5AJ3 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_5AJ3_001 | 1/A/8:18 | No text annotation | homologous HL_4LFB_001 HL_89881.5 | |
| HL_5AJ3_002 | 1/A/56:61 | No text annotation | geometric HL_7RQB_011 NA | |
| HL_5AJ3_003 | 1/A/89:93 | UNCG variation | geometric HL_8S95_003 HL_53890.2 | |
| HL_5AJ3_004 | 1/A/122:129 | No text annotation | ||
| HL_5AJ3_005 | 1/A/147:153 | No text annotation | geometric HL_5J7L_018 HL_37344.1 | |
| HL_5AJ3_006 | 1/A/160:165 | No text annotation | ||
| HL_5AJ3_007 | 1/A/198:203 | GNRA | homologous HL_4LFB_010 HL_37824.8 | |
| HL_5AJ3_008 | 1/A/248:253 | GNRA | geometric HL_1G1X_003 HL_37824.8 | |
| HL_5AJ3_009 | 1/A/342:351 | No text annotation | homologous HL_4LFB_015 HL_75293.5 | |
| HL_5AJ3_010 | 1/A/376:381 | GNRA | homologous HL_5J7L_016 HL_37824.8 | |
| HL_5AJ3_011 | 1/A/426:436 | No text annotation | homologous HL_4LFB_017 HL_75293.5 | |
| HL_5AJ3_023 | 1/A/467:477 | No text annotation | ||
| HL_5AJ3_013 | 1/A/501:506 | Mini UNCG | geometric HL_4ZLD_001 HL_56334.1 | |
| HL_5AJ3_014 | 1/A/568:577 | No text annotation | homologous HL_5J7L_021 HL_50779.4 | |
| HL_5AJ3_015 | 1/A/598:605 | No text annotation | ||
| HL_5AJ3_016 | 1/A/636:641 | Mini UNCG | geometric HL_5AH5_007 HL_48778.2 | |
| HL_5AJ3_017 | 1/A/664:670 | Pseudoknot geometry | geometric HL_4GXY_003 HL_65794.5 | |
| HL_5AJ3_018 | 1/A/728:734 | No text annotation | geometric HL_4V9F_011 HL_75660.5 | |
| HL_5AJ3_019 | 1/A/760:767 | T-loop with 2 stacked bulged bases | geometric HL_4V9F_010 HL_01609.3 | |
| HL_5AJ3_020 | 1/A/800:810 | No text annotation | homologous HL_4LFB_030 HL_06226.4 | |
| HL_5AJ3_021 | 1/A/881:887 | No text annotation | ||
| HL_5AJ3_022 | 1/A/941:946 | GNRA | homologous HL_4LFB_032 HL_37824.8 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_5AJ3_012 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_5AJ3_001 | 1/A/3:5, 1/A/21:22 | No text annotation | ||
| IL_5AJ3_002 | 1/A/39:40, 1/A/215:217 | Single bulged A | homologous IL_5J7L_002 IL_31462.7 | |
| IL_5AJ3_003 | 1/A/44:46, 1/A/178:179 | Single bulged A | geometric IL_6WPI_001 IL_31462.7 | |
| IL_5AJ3_004 | 1/A/48:50, 1/A/175:176 | Minor groove platform | homologous IL_4LFB_004 IL_51454.3 | |
| IL_5AJ3_005 | 1/A/78:79, 1/A/103:105 | Minor groove platform | geometric IL_5ML7_009 IL_51454.3 | |
| IL_5AJ3_006 | 1/A/81:85, 1/A/97:101 | Double sheared with non-canonical cWW | geometric IL_5J7L_274 IL_17948.2 | |
| IL_5AJ3_007 | 1/A/110:115, 1/A/135:142 | Kink-turn with non-sequential stacking | geometric IL_4LFB_011 IL_46174.3 | |
| IL_5AJ3_008 | 1/A/116:119, 1/A/133:134 | Major groove platform; stack outside cWW | geometric IL_1NTA_003 IL_50694.7 | |
| IL_5AJ3_045 | 1/A/116:120, 1/A/131:134 | No text annotation | ||
| IL_5AJ3_009 | 1/A/119:120, 1/A/131:133 | No text annotation | ||
| IL_5AJ3_010 | 1/A/186:189, 1/A/210:212 | Isolated non-canonical cWW pair | geometric IL_5UNE_004 IL_57744.1 | |
| IL_5AJ3_011 | 1/A/190:194, 1/A/208:209 | C-loop | geometric IL_5J7L_018 IL_03109.3 | |
| IL_5AJ3_012 | 1/A/194:195, 1/A/206:208 | Single bulged G | homologous IL_5J7L_019 IL_00225.14 | |
| IL_5AJ3_013 | 1/A/226:228, 1/A/269:271 | No text annotation | geometric IL_3LA5_001 NA | |
| IL_5AJ3_014 | 1/A/230:239, 1/A/264:267 | No text annotation | ||
| IL_5AJ3_015 | 1/A/241:247, 1/A/254:262 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_5AJ3_016 | 1/A/290:296, 1/A/484:485 | No text annotation | homologous IL_5J7L_026 IL_38186.6 | |
| IL_5AJ3_017 | 1/A/301:305, 1/A/397:401 | UAA/GAN | geometric IL_4V9F_037 IL_38507.2 | |
| IL_5AJ3_046 | 1/A/306:321, 1/A/389:396 | No text annotation | ||
| IL_5AJ3_018 | 1/A/327:334, 1/A/360:367 | No text annotation | ||
| IL_5AJ3_019 | 1/A/339:341, 1/A/352:355 | No text annotation | ||
| IL_5AJ3_020 | 1/A/373:375, 1/A/382:383 | Other IL | geometric IL_3WBM_004 IL_81831.1 | |
