7OHR Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_7OHR_001 | 1/1/38:45 | No text annotation | homologous HL_8C3A_001 NA | |
| HL_7OHR_002 | 1/1/69:74 | No text annotation | homologous HL_8C3A_002 NA | |
| HL_7OHR_004 | 1/1/132:136 | No text annotation | homologous HL_8C3A_004 NA | |
| HL_7OHR_006 | 1/1/208:212 | No text annotation | homologous HL_8C3A_006 NA | |
| HL_7OHR_007 | 1/1/216:224 | T-loop with unstacked turn | homologous HL_8C3A_007 NA | |
| HL_7OHR_008 | 1/1/278:287 | No text annotation | homologous HL_8C3A_008 NA | |
| HL_7OHR_010 | 1/1/357:362 | GNRA | homologous HL_8C3A_010 NA | |
| HL_7OHR_011 | 1/1/382:387 | GNRA | homologous HL_8C3A_011 NA | |
| HL_7OHR_014 | 1/1/640:649 | No text annotation | ||
| HL_7OHR_015 | 1/1/686:694 | No text annotation | homologous HL_8C3A_015 NA | |
| HL_7OHR_028 | 1/1/1403:1408 | GNRA | homologous HL_8C3A_030 NA | |
| HL_7OHR_030 | 1/1/1506:1512 | Pseudoknot geometry with 3' bulge | homologous HL_8C3A_032 NA | |
| HL_7OHR_031 | 1/1/1544:1549 | GNRA variation | homologous HL_8C3A_033 NA | |
| HL_7OHR_032 | 1/1/1565:1574 | No text annotation | ||
| HL_7OHR_033 | 1/1/1599:1608 | No text annotation | homologous HL_8C3A_035 NA | |
| HL_7OHR_039 | 1/1/2369:2378 | No text annotation | geometric HL_5TBW_006 NA | |
| HL_7OHR_043 | 1/1/2918:2928 | No text annotation | geometric HL_2Y8W_001 NA | |
| HL_7OHR_047 | 1/1/3110:3124 | No text annotation | homologous HL_8C3A_068 NA | |
| HL_7OHR_052 | 1/2/47:56 | tRNA anticodon loop | geometric HL_6JXM_002 NA | |
| HL_7OHR_053 | 1/2/69:89 | No text annotation | homologous HL_8C3A_230 NA | |
| HL_7OHR_054 | 1/2/108:114 | No text annotation | homologous HL_5TBW_075 NA | |
| HL_7OHR_055 | 1/2/124:129 | No text annotation | homologous HL_5TBW_076 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7OHR_003 | No text annotation | ||
| HL_7OHR_005 | T-loop with 2 stacked bulged bases | ||
| HL_7OHR_009 | No text annotation | ||
| HL_7OHR_012 | No text annotation | ||
| HL_7OHR_013 | GNRA | ||
| HL_7OHR_016 | GNRA | ||
| HL_7OHR_017 | No text annotation | ||
| HL_7OHR_018 | GNRA | ||
| HL_7OHR_019 | No text annotation | ||
| HL_7OHR_020 | No text annotation | ||
| HL_7OHR_021 | Externally structured | ||
| HL_7OHR_022 | No text annotation | ||
| HL_7OHR_023 | Other HL | ||
| HL_7OHR_024 | No text annotation | ||
| HL_7OHR_025 | No text annotation | ||
| HL_7OHR_026 | GNRA wlth tandem sheared | ||
| HL_7OHR_027 | No text annotation | ||
| HL_7OHR_029 | T-loop with 2 stacked bulged bases | ||
| HL_7OHR_034 | GNRA | ||
| HL_7OHR_035 | No text annotation | ||
| HL_7OHR_036 | No text annotation | ||
| HL_7OHR_037 | No text annotation | ||
| HL_7OHR_038 | GNRA | ||
| HL_7OHR_040 | No text annotation | ||
| HL_7OHR_041 | No text annotation | ||
| HL_7OHR_042 | No text annotation | ||
| HL_7OHR_044 | No text annotation | ||
| HL_7OHR_045 | GNRA | ||
| HL_7OHR_046 | Ribsomal LSU H95 | ||
| HL_7OHR_048 | No text annotation | ||
| HL_7OHR_049 | No text annotation | ||
| HL_7OHR_050 | No text annotation | ||
| HL_7OHR_051 | Mini UNCG | ||
| HL_7OHR_056 | No text annotation | ||
| HL_7OHR_057 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_7OHR_001 | 1/1/7:8, 1/2/150:152 | Single bulged C | homologous IL_8C3A_002 NA | |
