5AKA Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
No loops found
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_5AKA_001 | No text annotation | ||
| HL_5AKA_073 | No text annotation | ||
| HL_5AKA_002 | No text annotation | ||
| HL_5AKA_003 | Mini UNCG | ||
| HL_5AKA_004 | No text annotation | ||
| HL_5AKA_005 | No text annotation | ||
| HL_5AKA_006 | No text annotation | ||
| HL_5AKA_007 | No text annotation | ||
| HL_5AKA_008 | No text annotation | ||
| HL_5AKA_009 | No text annotation | ||
| HL_5AKA_010 | No text annotation | ||
| HL_5AKA_011 | No text annotation | ||
| HL_5AKA_012 | No text annotation | ||
| HL_5AKA_074 | T-loop with 1 bulged base | ||
| HL_5AKA_075 | No text annotation | ||
| HL_5AKA_013 | No text annotation | ||
| HL_5AKA_014 | No text annotation | ||
| HL_5AKA_015 | No text annotation | ||
| HL_5AKA_016 | Pseudoknot geometry | ||
| HL_5AKA_017 | GNRA | ||
| HL_5AKA_018 | GNRA | ||
| HL_5AKA_019 | No text annotation | ||
| HL_5AKA_020 | T-loop with 2 stacked bulged bases | ||
| HL_5AKA_021 | No text annotation | ||
| HL_5AKA_022 | GNRA | ||
| HL_5AKA_023 | GNRA | ||
| HL_5AKA_024 | GNRA wlth tandem sheared | ||
| HL_5AKA_025 | No text annotation | ||
| HL_5AKA_026 | UNCG variation | ||
| HL_5AKA_027 | No text annotation | ||
| HL_5AKA_028 | Externally structured | ||
| HL_5AKA_029 | GNRA | ||
| HL_5AKA_030 | No text annotation | ||
| HL_5AKA_031 | No text annotation | ||
| HL_5AKA_032 | GNRA wlth tandem sheared | ||
| HL_5AKA_033 | No text annotation | ||
| HL_5AKA_034 | GNRA | ||
| HL_5AKA_035 | T-loop with 2 stacked bulged bases | ||
| HL_5AKA_036 | Pseudoknot geometry with 3' bulge | ||
| HL_5AKA_037 | GNRA | ||
| HL_5AKA_038 | No text annotation | ||
| HL_5AKA_039 | No text annotation | ||
| HL_5AKA_040 | Pseudoknot geometry with 3' bulge | ||
| HL_5AKA_041 | No text annotation | ||
| HL_5AKA_076 | No text annotation | ||
| HL_5AKA_042 | No text annotation | ||
| HL_5AKA_043 | No text annotation | ||
| HL_5AKA_044 | GNRA | ||
| HL_5AKA_045 | UNCG | ||
| HL_5AKA_046 | No text annotation | ||
| HL_5AKA_047 | No text annotation | ||
| HL_5AKA_048 | No text annotation | ||
| HL_5AKA_049 | GNRA related | ||
| HL_5AKA_050 | GNRA variation | ||
| HL_5AKA_051 | No text annotation | ||
| HL_5AKA_052 | No text annotation | ||
| HL_5AKA_053 | No text annotation | ||
| HL_5AKA_054 | No text annotation | ||
| HL_5AKA_055 | No text annotation | ||
| HL_5AKA_056 | No text annotation | ||
| HL_5AKA_057 | No text annotation | ||
| HL_5AKA_058 | No text annotation | ||
| HL_5AKA_077 | No text annotation | ||
| HL_5AKA_059 | Pseudoknot geometry | ||
| HL_5AKA_060 | GNRA | ||
| HL_5AKA_061 | GNRA | ||
| HL_5AKA_062 | No text annotation | ||
| HL_5AKA_063 | No text annotation | ||
| HL_5AKA_064 | GNRA variation | ||
| HL_5AKA_065 | No text annotation | ||
| HL_5AKA_066 | GNRA | ||
| HL_5AKA_067 | GNRA | ||
| HL_5AKA_068 | Ribsomal LSU H95 | ||