| IL_5AJ3_021 | 1/A/414:418, 1/A/444:445 | Left turn | homologous IL_5J7L_036 IL_29346.2 | |
| IL_5AJ3_022 | 1/A/419:423, 1/A/439:443 | tSH-tHW-tHS | homologous IL_5J7L_037 IL_17136.7 | |
| IL_5AJ3_023 | 1/A/491:500, 1/A/507:514 | 10x8 Sarcin-Ricin; G-bulge | geometric IL_6UFM_002 IL_43547.1 | |
| IL_5AJ3_024 | 1/A/526:527, 1/A/837:839 | Single bulged A | homologous IL_5J7L_039 IL_31462.7 | |
| IL_5AJ3_025 | 1/A/529:531, 1/A/834:835 | Single bulged G | homologous IL_4LFB_036 IL_00225.14 | |
| IL_5AJ3_026 | 1/A/537:541, 1/A/824:828 | C-loop | geometric IL_8HNT_002 IL_63596.11 | |
| IL_5AJ3_027 | 1/A/559:560, 1/A/710:712 | Minor groove platform | homologous IL_4LFB_038 IL_51454.3 | |
| IL_5AJ3_047 | 1/A/595:607, 1/A/695:700 | No text annotation | ||
| IL_5AJ3_028 | 1/A/608:610, 1/A/693:694 | Single bulged U | homologous IL_4LFB_042 IL_89505.4 | |
| IL_5AJ3_029 | 1/A/612:616, 1/A/689:691 | Isolated cWS basepair | homologous IL_4LFB_044 IL_76319.5 | |
| IL_5AJ3_030 | 1/A/617:618, 1/A/684:688 | Minor groove platform | homologous IL_6CZR_155 NA | |
| IL_5AJ3_031 | 1/A/620:621, 1/A/680:682 | Single bulged A | homologous IL_5J7L_049 IL_31462.7 | |
| IL_5AJ3_032 | 1/A/621:623, 1/A/678:680 | Isolated non-canonical cWW pair | geometric IL_5J7L_050 IL_28037.2 | |
| IL_5AJ3_033 | 1/A/629:632, 1/A/652:655 | Tandem non-canonical cWW pairs | geometric IL_5C5W_001 IL_77658.1 | |
| IL_5AJ3_034 | 1/A/633:634, 1/A/643:651 | No text annotation | geometric IL_8S95_001 IL_73452.2 | |
| IL_5AJ3_035 | 1/A/749:754, 1/A/773:778 | No text annotation | ||
| IL_5AJ3_036 | 1/A/843:845, 1/A/927:930 | No text annotation | geometric IL_5J7L_058 IL_61438.4 | |
| IL_5AJ3_037 | 1/A/845:848, 1/A/923:927 | No text annotation | geometric IL_4V88_464 NA | |
| IL_5AJ3_038 | 1/A/849:851, 1/A/920:922 | Isolated non-canonical cWW pair | geometric IL_5MWI_002 IL_87907.2 | |
| IL_5AJ3_039 | 1/A/851:855, 1/A/915:920 | No text annotation | ||
| IL_5AJ3_049 | 1/A/857:859, 1/A/911:913 | Isolated non-canonical cWW pair | homologous IL_6CZR_411 NA | |
| IL_5AJ3_041 | 1/A/860:863, 1/A/907:910 | Double sheared | geometric IL_4V88_468 NA | |
| IL_5AJ3_042 | 1/A/867:868, 1/A/901:903 | Major groove platform | geometric IL_3SUX_002 IL_48076.6 | |
| IL_5AJ3_043 | 1/A/868:870, 1/A/897:901 | No text annotation | ||
| IL_5AJ3_048 | 1/A/874:878, 1/A/890:893 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_5AJ3_040 | Tandem non-canonical cWW pairs | ||
| IL_5AJ3_044 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_5AJ3_001 | 1/A/31:34, 1/A/222:226, 1/A/271:274 | No text annotation | ||
| J3_5AJ3_002 | 1/A/41:44, 1/A/179:186, 1/A/212:214 | No text annotation | ||
| J3_5AJ3_008 | 1/A/326:327, 1/A/367:373, 1/A/383:384 | No text annotation | ||
| J3_5AJ3_009 | 1/A/542:545, 1/A/788:794, 1/A/816:823 | No text annotation | homologous J3_5J7L_052 J3_25303.4 | |
| J3_5AJ3_003 | 1/A/549:552, 1/A/719:721, 1/A/781:784 | No text annotation | homologous J3_4LFB_003 J3_52655.4 | |
| J3_5AJ3_004 | 1/A/561:567, 1/A/578:589, 1/A/706:709 | No text annotation | ||
| J3_5AJ3_005 | 1/A/595:598, 1/A/605:607, 1/A/695:700 | No text annotation | homologous J3_5J7L_007 J3_82572.1 | |
| J3_5AJ3_006 | 1/A/623:628, 1/A/656:663, 1/A/671:678 | No text annotation | ||
| J3_5AJ3_010 | 1/A/721:725, 1/A/737:749, 1/A/778:781 | No text annotation | ||
| J4_5AJ3_001 | 1/A/52:55, 1/A/62:69, 1/A/156:158, 1/A/167:173 | No text annotation | ||
| J4_5AJ3_002 | 1/A/71:77, 1/A/106:108, 1/A/144:147, 1/A/153:154 | No text annotation | ||
| J4_5AJ3_003 | 1/A/296:298, 1/A/404:409, 1/A/450:461, 1/A/483:484 | No text annotation | homologous J4_5J7L_003 J4_61885.6 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_5AJ3_007 | No text annotation |
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