7BOH Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_7BOH_001 | 1/A/12:22 | No text annotation | homologous HL_5J7L_001 NA | |
| HL_7BOH_003 | 1/A/158:163 | GNRA | homologous HL_5J7L_003 NA | |
| HL_7BOH_004 | 1/A/186:191 | GNRA | homologous HL_5J7L_004 NA | |
| HL_7BOH_005 | 1/A/207:212 | UNCG | homologous HL_5J7L_005 NA | |
| HL_7BOH_006 | 1/A/259:267 | GNRA related | homologous HL_5J7L_006 NA | |
| HL_7BOH_007 | 1/A/296:301 | GNRA | homologous HL_5J7L_007 NA | |
| HL_7BOH_008 | 1/A/320:333 | No text annotation | homologous HL_5J7L_008 NA | |
| HL_7BOH_009 | 1/A/342:347 | UNCG | homologous HL_5J7L_009 NA | |
| HL_7BOH_010 | 1/A/379:384 | GNRA | homologous HL_5J7L_010 NA | |
| HL_7BOH_011 | 1/A/419:424 | UNCG | homologous HL_4LFB_011 HL_61337.2 | |
| HL_7BOH_012 | 1/A/462:470 | GNRA wlth extra near cWW | homologous HL_5J7L_012 NA | |
| HL_7BOH_033 | 1/A/522:527 | GNRA variation | homologous HL_5J7L_205 NA | |
| HL_7BOH_014 | 1/A/617:623 | GNRA-like with tWH | homologous HL_5J7L_014 NA | |
| HL_7BOH_015 | 1/A/689:698 | No text annotation | homologous HL_5J7L_015 NA | |
| HL_7BOH_016 | 1/A/726:731 | GNRA | homologous HL_5J7L_016 NA | |
| HL_7BOH_017 | 1/A/786:796 | No text annotation | homologous HL_5J7L_017 NA | |
| HL_7BOH_018 | 1/A/840:846 | No text annotation | geometric HL_7RQB_011 NA | |
| HL_7BOH_019 | 1/A/862:867 | GNRA | homologous HL_5J7L_019 NA | |
| HL_7BOH_020 | 1/A/897:902 | GNRA | homologous HL_4LFB_020 HL_34789.2 | |
| HL_7BOH_021 | 1/A/963:972 | No text annotation | homologous HL_5J7L_021 NA | |
| HL_7BOH_024 | 1/A/1076:1081 | GNRA | homologous HL_4LFB_024 HL_34789.2 | |
| HL_7BOH_025 | 1/A/1089:1096 | T-loop related | homologous HL_4LFB_025 HL_63894.2 | |
| HL_7BOH_031 | 1/A/1449:1454 | UNCG | homologous HL_4LFB_031 HL_61337.2 | |
| HL_7BOH_032 | 1/A/1515:1520 | GNRA | homologous HL_6CZR_103 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7BOH_002 | No text annotation | ||
| HL_7BOH_013 | GNRA with extra cWW | ||
| HL_7BOH_022 | GNRA | ||
| HL_7BOH_023 | UNCG | ||
| HL_7BOH_026 | No text annotation | ||
| HL_7BOH_027 | GNRA | ||
| HL_7BOH_028 | GNRA | ||
| HL_7BOH_029 | T-loop with 3 stacked bulged bases | ||
| HL_7BOH_030 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_7BOH_001 | 1/A/30:32, 1/A/552:553 | Single bulged G | homologous IL_5J7L_001 NA | |
| IL_7BOH_002 | 1/A/44:45, 1/A/396:398 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_7BOH_003 | 1/A/47:52, 1/A/359:361 | No text annotation | homologous IL_5J7L_003 NA | |
| IL_7BOH_004 | 1/A/54:56, 1/A/356:357 | Minor groove platform | homologous IL_4LFB_004 IL_34520.2 | |
| IL_7BOH_005 | 1/A/63:66, 1/A/103:104 | Multiple bulged bases | homologous IL_4LFB_005 IL_71421.2 | |
| IL_7BOH_006 | 1/A/67:69, 1/A/99:102 | Minor groove platform with extra cWW | geometric IL_5J7L_006 NA | |
| IL_7BOH_064 | 1/A/70:73, 1/A/97:98 | Minor groove platform | homologous IL_5J7L_007 NA | |
| IL_7BOH_008 | 1/A/75:76, 1/A/93:95 | Single bulged G | homologous IL_5J7L_395 NA | |
| IL_7BOH_009 | 1/A/128:131, 1/A/231:233 | Isolated non-canonical cWW pair | homologous IL_5J7L_009 NA | |
| IL_7BOH_010 | 1/A/132:136, 1/A/227:230 | Minor groove platform related | homologous IL_5J7L_010 NA | |
| IL_7BOH_011 | 1/A/144:146, 1/A/176:178 | Isolated cWH basepair | homologous IL_5J7L_011 NA | |
| IL_7BOH_012 | 1/A/147:153, 1/A/168:175 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_7BOH_013 | 1/A/203:206, 1/A/213:214 | Minor groove platform | geometric IL_3MXH_005 IL_87975.1 | |
| IL_7BOH_014 | 1/A/242:247, 1/A/277:284 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
