379, 1/1/390:403 | No text annotation | homologous IL_5TBW_014 NA | |
| IL_6CB1_013 | 1/1/404:410, 1/2/13:19 | Triple sheared with non-canonical cWW | homologous IL_5TBW_015 NA | |
| IL_6CB1_014 | 1/1/429:431, 1/1/628:630 | Isolated non-canonical cWW pair | homologous IL_5TBW_016 NA | |
| IL_6CB1_015 | 1/1/445:449, 1/1/485:489 | Triple non-canonical cWW pairs | geometric IL_5BTM_001 IL_49751.4 | |
| IL_6CB1_016 | 1/1/452:454, 1/1/476:482 | Major groove minor groove platform with tHH | geometric IL_4WF9_050 IL_83150.2 | |
| IL_6CB1_017 | 1/1/512:513, 1/1/577:579 | Single bulged A | homologous IL_5TBW_018 NA | |
| IL_6CB1_018 | 1/1/517:525, 1/1/567:573 | No text annotation | homologous IL_5TBW_019 NA | |
| IL_6CB1_019 | 1/1/531:538, 1/1/553:561 | No text annotation | homologous IL_5TBW_020 NA | |
| IL_6CB1_020 | 1/1/668:670, 1/1/792:794 | Isolated non-canonical cWW pair | homologous IL_8C3A_023 NA | |
| IL_6CB1_021 | 1/1/680:684, 1/1/696:700 | No text annotation | homologous IL_5TBW_022 NA | |
| IL_6CB1_022 | 1/1/725:728, 1/1/741:745 | No text annotation | homologous IL_8C3A_025 NA | |
| IL_6CB1_023 | 1/1/752:753, 1/1/779:781 | Single bulged A | homologous IL_5TBW_024 NA | |
| IL_6CB1_024 | 1/1/755:757, 1/1/774:777 | No text annotation | geometric IL_4N0T_004 IL_99358.1 | |
| IL_6CB1_025 | 1/1/758:763, 1/1/768:773 | No text annotation | homologous IL_5TBW_026 NA | |
| IL_6CB1_026 | 1/1/1167:1171, 1/1/1328:1332 | UAA/GAN | homologous IL_8C3A_051 NA | |
| IL_6CB1_027 | 1/1/1173:1180, 1/1/1325:1326 | SSU/LSU pseudoknot | geometric IL_5TBW_049 NA | |
| IL_6CB1_028 | 1/1/1180:1182, 1/1/1324:1325 | Single bulged U | homologous IL_5TBW_050 NA | |
| IL_6CB1_029 | 1/1/1187:1194, 1/1/1314:1319 | No text annotation | homologous IL_8C3A_054 NA | |
| IL_6CB1_030 | 1/1/1376:1378, 1/1/1428:1431 | No text annotation | homologous IL_8C3A_061 NA | |
| IL_6CB1_031 | 1/1/1385:1387, 1/1/1420:1421 | Single bulged A | homologous IL_8C3A_062 NA | |
| IL_6CB1_032 | 1/1/1388:1395, 1/1/1415:1419 | Kink-turn | homologous IL_5TBW_059 NA | |
| IL_6CB1_033 | 1/1/1398:1400, 1/1/1411:1412 | Single bulged A | homologous IL_5TBW_060 NA | |
| IL_6CB1_034 | 1/1/1444:1450, 1/1/2354:2359 | No text annotation | homologous IL_8C3A_065 NA | |
| IL_6CB1_035 | 1/1/1532:1536, 1/1/1585:1590 | UAA/GAN | homologous IL_5TBW_063 NA | |
| IL_6CB1_054 | 1/1/1618:1620, 1/1/1825:1826 | Single stack bend | geometric IL_5J7L_032 IL_26793.1 | |
| IL_6CB1_056 | 1/1/1623:1624, 1/1/1819:1822 | No text annotation | homologous IL_8CRE_070 IL_82107.4 | |
| IL_6CB1_038 | 1/1/1627:1631, 1/1/1811:1816 | No text annotation | homologous IL_8C3A_072 NA | |
| IL_6CB1_039 | 1/1/1645:1649, 1/1/1806:1810 | Triple sheared | homologous IL_8C3A_073 NA | |
| IL_6CB1_040 | 1/1/1661:1663, 1/1/1786:1788 | Isolated non-canonical cWW pair | homologous IL_5TBW_068 NA | |
| IL_6CB1_041 | 1/1/1669:1670, 1/1/1778:1780 | Single bulged C | geometric IL_5TBW_069 NA | |
| IL_6CB1_042 | 1/1/1670:1671, 1/1/1776:1778 | Single stack bend | homologous IL_5TBW_070 NA | |
| IL_6CB1_043 | 1/1/1694:1698, 1/1/1747:1752 | No text annotation | homologous IL_5TBW_071 NA | |
| IL_6CB1_044 | 1/1/1702:1707, 1/1/1737:1743 | No text annotation | homologous IL_5TBW_072 NA | |
