6GAZ Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6GAZ_001 | 1/AA/8:18 | No text annotation | homologous HL_4LFB_001 HL_73535.1 | |
| HL_6GAZ_002 | 1/AA/56:61 | No text annotation | geometric HL_5U3G_001 HL_75660.8 | |
| HL_6GAZ_003 | 1/AA/88:94 | No text annotation | geometric HL_7VTI_001 HL_89167.2 | |
| HL_6GAZ_004 | 1/AA/122:129 | No text annotation | ||
| HL_6GAZ_005 | 1/AA/147:153 | No text annotation | geometric HL_5J7L_018 NA | |
| HL_6GAZ_006 | 1/AA/160:165 | No text annotation | ||
| HL_6GAZ_007 | 1/AA/198:203 | GNRA | homologous HL_4LFB_010 HL_34789.4 | |
| HL_6GAZ_008 | 1/AA/248:253 | GNRA | geometric HL_1G1X_003 NA | |
| HL_6GAZ_009 | 1/AA/342:351 | No text annotation | homologous HL_4LFB_015 HL_38491.2 | |
| HL_6GAZ_010 | 1/AA/376:381 | GNRA | homologous HL_5J7L_016 NA | |
| HL_6GAZ_011 | 1/AA/426:436 | No text annotation | homologous HL_5J7L_017 NA | |
| HL_6GAZ_012 | 1/AA/467:477 | No text annotation | ||
| HL_6GAZ_013 | 1/AA/501:506 | Mini UNCG | geometric HL_6TQB_001 HL_12626.2 | |
| HL_6GAZ_014 | 1/AA/568:577 | No text annotation | homologous HL_5J7L_021 NA | |
| HL_6GAZ_015 | 1/AA/598:605 | No text annotation | geometric HL_4KR9_003 HL_16651.1 | |
| HL_6GAZ_016 | 1/AA/636:641 | Mini UNCG | geometric HL_5TBW_040 NA | |
| HL_6GAZ_017 | 1/AA/664:670 | Pseudoknot geometry | geometric HL_4GXY_003 HL_97725.1 | |
| HL_6GAZ_018 | 1/AA/728:734 | No text annotation | geometric HL_5NFV_001 HL_69752.4 | |
| HL_6GAZ_020 | 1/AA/760:767 | T-loop with 2 stacked bulged bases | geometric HL_5DH6_002 HL_13999.3 | |
| HL_6GAZ_021 | 1/AA/800:810 | No text annotation | homologous HL_4LFB_030 HL_86432.1 | |
| HL_6GAZ_022 | 1/AA/881:887 | UNCG | geometric HL_6JQ6_004 HL_61337.4 | |
| HL_6GAZ_023 | 1/AA/941:946 | GNRA | homologous HL_4LFB_032 HL_34789.4 | |
| HL_6GAZ_024 | 1/AV/13:19 | tRNA D-loop | geometric HL_2CSX_001 HL_37101.1 | |
| HL_6GAZ_025 | 1/AV/28:36 | tRNA anticodon loop | geometric HL_4TUE_034 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6GAZ_019 | No text annotation | ||
| HL_6GAZ_027 | No text annotation | ||
| HL_6GAZ_026 | T-loop with 2 bulged bases not stacked |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6GAZ_001 | 1/AA/3:5, 1/AA/21:22 | No text annotation | ||
| IL_6GAZ_002 | 1/AA/39:40, 1/AA/215:217 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_6GAZ_003 | 1/AA/44:46, 1/AA/178:179 | Single bulged A | geometric IL_6WPI_001 IL_14190.2 | |
| IL_6GAZ_004 | 1/AA/48:50, 1/AA/175:176 | Minor groove platform | homologous IL_5J7L_004 NA | |
| IL_6GAZ_005 | 1/AA/78:79, 1/AA/103:105 | Minor groove platform | geometric IL_5ML7_009 IL_34520.3 | |
