6O7K Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6O7K_001 | 1/g/12:22 | No text annotation | homologous HL_5J7L_001 NA | |
| HL_6O7K_007 | 1/g/296:301 | GNRA | homologous HL_5J7L_007 NA | |
| HL_6O7K_008 | 1/g/320:333 | No text annotation | homologous HL_5J7L_008 NA | |
| HL_6O7K_012 | 1/g/462:470 | GNRA wlth extra near cWW | homologous HL_5J7L_012 NA | |
| HL_6O7K_013 | 1/g/522:527 | No text annotation | geometric HL_4WF9_003 HL_75660.6 | |
| HL_6O7K_014 | 1/g/617:623 | GNRA-like with tWH | homologous HL_5J7L_014 NA | |
| HL_6O7K_016 | 1/g/726:731 | GNRA | homologous HL_5J7L_016 NA | |
| HL_6O7K_017 | 1/g/786:796 | No text annotation | homologous HL_5J7L_017 NA | |
| HL_6O7K_019 | 1/g/862:867 | GNRA | homologous HL_5J7L_019 NA | |
| HL_6O7K_020 | 1/g/897:902 | GNRA | homologous HL_4LFB_020 HL_34789.1 | |
| HL_6O7K_021 | 1/g/963:972 | No text annotation | homologous HL_5J7L_021 NA | |
| HL_6O7K_024 | 1/g/1076:1081 | GNRA | homologous HL_5J7L_023 NA | |
| HL_6O7K_029 | 1/g/1314:1323 | T-loop with 3 stacked bulged bases | homologous HL_4LFB_029 HL_93658.1 | |
| HL_6O7K_030 | 1/g/1356:1366 | No text annotation | homologous HL_4LFB_030 HL_86432.1 | |
| HL_6O7K_032 | 1/g/1515:1520 | GNRA | homologous HL_4LFB_032 HL_34789.1 | |
| HL_6O7K_034 | 1/v/32:40 | tRNA anticodon loop | homologous HL_6UFG_007 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6O7K_002 | No text annotation | ||
| HL_6O7K_003 | GNRA | ||
| HL_6O7K_004 | GNRA | ||
| HL_6O7K_005 | No text annotation | ||
| HL_6O7K_036 | UNCG | ||
| HL_6O7K_006 | GNRA related | ||
| HL_6O7K_009 | UNCG | ||
| HL_6O7K_010 | GNRA | ||
| HL_6O7K_011 | UNCG | ||
| HL_6O7K_015 | No text annotation | ||
| HL_6O7K_018 | Externally structured | ||
| HL_6O7K_022 | GNRA | ||
| HL_6O7K_023 | No text annotation | ||
| HL_6O7K_025 | T-loop related | ||
| HL_6O7K_026 | No text annotation | ||
| HL_6O7K_027 | GNRA | ||
| HL_6O7K_028 | GNRA | ||
| HL_6O7K_031 | UNCG | ||
| HL_6O7K_033 | tRNA D-loop | ||
| HL_6O7K_035 | No text annotation | ||
| HL_6O7K_037 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6O7K_001 | 1/g/30:32, 1/g/552:553 | Single bulged G | homologous IL_4LFB_001 IL_28408.1 | |
| IL_6O7K_002 | 1/g/44:45, 1/g/396:398 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_6O7K_003 | 1/g/47:52, 1/g/359:361 | No text annotation | geometric IL_5J7L_003 NA | |
| IL_6O7K_004 | 1/g/54:56, 1/g/356:357 | Minor groove platform | homologous IL_4LFB_004 IL_34520.1 | |
| IL_6O7K_005 | 1/g/63:66, 1/g/103:104 | Multiple bulged bases | homologous IL_4LFB_005 IL_71421.1 | |
| IL_6O7K_009 | 1/g/128:131, 1/g/231:233 | Isolated non-canonical cWW pair | homologous IL_5J7L_009 NA | |
| IL_6O7K_010 | 1/g/132:136, 1/g/227:230 | No text annotation | homologous IL_4LFB_008 IL_60988.1 | |
| IL_6O7K_012 | 1/g/147:153, 1/g/168:175 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_6O7K_014 | 1/g/242:247, 1/g/277:284 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
| IL_6O7K_015 | 1/g/249:252, 1/g/274:275 | No text annotation | homologous IL_5J7L_015 NA | |