| IL_7BOH_015 | 1/A/249:252, 1/A/274:275 | No text annotation | homologous IL_4LFB_012 IL_22002.1 | |
| IL_7BOH_016 | 1/A/292:293, 1/A/304:308 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_7BOH_017 | 1/A/367:369, 1/A/392:393 | Single bulged U | homologous IL_5J7L_017 NA | |
| IL_7BOH_018 | 1/A/371:375, 1/A/389:390 | C-loop | homologous IL_5J7L_018 NA | |
| IL_7BOH_019 | 1/A/375:376, 1/A/387:389 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_7BOH_020 | 1/A/409:416, 1/A/427:433 | No text annotation | homologous IL_5J7L_020 NA | |
| IL_7BOH_021 | 1/A/440:442, 1/A/492:497 | No text annotation | homologous IL_5J7L_021 NA | |
| IL_7BOH_022 | 1/A/446:450, 1/A/483:488 | tSH-tHW-tWW | geometric IL_5J7L_022 NA | |
| IL_7BOH_023 | 1/A/450:455, 1/A/477:483 | No text annotation | homologous IL_5J7L_023 NA | |
| IL_7BOH_024 | 1/A/504:511, 1/A/540:541 | SSU/LSU pseudoknot | homologous IL_5J7L_024 NA | |
| IL_7BOH_025 | 1/A/515:521, 1/A/528:536 | Kink-turn related | homologous IL_5J7L_025 NA | |
| IL_7BOH_026 | 1/A/569:575, 1/A/880:881 | No text annotation | homologous IL_4LFB_022 IL_20847.1 | |
| IL_7BOH_027 | 1/A/580:584, 1/A/757:761 | tSH-tHW-tHS | homologous IL_5J7L_027 NA | |
| IL_7BOH_028 | 1/A/594:596, 1/A/644:645 | Major groove platform | homologous IL_5J7L_028 NA | |
| IL_7BOH_029 | 1/A/597:598, 1/A/640:643 | Major groove minor groove platform; mini C-loop | homologous IL_4LFB_025 IL_73108.2 | |
| IL_7BOH_030 | 1/A/605:612, 1/A/628:633 | No text annotation | homologous IL_5J7L_030 NA | |
| IL_7BOH_031 | 1/A/654:655, 1/A/751:754 | Major groove platform; stack outside cWW | geometric IL_5J7L_031 NA | |
| IL_7BOH_032 | 1/A/659:660, 1/A/745:747 | Single stack bend | homologous IL_5J7L_032 NA | |
| IL_7BOH_033 | 1/A/662:666, 1/A/740:743 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_7BOH_066 | 1/A/673:677, 1/A/713:717 | Triple non-canonical cWW pairs | homologous IL_5J7L_361 NA | |
| IL_7BOH_035 | 1/A/684:688, 1/A/699:706 | Kink-turn | homologous IL_5J7L_035 NA | |
| IL_7BOH_036 | 1/A/774:778, 1/A/804:805 | Left turn | homologous IL_4LFB_032 IL_29346.3 | |
| IL_7BOH_037 | 1/A/779:783, 1/A/799:803 | tSH-tHW-tHS | homologous IL_5J7L_037 NA | |
| IL_7BOH_038 | 1/A/887:894, 1/A/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_7BOH_039 | 1/A/922:923, 1/A/1393:1395 | Single bulged A | homologous IL_5J7L_039 NA | |
| IL_7BOH_040 | 1/A/925:927, 1/A/1390:1391 | Single bulged G | homologous IL_6CZR_148 NA | |
| IL_7BOH_041 | 1/A/933:935, 1/A/1380:1384 | Minor groove platform | homologous IL_5J7L_041 NA | |
| IL_7BOH_043 | 1/A/993:997, 1/A/1044:1045 | Minor groove platform | homologous IL_5J7L_043 NA | |
| IL_7BOH_047 | 1/A/1052:1056, 1/A/1204:1206 | Isolated cWS basepair | homologous IL_4LFB_044 IL_82453.1 | |
| IL_7BOH_048 | 1/A/1057:1058, 1/A/1199:1203 | Minor groove platform | homologous IL_5J7L_048 NA | |
| IL_7BOH_049 | 1/A/1060:1061, 1/A/1195:1197 | Single bulged A | homologous IL_5J7L_049 NA | |
| IL_7BOH_050 | 1/A/1061:1063, 1/A/1193:1195 | Isolated non-canonical cWW pair | geometric IL_5J7L_050 NA | |
| IL_7BOH_069 | 1/A/1407:1409, 1/A/1491:1494 | No text annotation | geometric IL_4P3T_002 NA | |
| IL_7BOH_059 | 1/A/1412:1414, 1/A/1486:1488 | Isolated non-canonical cWW pair | homologous IL_5J7L_061 NA | |
| IL_7BOH_060 | 1/A/1416:1419, 1/A/1481:1484 | Double sheared | homologous IL_4LFB_060 IL_58355.2 | |
| IL_7BOH_061 | 1/A/1430:1435, 1/A/1466:1470 | Triple sheared related | homologous IL_5J7L_063 NA | |
| IL_7BOH_062 | 1/A/1440:1442, 1/A/1460:1461 | Single bulged A | homologous IL_5J7L_064 NA | |