| HL_5AKA_069 | No text annotation | ||
| HL_5AKA_070 | Externally structured | ||
| HL_5AKA_071 | No text annotation | ||
| HL_5AKA_072 | GNRA |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_5AKA_024 | 1/B/291:295, 1/B/343:349 | No text annotation | ||
| IL_5AKA_055 | 1/B/1196:1198, 1/B/1247:1250 | Isolated cWS basepair | homologous IL_5J7L_286 NA | |
| IL_5AKA_088 | 1/B/2050:2052, 1/B/2617:2618 | Major groove platform | homologous IL_5J7L_320 NA | |
| IL_5AKA_089 | 1/B/2054:2056, 1/B/2612:2615 | No text annotation | homologous IL_5J7L_321 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_5AKA_001 | No text annotation | ||
| IL_5AKA_002 | Isolated non-canonical cWW pair | ||
| IL_5AKA_119 | No text annotation | ||
| IL_5AKA_127 | No text annotation | ||
| IL_5AKA_003 | Tandem non-canonical cWW pairs | ||
| IL_5AKA_004 | No text annotation | ||
| IL_5AKA_120 | No text annotation | ||
| IL_5AKA_005 | No text annotation | ||
| IL_5AKA_121 | No text annotation | ||
| IL_5AKA_006 | tSH-tHW-tHS-cWW | ||
| IL_5AKA_007 | Major groove intercalation | ||
| IL_5AKA_008 | No text annotation | ||
| IL_5AKA_009 | Minor groove platform | ||
| IL_5AKA_010 | Symmetric double minor groove platform | ||
| IL_5AKA_011 | Bacterial 5S Loop E | ||
| IL_5AKA_012 | Triple sheared with non-canonical cWW | ||
| IL_5AKA_013 | Single bulged A | ||
| IL_5AKA_014 | Minor groove platform | ||
| IL_5AKA_015 | No text annotation | ||
| IL_5AKA_016 | Single stack bend | ||
| IL_5AKA_017 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_5AKA_018 | 7x6 Sarcin-Ricin; G-bulge | ||
| IL_5AKA_019 | No text annotation | ||
| IL_5AKA_020 | Isolated non-canonical cWW pair | ||
| IL_5AKA_122 | No text annotation | ||
| IL_5AKA_021 | No text annotation | ||
| IL_5AKA_022 | No text annotation | ||
| IL_5AKA_023 | Isolated non-canonical cWW pair | ||
| IL_5AKA_025 | Isolated non-canonical cWW pair | ||
| IL_5AKA_026 | No text annotation | ||
| IL_5AKA_027 | Double sheared | ||
| IL_5AKA_028 | Isolated non-canonical cWW pair | ||
| IL_5AKA_029 | AAA cross-strand stack | ||
| IL_5AKA_030 | Isolated non-canonical cWW pair | ||
| IL_5AKA_031 | tHW-tHW cross-strand stack | ||
| IL_5AKA_032 | Single bulged A | ||
| IL_5AKA_033 | Single bulged G | ||
| IL_5AKA_034 | Triple sheared | ||
| IL_5AKA_035 | Major groove platform | ||
| IL_5AKA_036 | Multiple bulged bases | ||
| IL_5AKA_037 | Single stack bend | ||
| IL_5AKA_038 | No text annotation | ||
| IL_5AKA_039 | Single stack bend | ||
| IL_5AKA_040 | Isolated non-canonical cWW pair | ||
| IL_5AKA_041 | 5x5 Sarcin-Ricin with intercalated A; G-bulge | ||
| IL_5AKA_042 | Single bulged G | ||
| IL_5AKA_043 | C-loop with bulged stacked A's | ||
| IL_5AKA_044 | Isolated non-canonical cWW pair | ||
| IL_5AKA_045 | Single bulged C | ||
| IL_5AKA_046 | UAA/GAN | ||
| IL_5AKA_047 | SSU/LSU pseudoknot | ||
| IL_5AKA_048 | Single bulged U | ||