| IL_7OHR_003 | 1/1/27:28, 1/1/56:58 | No text annotation | homologous IL_8C3A_004 NA | |
| IL_7OHR_004 | 1/1/31:38, 1/1/45:53 | tSH-tHW-tHH-tHS | geometric IL_5TBW_005 NA | |
| IL_7OHR_006 | 1/1/123:124, 1/1/144:149 | No text annotation | homologous IL_8C3A_007 NA | |
| IL_7OHR_007 | 1/1/125:127, 1/1/141:143 | Isolated non-canonical cWW pair | homologous IL_8C3A_008 NA | |
| IL_7OHR_009 | 1/1/169:171, 1/1/247:253 | No text annotation | ||
| IL_7OHR_012 | 1/1/337:339, 1/2/25:26 | Single bulged A | homologous IL_5TBW_013 NA | |
| IL_7OHR_013 | 1/1/376:379, 1/1/390:403 | No text annotation | geometric IL_5TBW_014 NA | |
| IL_7OHR_014 | 1/1/404:410, 1/2/13:19 | Triple sheared with non-canonical cWW | homologous IL_5TBW_015 NA | |
| IL_7OHR_017 | 1/1/512:513, 1/1/577:579 | Single bulged A | homologous IL_8C3A_020 NA | |
| IL_7OHR_018 | 1/1/517:525, 1/1/567:573 | No text annotation | homologous IL_5TBW_019 NA | |
| IL_7OHR_020 | 1/1/668:670, 1/1/792:794 | Isolated non-canonical cWW pair | homologous IL_8C3A_023 NA | |
| IL_7OHR_021 | 1/1/680:684, 1/1/696:700 | No text annotation | homologous IL_5TBW_022 NA | |
| IL_7OHR_024 | 1/1/803:805, 1/1/938:940 | Isolated non-canonical cWW pair | geometric IL_5TBW_046 NA | |
| IL_7OHR_025 | 1/1/805:809, 1/1/931:938 | No text annotation | ||
| IL_7OHR_031 | 1/1/983:985, 1/1/1099:1100 | Single bulged G | homologous IL_8C3A_040 NA | |
| IL_7OHR_109 | 1/1/1120:1122, 1/1/1136:1138 | Isolated non-canonical cWW pair | homologous IL_8CRE_049 NA | |
| IL_7OHR_034 | 1/1/1167:1171, 1/1/1328:1332 | UAA/GAN | homologous IL_8C3A_051 NA | |
| IL_7OHR_035 | 1/1/1173:1180, 1/1/1325:1326 | SSU/LSU pseudoknot | geometric IL_5TBW_049 NA | |
| IL_7OHR_036 | 1/1/1180:1182, 1/1/1324:1325 | Single bulged U | homologous IL_5TBW_050 NA | |
| IL_7OHR_037 | 1/1/1186:1194, 1/1/1314:1320 | No text annotation | ||
| IL_7OHR_041 | 1/1/1234:1238, 1/1/1250:1254 | No text annotation | homologous IL_8C3A_058 NA | |
| IL_7OHR_043 | 1/1/1376:1378, 1/1/1428:1431 | No text annotation | homologous IL_8C3A_061 NA | |
| IL_7OHR_044 | 1/1/1385:1387, 1/1/1420:1421 | Single bulged A | homologous IL_5TBW_058 NA | |
| IL_7OHR_045 | 1/1/1388:1395, 1/1/1415:1419 | Kink-turn | homologous IL_5TBW_059 NA | |
| IL_7OHR_046 | 1/1/1398:1400, 1/1/1411:1412 | Single bulged A | homologous IL_5TBW_060 NA | |
| IL_7OHR_047 | 1/1/1444:1450, 1/1/2354:2359 | No text annotation | homologous IL_8C3A_065 NA | |
| IL_7OHR_049 | 1/1/1501:1505, 1/1/1513:1515 | C-loop | geometric IL_6JDV_004 IL_63596.12 | |
| IL_7OHR_050 | 1/1/1532:1536, 1/1/1585:1590 | UAA/GAN | homologous IL_8C3A_067 NA | |
| IL_7OHR_051 | 1/1/1618:1620, 1/1/1825:1826 | Single stack bend | geometric IL_4LFB_041 IL_15011.1 | |
| IL_7OHR_053 | 1/1/1625:1631, 1/1/1811:1819 | No text annotation | ||
| IL_7OHR_058 | 1/1/1694:1698, 1/1/1747:1752 | No text annotation | homologous IL_8C3A_077 NA | |
| IL_7OHR_059 | 1/1/1702:1707, 1/1/1737:1743 | No text annotation | homologous IL_5TBW_072 NA | |
| IL_7OHR_063 | 1/1/1898:1901, 1/1/2336:2337 | Major groove platform; stack outside cWW | geometric IL_7RQB_066 NA | |
| IL_7OHR_064 | 1/1/1901:1906, 1/1/2333:2336 | No text annotation | homologous IL_8C3A_083 NA | |