| IL_6O7K_016 | 1/g/292:293, 1/g/304:308 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_6O7K_017 | 1/g/367:369, 1/g/392:393 | Single bulged U | geometric IL_5J7L_017 NA | |
| IL_6O7K_018 | 1/g/371:375, 1/g/389:390 | C-loop | geometric IL_5J7L_018 NA | |
| IL_6O7K_019 | 1/g/375:376, 1/g/387:389 | Single bulged G | homologous IL_5J7L_019 NA | |
| IL_6O7K_024 | 1/g/504:511, 1/g/540:541 | SSU/LSU pseudoknot | homologous IL_5J7L_024 NA | |
| IL_6O7K_025 | 1/g/515:521, 1/g/528:536 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_6O7K_026 | 1/g/569:575, 1/g/880:881 | No text annotation | homologous IL_4LFB_022 IL_20847.1 | |
| IL_6O7K_027 | 1/g/580:584, 1/g/757:761 | tSH-tHW-tHS | homologous IL_5J7L_027 NA | |
| IL_6O7K_028 | 1/g/594:596, 1/g/644:645 | Major groove platform | homologous IL_5J7L_028 NA | |
| IL_6O7K_030 | 1/g/605:612, 1/g/628:633 | No text annotation | homologous IL_5J7L_030 NA | |
| IL_6O7K_067 | 1/g/673:677, 1/g/713:717 | Triple non-canonical cWW pairs | homologous IL_4LFB_065 IL_71154.1 | |
| IL_6O7K_035 | 1/g/684:688, 1/g/699:706 | Kink-turn | homologous IL_5J7L_035 NA | |
| IL_6O7K_037 | 1/g/779:783, 1/g/799:803 | tSH-tHW-tHS | homologous IL_5J7L_037 NA | |
| IL_6O7K_038 | 1/g/887:894, 1/g/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_6O7K_039 | 1/g/922:923, 1/g/1393:1395 | Single bulged A | homologous IL_5J7L_039 NA | |
| IL_6O7K_040 | 1/g/925:927, 1/g/1390:1391 | Single bulged G | homologous IL_5J7L_040 NA | |
| IL_6O7K_041 | 1/g/933:935, 1/g/1380:1384 | Minor groove platform | homologous IL_5J7L_041 NA | |
| IL_6O7K_045 | 1/g/1048:1050, 1/g/1208:1209 | Single bulged U | homologous IL_4LFB_042 IL_97561.1 | |
| IL_6O7K_046 | 1/g/1052:1056, 1/g/1204:1206 | Isolated cWS basepair | homologous IL_4LFB_044 IL_82453.1 | |
| IL_6O7K_047 | 1/g/1057:1058, 1/g/1199:1203 | Minor groove platform | homologous IL_4LFB_045 IL_24264.1 | |
| IL_6O7K_048 | 1/g/1060:1061, 1/g/1195:1197 | Single bulged U | homologous IL_4LFB_046 IL_97561.1 | |
| IL_6O7K_049 | 1/g/1061:1063, 1/g/1193:1195 | Isolated non-canonical cWW pair | geometric IL_6CZR_157 NA | |
| IL_6O7K_052 | 1/g/1158:1161, 1/g/1175:1181 | No text annotation | geometric IL_4LFB_050 IL_32376.1 | |
| IL_6O7K_070 | 1/g/1247:1253, 1/g/1284:1290 | No text annotation | homologous IL_5J7L_054 NA | |
| IL_6O7K_054 | 1/g/1255:1258, 1/g/1277:1282 | 180 degree turn | homologous IL_5J7L_055 NA | |
| IL_6O7K_057 | 1/g/1399:1401, 1/g/1501:1504 | No text annotation | homologous IL_5J7L_058 NA | |
| IL_6O7K_058 | 1/g/1401:1404, 1/g/1497:1501 | No text annotation | geometric IL_4V88_464 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6O7K_006 | Minor groove platform with extra cWW | ||
| IL_6O7K_007 | Minor groove platform | ||
| IL_6O7K_008 | Stack outside cWW | ||
| IL_6O7K_011 | Isolated cWH basepair | ||
| IL_6O7K_013 | Minor groove platform | ||
| IL_6O7K_066 | No text annotation | ||
| IL_6O7K_020 | No text annotation | ||
| IL_6O7K_021 | No text annotation | ||
| IL_6O7K_022 | tSH-tHW-tWW | ||
| IL_6O7K_023 | No text annotation | ||
| IL_6O7K_029 | Major groove minor groove platform; mini C-loop | ||
| IL_6O7K_031 | Major groove platform; stack outside cWW | ||
| IL_6O7K_032 | Single stack bend | ||