| IL_6GAZ_006 | 1/AA/81:85, 1/AA/97:101 | Double sheared with non-canonical cWW | geometric IL_5J7L_274 NA | |
| IL_6GAZ_007 | 1/AA/110:115, 1/AA/135:142 | Kink-turn with non-sequential stacking | geometric IL_4LFB_011 IL_46174.4 | |
| IL_6GAZ_008 | 1/AA/116:119, 1/AA/133:134 | Major groove platform; stack outside cWW | geometric IL_1NTA_003 IL_74641.2 | |
| IL_6GAZ_046 | 1/AA/116:120, 1/AA/131:134 | No text annotation | ||
| IL_6GAZ_009 | 1/AA/119:120, 1/AA/131:133 | No text annotation | ||
| IL_6GAZ_010 | 1/AA/186:189, 1/AA/210:212 | Isolated non-canonical cWW pair | geometric IL_5UNE_003 IL_01003.4 | |
| IL_6GAZ_011 | 1/AA/190:194, 1/AA/208:209 | C-loop | geometric IL_5J7L_018 NA | |
| IL_6GAZ_012 | 1/AA/194:195, 1/AA/206:208 | Single bulged G | homologous IL_5J7L_019 NA | |
| IL_6GAZ_013 | 1/AA/226:228, 1/AA/269:271 | No text annotation | geometric IL_3LA5_001 NA | |
| IL_6GAZ_014 | 1/AA/230:239, 1/AA/264:267 | No text annotation | ||
| IL_6GAZ_015 | 1/AA/241:247, 1/AA/254:262 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_6GAZ_016 | 1/AA/290:296, 1/AA/484:485 | No text annotation | homologous IL_5J7L_026 NA | |
| IL_6GAZ_017 | 1/AA/301:305, 1/AA/397:401 | UAA/GAN | geometric IL_4V9F_037 IL_08938.1 | |
| IL_6GAZ_047 | 1/AA/306:321, 1/AA/389:396 | No text annotation | ||
| IL_6GAZ_050 | 1/AA/327:334, 1/AA/360:367 | No text annotation | ||
| IL_6GAZ_019 | 1/AA/339:341, 1/AA/352:355 | No text annotation | ||
| IL_6GAZ_020 | 1/AA/373:375, 1/AA/382:383 | Other IL | geometric IL_3WBM_004 IL_18188.1 | |
| IL_6GAZ_021 | 1/AA/414:418, 1/AA/444:445 | Left turn | homologous IL_5J7L_036 NA | |
| IL_6GAZ_022 | 1/AA/419:423, 1/AA/439:443 | tSH-tHW-tHS | homologous IL_5J7L_037 NA | |
| IL_6GAZ_023 | 1/AA/491:500, 1/AA/507:514 | 10x8 Sarcin-Ricin; G-bulge | geometric IL_6UFH_002 IL_22278.1 | |
| IL_6GAZ_024 | 1/AA/526:527, 1/AA/837:839 | Single bulged A | homologous IL_4LFB_035 IL_14190.2 | |
| IL_6GAZ_025 | 1/AA/529:531, 1/AA/834:835 | Single bulged G | homologous IL_4LFB_036 IL_28408.2 | |
| IL_6GAZ_026 | 1/AA/537:541, 1/AA/824:828 | No text annotation | ||
| IL_6GAZ_027 | 1/AA/559:560, 1/AA/710:712 | Minor groove platform | homologous IL_4LFB_038 IL_34520.3 | |
| IL_6GAZ_048 | 1/AA/595:607, 1/AA/695:700 | No text annotation | ||
| IL_6GAZ_028 | 1/AA/608:610, 1/AA/693:694 | Single bulged U | homologous IL_4LFB_042 IL_97561.5 | |
| IL_6GAZ_029 | 1/AA/612:616, 1/AA/689:691 | Isolated cWS basepair | homologous IL_4LFB_044 IL_82453.1 | |
| IL_6GAZ_030 | 1/AA/617:618, 1/AA/684:688 | Minor groove platform | homologous IL_6CZR_155 NA | |
| IL_6GAZ_031 | 1/AA/620:621, 1/AA/680:682 | Single bulged A | geometric IL_5J7L_049 NA | |