| IL_7OHR_070 | 1/1/2889:2891, 1/1/2912:2914 | Isolated non-canonical cWW pair | homologous IL_8C3A_118 NA | |
| IL_7OHR_104 | 1/1/2889:2892, 1/1/2909:2914 | No text annotation | homologous IL_8P9A_338 IL_07469.3 | |
| IL_7OHR_071 | 1/1/2891:2892, 1/1/2909:2912 | Major groove platform with intercalation | geometric IL_4V9F_089 IL_94991.1 | |
| IL_7OHR_073 | 1/1/3004:3007, 1/1/3139:3144 | Double sheared | homologous IL_8C3A_123 NA | |
| IL_7OHR_075 | 1/1/3018:3025, 1/1/3030:3036 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_8C3A_125 NA | |
| IL_7OHR_076 | 1/1/3047:3051, 1/1/3091:3094 | Major groove minor groove platform with tHH | homologous IL_8C3A_126 NA | |
| IL_7OHR_077 | 1/1/3054:3059, 1/1/3084:3088 | UAA/GAN related | homologous IL_8C3A_127 NA | |
| IL_7OHR_079 | 1/1/3103:3107, 1/1/3127:3131 | UAA/GAN | homologous IL_8C3A_129 NA | |
| IL_7OHR_083 | 1/1/3177:3179, 1/1/3210:3211 | Single bulged A | homologous IL_5TBW_123 NA | |
| IL_7OHR_084 | 1/1/3179:3188, 1/1/3204:3210 | No text annotation | geometric IL_5TBW_124 NA | |
| IL_7OHR_089 | 1/1/3300:3303, 1/1/3311:3314 | Tandem non-canonical cWW pairs | geometric IL_5TBW_129 NA | |
| IL_7OHR_092 | 1/1/3328:3330, 1/1/3373:3378 | No text annotation | homologous IL_8C3A_138 NA | |
| IL_7OHR_095 | 1/2/64:66, 1/2/93:96 | Isolated non-canonical cWW pair | homologous IL_5TBW_145 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7OHR_002 | Single bulged U | ||
| IL_7OHR_005 | No text annotation | ||
| IL_7OHR_008 | Single bulged A | ||
| IL_7OHR_010 | No text annotation | ||
| IL_7OHR_011 | Single bulged U | ||
| IL_7OHR_099 | Isolated tWW contact | ||
| IL_7OHR_100 | No text annotation | ||
| IL_7OHR_015 | Isolated non-canonical cWW pair | ||
| IL_7OHR_016 | Kink-turn related | ||
| IL_7OHR_019 | No text annotation | ||
| IL_7OHR_022 | No text annotation | ||
| IL_7OHR_023 | No text annotation | ||
| IL_7OHR_108 | No text annotation | ||
| IL_7OHR_026 | No text annotation | ||
| IL_7OHR_027 | No text annotation | ||
| IL_7OHR_028 | No text annotation | ||
| IL_7OHR_029 | Isolated non-canonical cWW pair | ||
| IL_7OHR_030 | No text annotation | ||
| IL_7OHR_101 | Isolated non-canonical cWW pair | ||
| IL_7OHR_032 | Single bulged G | ||
| IL_7OHR_102 | Partly complementary | ||
| IL_7OHR_033 | Tandem non-canonical cWW pairs | ||
| IL_7OHR_038 | No text annotation | ||
| IL_7OHR_039 | Single bulged U | ||
| IL_7OHR_040 | No text annotation | ||
| IL_7OHR_103 | No text annotation | ||
| IL_7OHR_042 | No text annotation | ||
| IL_7OHR_048 | Isolated tHS basepair with bulges | ||
| IL_7OHR_052 | Single bulged U | ||
| IL_7OHR_054 | Triple sheared | ||
| IL_7OHR_055 | Isolated non-canonical cWW pair | ||
| IL_7OHR_056 | Single bulged C | ||
| IL_7OHR_057 | Single stack bend | ||
| IL_7OHR_060 | Kink-turn | ||
| IL_7OHR_061 | No text annotation | ||
| IL_7OHR_062 | No text annotation | ||
| IL_7OHR_065 | Single bulged U | ||
| IL_7OHR_066 | No text annotation | ||
| IL_7OHR_110 | Tandem non-canonical cWW pairs | ||
| IL_7OHR_067 | No text annotation | ||
| IL_7OHR_068 | No text annotation | ||
| IL_7OHR_069 | No text annotation | ||
| IL_7OHR_072 | Isolated non-canonical cWW pair | ||
| IL_7OHR_074 | Isolated non-canonical cWW pair | ||
