6NQB Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
HL_6NQB_001 | 1/A/12:22 | No text annotation | homologous HL_5J7L_001 NA | |
HL_6NQB_003 | 1/A/158:163 | GNRA | homologous HL_4LFB_003 HL_34789.1 | |
HL_6NQB_004 | 1/A/186:191 | GNRA | homologous HL_5J7L_004 NA | |
HL_6NQB_005 | 1/A/207:212 | UNCG | homologous HL_5J7L_005 NA | |
HL_6NQB_033 | 1/A/259:267 | GNRA related | homologous HL_5J7L_006 NA | |
HL_6NQB_007 | 1/A/296:301 | GNRA | homologous HL_5J7L_007 NA | |
HL_6NQB_031 | 1/A/321:333 | No text annotation | ||
HL_6NQB_010 | 1/A/379:384 | GNRA | homologous HL_5J7L_010 NA | |
HL_6NQB_011 | 1/A/419:424 | UNCG | homologous HL_5J7L_011 NA | |
HL_6NQB_012 | 1/A/459:473 | No text annotation | ||
HL_6NQB_013 | 1/A/522:527 | No text annotation | geometric HL_2Y8W_001 NA | |
HL_6NQB_014 | 1/A/617:623 | GNRA-like with tWH | homologous HL_4LFB_014 HL_92337.1 | |
HL_6NQB_015 | 1/A/726:731 | GNRA | homologous HL_4LFB_016 HL_34789.1 | |
HL_6NQB_018 | 1/A/897:902 | GNRA | homologous HL_6CZR_091 NA | |
HL_6NQB_019 | 1/A/962:973 | No text annotation | geometric HL_4V9F_003 HL_75660.6 | |
HL_6NQB_022 | 1/A/1076:1081 | GNRA | homologous HL_5J7L_023 NA | |
HL_6NQB_023 | 1/A/1089:1096 | T-loop related | homologous HL_5J7L_024 NA |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
HL_6NQB_002 | No text annotation | ||
HL_6NQB_029 | No text annotation | ||
HL_6NQB_030 | No text annotation | ||
HL_6NQB_006 | No text annotation | ||
HL_6NQB_008 | No text annotation | ||
HL_6NQB_009 | UNCG | ||
HL_6NQB_016 | No text annotation | ||
HL_6NQB_017 | No text annotation | ||
HL_6NQB_034 | No text annotation | ||
HL_6NQB_032 | GNRA with extra near cWW | ||
HL_6NQB_020 | No text annotation | ||
HL_6NQB_021 | No text annotation | ||
HL_6NQB_024 | No text annotation | ||
HL_6NQB_025 | GNRA | ||
HL_6NQB_026 | No text annotation | ||
HL_6NQB_027 | T-loop with 3 stacked bulged bases | ||
HL_6NQB_028 | No text annotation | ||
HL_6NQB_035 | No text annotation |
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
IL_6NQB_001 | 1/A/30:32, 1/A/552:553 | Single bulged G | homologous IL_5J7L_001 NA | |
IL_6NQB_002 | 1/A/43:45, 1/A/396:399 | Isolated non-canonical cWW pair | geometric IL_5TBW_008 NA | |
IL_6NQB_003 | 1/A/54:56, 1/A/356:357 | Minor groove platform | homologous IL_4LFB_004 IL_34520.1 | |
IL_6NQB_004 | 1/A/63:66, 1/A/103:104 | Multiple bulged bases | homologous IL_6CZR_117 NA | |
IL_6NQB_046 | 1/A/67:69, 1/A/99:102 | Minor groove platform with extra cWW | homologous IL_5J7L_006 NA | |
IL_6NQB_060 | 1/A/128:131, 1/A/231:233 | Isolated non-canonical cWW pair | homologous IL_5J7L_009 NA | |
IL_6NQB_009 | 1/A/132:136, 1/A/227:230 | No text annotation | geometric IL_4LFB_008 IL_60988.1 | |