| IL_6GAZ_032 | 1/AA/621:623, 1/AA/678:680 | Isolated non-canonical cWW pair | homologous IL_5J7L_050 NA | |
| IL_6GAZ_033 | 1/AA/629:632, 1/AA/652:655 | Double sheared | geometric IL_4ZNP_002 IL_58355.2 | |
| IL_6GAZ_034 | 1/AA/633:634, 1/AA/643:651 | No text annotation | geometric IL_8S95_001 IL_25652.1 | |
| IL_6GAZ_035 | 1/AA/749:754, 1/AA/773:778 | No text annotation | ||
| IL_6GAZ_036 | 1/AA/843:845, 1/AA/927:930 | No text annotation | homologous IL_5J7L_058 NA | |
| IL_6GAZ_037 | 1/AA/845:848, 1/AA/923:927 | No text annotation | geometric IL_4V88_464 NA | |
| IL_6GAZ_038 | 1/AA/849:851, 1/AA/920:922 | Isolated non-canonical cWW pair | geometric IL_5VCI_002 IL_01003.4 | |
| IL_6GAZ_039 | 1/AA/851:855, 1/AA/915:920 | Partly complementary | homologous IL_6CZR_167 NA | |
| IL_6GAZ_040 | 1/AA/857:859, 1/AA/911:913 | Isolated non-canonical cWW pair | homologous IL_5J7L_061 NA | |
| IL_6GAZ_041 | 1/AA/860:863, 1/AA/907:910 | Double sheared | homologous IL_6CZR_169 NA | |
| IL_6GAZ_042 | 1/AA/867:870, 1/AA/897:903 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6GAZ_018 | No text annotation | ||
| IL_6GAZ_043 | No text annotation | ||
| IL_6GAZ_044 | Tandem non-canonical cWW pairs | ||
| IL_6GAZ_049 | Isolated non-canonical cWW pair | ||
| IL_6GAZ_045 | Tandem non-canonical cWW pairs |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6GAZ_001 | 1/AA/31:34, 1/AA/222:226, 1/AA/271:274 | No text annotation | ||
| J3_6GAZ_002 | 1/AA/41:44, 1/AA/179:186, 1/AA/212:214 | No text annotation | ||
| J3_6GAZ_003 | 1/AA/326:327, 1/AA/367:373, 1/AA/383:384 | No text annotation | ||
| J3_6GAZ_008 | 1/AA/542:545, 1/AA/788:794, 1/AA/816:823 | No text annotation | homologous J3_5J7L_052 NA | |
| J3_6GAZ_004 | 1/AA/549:552, 1/AA/719:721, 1/AA/781:784 | No text annotation | homologous J3_4LFB_003 J3_44359.1 | |
| J3_6GAZ_005 | 1/AA/561:567, 1/AA/578:589, 1/AA/706:709 | No text annotation | ||
| J3_6GAZ_006 | 1/AA/595:598, 1/AA/605:607, 1/AA/695:700 | No text annotation | homologous J3_5J7L_007 NA | |
| J3_6GAZ_007 | 1/AA/623:628, 1/AA/656:663, 1/AA/671:678 | No text annotation | ||
| J3_6GAZ_009 | 1/AA/721:725, 1/AA/737:749, 1/AA/778:781 | No text annotation | ||
| J4_6GAZ_001 | 1/AA/52:55, 1/AA/62:69, 1/AA/156:158, 1/AA/167:173 | No text annotation | ||
| J4_6GAZ_002 | 1/AA/71:77, 1/AA/106:108, 1/AA/144:147, 1/AA/153:154 | No text annotation | ||
| J4_6GAZ_003 | 1/AA/296:298, 1/AA/404:409, 1/AA/450:461, 1/AA/483:484 | No text annotation | homologous J4_5J7L_003 NA | |
| J4_6GAZ_004 | 1/AV/7:10, 1/AV/22:24, 1/AV/40:45, 1/AV/60:61 | No text annotation |
Problematic loops
No problematic loops
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