| IL_6O7K_033 | Tandem non-canonical cWW pairs | ||
| IL_6O7K_034 | No text annotation | ||
| IL_6O7K_036 | Left turn | ||
| IL_6O7K_042 | No text annotation | ||
| IL_6O7K_043 | Minor groove platform | ||
| IL_6O7K_044 | Single stack bend | ||
| IL_6O7K_050 | No text annotation | ||
| IL_6O7K_068 | No text annotation | ||
| IL_6O7K_069 | No text annotation | ||
| IL_6O7K_051 | Minor groove platform | ||
| IL_6O7K_053 | No text annotation | ||
| IL_6O7K_055 | Double sheared with non-canonical cWW | ||
| IL_6O7K_071 | No text annotation | ||
| IL_6O7K_056 | No text annotation | ||
| IL_6O7K_059 | Isolated non-canonical cWW pair | ||
| IL_6O7K_060 | Isolated non-canonical cWW pair | ||
| IL_6O7K_061 | Isolated non-canonical cWW pair | ||
| IL_6O7K_062 | Double sheared | ||
| IL_6O7K_063 | Triple sheared related | ||
| IL_6O7K_064 | Single bulged A | ||
| IL_6O7K_065 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6O7K_001 | 1/g/46:47, 1/g/361:367, 1/g/393:395 | No text annotation | homologous J3_5J7L_001 NA | |
| J3_6O7K_013 | 1/g/46:52, 1/g/359:367, 1/g/393:395 | No text annotation | homologous J3_5J7L_050 NA | |
| J3_6O7K_002 | 1/g/586:588, 1/g/651:654, 1/g/754:755 | No text annotation | homologous J3_5J7L_002 NA | |
| J3_6O7K_014 | 1/g/586:588, 1/g/651:655, 1/g/751:755 | No text annotation | homologous J3_5J7L_051 NA | |
| J3_6O7K_004 | 1/g/826:829, 1/g/857:861, 1/g/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J3_6O7K_015 | 1/g/936:939, 1/g/1344:1350, 1/g/1372:1379 | No text annotation | homologous J3_5J7L_052 NA | |
| J3_6O7K_006 | 1/g/955:962, 1/g/973:984, 1/g/1221:1225 | No text annotation | homologous J3_5J7L_006 NA | |
| J3_6O7K_009 | 1/g/1063:1068, 1/g/1107:1113, 1/g/1187:1193 | No text annotation | homologous J3_5J7L_008 NA | |
| J3_6O7K_010 | 1/g/1073:1074, 1/g/1083:1087, 1/g/1098:1102 | No text annotation | homologous J3_5J7L_009 NA | |
| J3_6O7K_017 | 1/g/1116:1118, 1/g/1155:1161, 1/g/1175:1184 | No text annotation | homologous J3_4LFB_018 J3_40706.1 | |
| J4_6O7K_001 | 1/g/115:122, 1/g/239:240, 1/g/286:289, 1/g/311:312 | No text annotation | homologous J4_5J7L_001 NA | |
| J4_6O7K_003 | 1/g/575:577, 1/g/764:769, 1/g/810:821, 1/g/879:880 | No text annotation | homologous J4_5J7L_003 NA | |
| J5_6O7K_001 | 1/g/36:39, 1/g/403:406, 1/g/436:440, 1/g/497:500, 1/g/545:548 | No text annotation | homologous J5_5J7L_001 NA | |
| J5_6O7K_002 | 1/g/36:39, 1/g/403:406, 1/g/436:442, 1/g/492:500, 1/g/545:548 | No text annotation | homologous J5_5J7L_002 NA | |
| J5_6O7K_003 | 1/g/58:61, 1/g/106:113, 1/g/314:316, 1/g/337:339, 1/g/350:354 | No text annotation | homologous J5_4LFB_002 J5_58574.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6O7K_003 | No text annotation | ||
| J3_6O7K_005 | No text annotation | ||
| J3_6O7K_007 | No text annotation | ||
| J3_6O7K_016 | No text annotation | ||
| J3_6O7K_018 | No text annotation | ||
| J3_6O7K_008 | No text annotation | ||
| J3_6O7K_011 | No text annotation | ||
| J3_6O7K_012 | No text annotation | ||
| J4_6O7K_002 | No text annotation | ||
| J4_6O7K_004 | tRNA junction |
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