IL_6NQB_011 | 1/A/147:153, 1/A/168:175 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
IL_6NQB_061 | 1/A/203:206, 1/A/213:214 | No text annotation | ||
IL_6NQB_013 | 1/A/242:247, 1/A/277:284 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
IL_6NQB_014 | 1/A/249:252, 1/A/274:275 | No text annotation | homologous IL_4LFB_012 IL_22002.1 | |
IL_6NQB_049 | 1/A/290:295, 1/A/302:310 | No text annotation | ||
IL_6NQB_015 | 1/A/292:295, 1/A/302:308 | No text annotation | ||
IL_6NQB_050 | 1/A/319:321, 1/A/333:334 | Single stack bend | geometric IL_7A0S_054 IL_15011.1 | |
IL_6NQB_016 | 1/A/367:375, 1/A/389:393 | No text annotation | ||
IL_6NQB_062 | 1/A/371:376, 1/A/387:390 | No text annotation | ||
IL_6NQB_017 | 1/A/375:376, 1/A/387:389 | Single bulged G | homologous IL_5J7L_019 NA | |
IL_6NQB_019 | 1/A/440:442, 1/A/492:497 | No text annotation | homologous IL_5J7L_021 NA | |
IL_6NQB_020 | 1/A/445:450, 1/A/483:489 | No text annotation | ||
IL_6NQB_021 | 1/A/450:455, 1/A/477:483 | No text annotation | geometric IL_5J7L_023 NA | |
IL_6NQB_022 | 1/A/504:511, 1/A/540:541 | SSU/LSU pseudoknot | homologous IL_4LFB_020 IL_11411.1 | |
IL_6NQB_023 | 1/A/515:521, 1/A/528:536 | Kink-turn related | geometric IL_4V88_415 NA | |
IL_6NQB_024 | 1/A/578:584, 1/A/757:763 | No text annotation | ||
IL_6NQB_025 | 1/A/594:598, 1/A/640:645 | No text annotation | ||
IL_6NQB_026 | 1/A/605:612, 1/A/628:633 | No text annotation | homologous IL_5J7L_030 NA | |
IL_6NQB_027 | 1/A/654:655, 1/A/751:754 | Major groove platform; stack outside cWW | homologous IL_4LFB_027 IL_74641.1 | |
IL_6NQB_028 | 1/A/658:660, 1/A/745:748 | No text annotation | geometric IL_4P3T_002 NA | |
IL_6NQB_029 | 1/A/662:666, 1/A/740:743 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
IL_6NQB_031 | 1/A/824:829, 1/A/857:876 | No text annotation | ||
IL_6NQB_032 | 1/A/887:894, 1/A/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_4LFB_034 IL_84044.1 | |
IL_6NQB_033 | 1/A/925:930, 1/A/1387:1391 | No text annotation | ||
IL_6NQB_054 | 1/A/955:984, 1/A/1221:1225 | No text annotation | ||
IL_6NQB_038 | 1/A/1061:1063, 1/A/1193:1195 | Isolated non-canonical cWW pair | homologous IL_5J7L_050 NA |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
IL_6NQB_005 | No text annotation | ||
IL_6NQB_006 | No text annotation | ||
IL_6NQB_059 | Minor groove platform | ||
IL_6NQB_007 | Single bulged G | ||
IL_6NQB_008 | Tandem non-canonical cWW pairs | ||
IL_6NQB_047 | No text annotation | ||
IL_6NQB_010 | Isolated cWH basepair | ||
IL_6NQB_048 | No text annotation | ||
IL_6NQB_012 | No text annotation | ||
IL_6NQB_051 | No text annotation | ||
IL_6NQB_018 | No text annotation | ||
IL_6NQB_052 | No text annotation | ||
IL_6NQB_030 | No text annotation | ||
IL_6NQB_053 | 9x7 Sarcin-Ricin with inserted C; G-bulge | ||