| IL_7OHR_105 | No text annotation | ||
| IL_7OHR_078 | No text annotation | ||
| IL_7OHR_106 | Isolated non-canonical cWW pair | ||
| IL_7OHR_080 | Single stack bend | ||
| IL_7OHR_081 | Isolated non-canonical cWW pair | ||
| IL_7OHR_082 | Isolated non-canonical cWW pair | ||
| IL_7OHR_085 | Single bulged U | ||
| IL_7OHR_086 | No text annotation | ||
| IL_7OHR_087 | Isolated non-canonical cWW pair | ||
| IL_7OHR_088 | Tandem non-canonical cWW pairs | ||
| IL_7OHR_090 | Single bulged U | ||
| IL_7OHR_091 | Single bulged U | ||
| IL_7OHR_093 | No text annotation | ||
| IL_7OHR_094 | No text annotation | ||
| IL_7OHR_096 | Single bulged U | ||
| IL_7OHR_107 | Multiple bulged bases | ||
| IL_7OHR_097 | Single bulged G, near cWW | ||
| IL_7OHR_098 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_7OHR_001 | 1/1/113:123, 1/1/149:158, 1/1/263:267 | No text annotation | homologous J3_8P9A_042 J3_69230.1 | |
| J3_7OHR_012 | 1/1/113:124, 1/1/144:158, 1/1/263:267 | No text annotation | ||
| J3_7OHR_013 | 1/1/340:356, 1/1/363:368, 1/2/21:24 | No text annotation | homologous J3_8C3A_047 NA | |
| J3_7OHR_002 | 1/1/369:376, 1/1/403:404, 1/2/19:20 | No text annotation | homologous J3_5TBW_002 NA | |
| J3_7OHR_003 | 1/1/502:503, 1/1/588:597, 1/1/606:611 | No text annotation | homologous J3_5TBW_003 NA | |
| J3_7OHR_006 | 1/1/1479:1485, 1/1/1857:1859, 1/1/1871:1874 | No text annotation | homologous J3_8C3A_006 NA | |
| J3_7OHR_014 | 1/1/1537:1542, 1/1/1551:1560, 1/1/1579:1584 | No text annotation | ||
| J3_7OHR_008 | 1/1/1631:1632, 1/1/1641:1645, 1/1/1810:1811 | No text annotation | homologous J3_8C3A_054 NA | |
| J3_7OHR_009 | 1/1/2886:2889, 1/1/2914:2916, 1/1/2930:2936 | No text annotation | homologous J3_8C3A_011 NA | |
| J3_7OHR_015 | 1/1/3171:3176, 1/1/3212:3220, 1/1/3265:3279 | No text annotation | homologous J3_8P9A_064 J3_03190.1 | |
| J3_7OHR_011 | 1/2/44:45, 1/2/58:64, 1/2/96:100 | No text annotation | homologous J3_8C3A_060 NA | |
| J4_7OHR_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_94698.1 | |
| J4_7OHR_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_43318.1 | |
| J4_7OHR_003 | 1/1/1451:1457, 1/1/1475:1476, 1/1/1877:1880, 1/1/2352:2353 | No text annotation | homologous J4_8C3A_003 NA | |
| J4_7OHR_004 | 1/1/1492:1496, 1/1/1520:1525, 1/1/1614:1615, 1/1/1829:1836 | No text annotation | homologous J4_8C3A_004 NA | |
| J4_7OHR_005 | 1/1/1674:1675, 1/1/1693:1694, 1/1/1752:1753, 1/1/1772:1773 | No text annotation | homologous J4_8C3A_005 NA | |
| J4_7OHR_006 | 1/1/3010:3012, 1/1/3042:3043, 1/1/3098:3100, 1/1/3134:3136 | No text annotation | homologous J4_8P9A_020 J4_37757.1 | |
| J5_7OHR_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_8C3A_001 NA | |
| J5_7OHR_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_7OHR_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 | ||
| J7_7OHR_001 | 1/1/949:958, 1/1/964:968, 1/1/1114:1117, 1/1/1141:1146, 1/1/1157:1161, 1/1/1338:1339, 1/1/1365:1370 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_7OHR_004 | No text annotation | ||
| J3_7OHR_005 | No text annotation | ||
| J3_7OHR_007 | No text annotation | ||
| J3_7OHR_010 | No text annotation |
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