| IL_7BOH_063 | 1/A/1445:1448, 1/A/1455:1457 | No text annotation | homologous IL_5J7L_065 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7BOH_007 | No text annotation | ||
| IL_7BOH_070 | No text annotation | ||
| IL_7BOH_065 | Tandem non-canonical cWW pairs | ||
| IL_7BOH_034 | No text annotation | ||
| IL_7BOH_042 | Minor groove platform | ||
| IL_7BOH_067 | No text annotation | ||
| IL_7BOH_044 | Single stack bend | ||
| IL_7BOH_045 | Single bulged U | ||
| IL_7BOH_046 | Isolated non-canonical cWW pair | ||
| IL_7BOH_051 | No text annotation | ||
| IL_7BOH_071 | Minor groove platform | ||
| IL_7BOH_052 | No text annotation | ||
| IL_7BOH_053 | No text annotation | ||
| IL_7BOH_054 | No text annotation | ||
| IL_7BOH_055 | 180 degree turn | ||
| IL_7BOH_056 | Double sheared with non-canonical cWW | ||
| IL_7BOH_057 | No text annotation | ||
| IL_7BOH_068 | Isolated non-canonical cWW pair | ||
| IL_7BOH_058 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_7BOH_001 | 1/A/46:47, 1/A/361:367, 1/A/393:395 | No text annotation | homologous J3_5J7L_001 NA | |
| J3_7BOH_014 | 1/A/46:52, 1/A/359:367, 1/A/393:395 | No text annotation | homologous J3_5J7L_050 NA | |
| J3_7BOH_002 | 1/A/586:588, 1/A/651:654, 1/A/754:755 | No text annotation | homologous J3_5J7L_002 NA | |
| J3_7BOH_015 | 1/A/586:588, 1/A/651:655, 1/A/751:755 | No text annotation | homologous J3_5J7L_051 NA | |
| J3_7BOH_003 | 1/A/672:673, 1/A/717:725, 1/A/732:734 | No text annotation | homologous J3_5J7L_003 NA | |
| J3_7BOH_004 | 1/A/826:829, 1/A/857:861, 1/A/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J3_7BOH_005 | 1/A/936:939, 1/A/1344:1350, 1/A/1372:1379 | No text annotation | homologous J3_4LFB_002 J3_85722.1 | |
| J3_7BOH_007 | 1/A/955:962, 1/A/973:984, 1/A/1221:1225 | No text annotation | homologous J3_5J7L_006 NA | |
| J3_7BOH_008 | 1/A/990:993, 1/A/1045:1047, 1/A/1210:1215 | No text annotation | homologous J3_5J7L_007 NA | |
| J3_7BOH_016 | 1/A/990:997, 1/A/1044:1047, 1/A/1210:1215 | No text annotation | homologous J3_5J7L_053 NA | |
| J3_7BOH_010 | 1/A/1063:1068, 1/A/1107:1113, 1/A/1187:1193 | No text annotation | homologous J3_5J7L_008 NA | |
| J3_7BOH_017 | 1/A/1073:1074, 1/A/1083:1086, 1/A/1099:1102 | No text annotation | homologous J3_4LFB_017 J3_11018.1 | |
| J3_7BOH_012 | 1/A/1116:1118, 1/A/1155:1158, 1/A/1181:1184 | No text annotation | homologous J3_5J7L_010 NA | |
| J3_7BOH_018 | 1/A/1116:1118, 1/A/1155:1161, 1/A/1175:1184 | No text annotation | homologous J3_5J7L_054 NA | |
| J4_7BOH_001 | 1/A/115:122, 1/A/239:240, 1/A/286:289, 1/A/311:312 | No text annotation | homologous J4_5J7L_001 NA | |
| J4_7BOH_002 | 1/A/142:144, 1/A/178:184, 1/A/193:198, 1/A/219:221 | No text annotation | homologous J4_5J7L_002 NA | |
| J4_7BOH_003 | 1/A/575:577, 1/A/764:769, 1/A/810:821, 1/A/879:880 | No text annotation | homologous J4_5J7L_003 NA | |
| J5_7BOH_001 | 1/A/36:39, 1/A/403:406, 1/A/436:440, 1/A/497:500, 1/A/545:548 | No text annotation | homologous J5_5J7L_001 NA | |
| J5_7BOH_002 | 1/A/36:39, 1/A/403:406, 1/A/436:442, 1/A/492:500, 1/A/545:548 | No text annotation | homologous J5_5J7L_002 NA | |
| J5_7BOH_003 | 1/A/58:61, 1/A/106:113, 1/A/314:316, 1/A/337:339, 1/A/350:354 | No text annotation | homologous J5_5J7L_003 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_7BOH_006 | No text annotation | ||
| J3_7BOH_009 | No text annotation | ||
| J3_7BOH_011 | No text annotation | ||
| J3_7BOH_013 | No text annotation |
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