IL_6NQB_034 | No text annotation | ||
IL_6NQB_063 | Isolated non-canonical cWW pair | ||
IL_6NQB_055 | Tandem non-canonical cWW pairs | ||
IL_6NQB_064 | No text annotation | ||
IL_6NQB_056 | No text annotation | ||
IL_6NQB_035 | No text annotation | ||
IL_6NQB_036 | No text annotation | ||
IL_6NQB_037 | Self complementary | ||
IL_6NQB_065 | Single bulged U | ||
IL_6NQB_039 | No text annotation | ||
IL_6NQB_057 | Minor groove platform | ||
IL_6NQB_040 | No text annotation | ||
IL_6NQB_041 | No text annotation | ||
IL_6NQB_042 | No text annotation | ||
IL_6NQB_043 | No text annotation | ||
IL_6NQB_044 | Double sheared with non-canonical cWW | ||
IL_6NQB_045 | No text annotation | ||
IL_6NQB_058 | No text annotation |
Valid loops
3D | Loop id | Location | Annotation; motif group | Mapped info |
---|---|---|---|---|
J3_6NQB_001 | 1/A/46:52, 1/A/359:367, 1/A/393:395 | No text annotation | geometric J3_5J7L_050 NA | |
J3_6NQB_009 | 1/A/46:52, 1/A/359:369, 1/A/392:395 | No text annotation | ||
J3_6NQB_002 | 1/A/586:588, 1/A/651:654, 1/A/754:755 | No text annotation | geometric J3_4LFB_011 J3_01633.1 | |
J3_6NQB_017 | 1/A/586:588, 1/A/651:655, 1/A/751:755 | No text annotation | homologous J3_4LFB_015 J3_17385.5 | |
J3_6NQB_018 | 1/A/933:939, 1/A/1344:1350, 1/A/1372:1384 | No text annotation | ||
J3_6NQB_006 | 1/A/1063:1068, 1/A/1107:1113, 1/A/1187:1193 | No text annotation | homologous J3_4LFB_007 J3_01343.1 | |
J3_6NQB_020 | 1/A/1073:1075, 1/A/1082:1086, 1/A/1099:1102 | No text annotation | ||
J3_6NQB_021 | 1/A/1116:1121, 1/A/1152:1158, 1/A/1181:1184 | No text annotation | ||
J3_6NQB_022 | 1/A/1116:1121, 1/A/1152:1161, 1/A/1175:1184 | No text annotation | ||
J4_6NQB_001 | 1/A/141:144, 1/A/178:184, 1/A/193:198, 1/A/219:222 | No text annotation | ||
J5_6NQB_001 | 1/A/36:45, 1/A/396:406, 1/A/436:440, 1/A/497:500, 1/A/545:548 | No text annotation | ||
J5_6NQB_002 | 1/A/36:45, 1/A/396:406, 1/A/436:442, 1/A/492:500, 1/A/545:548 | No text annotation | ||
J7_6NQB_002 | 1/A/58:61, 1/A/106:123, 1/A/238:240, 1/A/286:289, 1/A/311:316, 1/A/337:339, 1/A/350:354 | No text annotation |
Problematic loops
# | loop id | Problem | Sequence |
---|---|---|---|
J3_6NQB_010 | No text annotation | ||
J3_6NQB_011 | No text annotation | ||
J3_6NQB_012 | No text annotation | ||
J3_6NQB_013 | No text annotation | ||
J3_6NQB_003 | No text annotation | ||
J3_6NQB_004 | No text annotation | ||
J3_6NQB_005 | No text annotation | ||
J3_6NQB_019 | No text annotation | ||
J3_6NQB_014 | No text annotation | ||
J3_6NQB_007 | No text annotation | ||
J3_6NQB_008 | No text annotation | ||
J3_6NQB_015 | No text annotation | ||
J3_6NQB_016 | No text annotation | ||
J7_6NQB_001 | No text annotation |
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