| IL_6CB1_045 | 1/1/1711:1717, 1/1/1727:1733 | Kink-turn | homologous IL_5TBW_073 NA | |
| IL_6CB1_046 | 1/1/3177:3179, 1/1/3210:3211 | Single bulged A | homologous IL_5TBW_123 NA | |
| IL_6CB1_047 | 1/1/3179:3188, 1/1/3204:3210 | No text annotation | geometric IL_5TBW_124 NA | |
| IL_6CB1_048 | 1/1/3193:3194, 1/1/3197:3199 | Single bulged U | homologous IL_5TBW_125 NA | |
| IL_6CB1_049 | 1/2/44:64, 1/2/96:100 | No text annotation | geometric IL_5TBW_144 NA | |
| IL_6CB1_050 | 1/2/64:66, 1/2/93:96 | Isolated non-canonical cWW pair | geometric IL_5TBW_145 NA | |
| IL_6CB1_051 | 1/2/68:69, 1/2/89:91 | Single bulged U | geometric IL_5TBW_146 NA | |
| IL_6CB1_052 | 1/6/26:27, 1/6/51:54 | Multiple bulged bases | geometric IL_5WLH_001 IL_82107.4 | |
| IL_6CB1_053 | 1/6/30:34, 1/6/45:48 | No text annotation | geometric IL_8C3A_009 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6CB1_008 | No text annotation | ||
| IL_6CB1_036 | No text annotation | ||
| IL_6CB1_037 | Multiple bulged bases with near cWW |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6CB1_001 | 1/1/113:123, 1/1/149:158, 1/1/263:267 | No text annotation | homologous J3_8P9A_042 J3_19664.1 | |
| J3_6CB1_007 | 1/1/113:124, 1/1/144:158, 1/1/263:267 | No text annotation | ||
| J3_6CB1_008 | 1/1/185:189, 1/1/205:214, 1/1/226:231 | No text annotation | homologous J3_8P9A_044 J3_75408.1 | |
| J3_6CB1_009 | 1/1/340:356, 1/1/363:368, 1/2/21:24 | No text annotation | homologous J3_8C3A_047 NA | |
| J3_6CB1_002 | 1/1/369:376, 1/1/403:404, 1/2/19:20 | No text annotation | homologous J3_5TBW_002 NA | |
| J3_6CB1_010 | 1/1/369:379, 1/1/390:404, 1/2/19:20 | No text annotation | homologous J3_8P9A_047 J3_92134.2 | |
| J3_6CB1_011 | 1/1/436:442, 1/1/492:495, 1/1/618:623 | No text annotation | ||
| J3_6CB1_003 | 1/1/502:503, 1/1/588:597, 1/1/606:611 | No text annotation | homologous J3_5TBW_003 NA | |
| J3_6CB1_005 | 1/1/1526:1531, 1/1/1591:1595, 1/1/1612:1613 | No text annotation | homologous J3_5TBW_010 NA | |
| J3_6CB1_012 | 1/1/1537:1542, 1/1/1551:1560, 1/1/1579:1584 | No text annotation | ||
| J3_6CB1_006 | 1/1/1631:1632, 1/1/1641:1645, 1/1/1810:1811 | No text annotation | homologous J3_8C3A_054 NA | |
| J3_6CB1_013 | 1/1/1654:1658, 1/1/1791:1792, 1/1/1796:1801 | No text annotation | homologous J3_8P9A_058 J3_12393.2 | |
| J3_6CB1_014 | 1/2/44:45, 1/2/58:64, 1/2/96:100 | No text annotation | homologous J3_8P4V_024 NA | |
| J4_6CB1_001 | 1/1/112:113, 1/1/267:272, 1/1/293:299, 1/1/316:319 | No text annotation | homologous J4_8P9A_012 J4_45801.6 | |
| J4_6CB1_002 | 1/1/185:189, 1/1/205:208, 1/1/212:214, 1/1/226:231 | No text annotation | homologous J4_8P9A_013 J4_12410.1 | |
| J4_6CB1_003 | 1/1/1674:1675, 1/1/1693:1694, 1/1/1752:1753, 1/1/1772:1773 | No text annotation | homologous J4_8P9A_016 J4_24280.2 | |
| J5_6CB1_001 | 1/1/20:22, 1/2/35:42, 1/2/102:107, 1/2/115:116, 1/2/137:139 | No text annotation | homologous J5_8P9A_010 J5_01737.2 | |
| J5_6CB1_002 | 1/1/658:663, 1/1/799:802, 1/1/941:944, 1/1/1375:1376, 1/1/1431:1437 | No text annotation | homologous J5_8C3A_002 NA | |
| J6_6CB1_001 | 1/1/22:27, 1/1/58:68, 1/1/75:79, 1/1/106:110, 1/1/321:331, 1/2/32:35 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6CB1_004 | No text annotation |
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