| IL_5AKA_049 | Kink-turn related | ||
| IL_5AKA_050 | No text annotation | ||
| IL_5AKA_051 | Isolated non-canonical cWW pair | ||
| IL_5AKA_123 | No text annotation | ||
| IL_5AKA_128 | No text annotation | ||
| IL_5AKA_129 | No text annotation | ||
| IL_5AKA_124 | No text annotation | ||
| IL_5AKA_052 | Isolated non-canonical cWW pair | ||
| IL_5AKA_053 | No text annotation | ||
| IL_5AKA_054 | Major groove platform with extra cWW | ||
| IL_5AKA_056 | No text annotation | ||
| IL_5AKA_057 | Kink-turn | ||
| IL_5AKA_058 | 8x7 Sarcin-Ricin; G-bulge | ||
| IL_5AKA_059 | Major groove platform; stack outside cWW | ||
| IL_5AKA_060 | C-loop | ||
| IL_5AKA_061 | UAA/GAN | ||
| IL_5AKA_062 | tSH-tHW-tHS | ||
| IL_5AKA_063 | No text annotation | ||
| IL_5AKA_064 | UAA/GAN | ||
| IL_5AKA_065 | Tandem non-canonical cWW pairs | ||
| IL_5AKA_066 | tSH-tHW | ||
| IL_5AKA_067 | Tandem non-canonical cWW pairs | ||
| IL_5AKA_068 | No text annotation | ||
| IL_5AKA_069 | No text annotation | ||
| IL_5AKA_070 | Single bulged A | ||
| IL_5AKA_071 | Triple sheared related | ||
| IL_5AKA_072 | No text annotation | ||
| IL_5AKA_073 | Isolated tWW turn | ||
| IL_5AKA_074 | Major groove platform; stack outside cWW | ||
| IL_5AKA_125 | No text annotation | ||
| IL_5AKA_075 | Intercalated tWH | ||
| IL_5AKA_076 | tSH-tSH-tHH-tHS | ||
| IL_5AKA_077 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_5AKA_078 | Triple sheared | ||
| IL_5AKA_079 | Single bulged C | ||
| IL_5AKA_080 | Single bulged A | ||
| IL_5AKA_081 | Kink-turn related | ||
| IL_5AKA_082 | Minor groove platform, major groove intercalation | ||
| IL_5AKA_083 | Major groove intercalation | ||
| IL_5AKA_084 | Minor groove platform | ||
| IL_5AKA_126 | No text annotation | ||
| IL_5AKA_085 | UAA/GAN related | ||
| IL_5AKA_086 | Bulged stacked bases | ||
| IL_5AKA_087 | No text annotation | ||
| IL_5AKA_090 | Single bulged U | ||
| IL_5AKA_091 | Minor groove platform | ||
| IL_5AKA_092 | Isolated tHS basepair with bulges | ||
| IL_5AKA_093 | Isolated non-canonical cWW pair | ||
| IL_5AKA_094 | Stack and bulge | ||
| IL_5AKA_095 | Isolated non-canonical cWW pair | ||
| IL_5AKA_096 | Single bulged U | ||
| IL_5AKA_097 | Double sheared | ||
| IL_5AKA_098 | No text annotation | ||
| IL_5AKA_099 | Single stack bend | ||
| IL_5AKA_100 | Major groove platform | ||
| IL_5AKA_101 | Major groove platform | ||
| IL_5AKA_102 | Major groove minor groove platform with extra cWW | ||
| IL_5AKA_103 | Double sheared with non-canonical cWW | ||
| IL_5AKA_104 | Major groove platform | ||
| IL_5AKA_105 | Isolated non-canonical cWW with bulges | ||
| IL_5AKA_106 | No text annotation | ||
| IL_5AKA_107 | Major groove platform with intercalation | ||
| IL_5AKA_108 | Single bulged A | ||
| IL_5AKA_109 | tSH-tHS-tHW | ||
| IL_5AKA_110 | Sarcin-Ricin target in LSU H95; G-bulge | ||
| IL_5AKA_111 | C-loop | ||
| IL_5AKA_112 | UAA/GAN related, with intercalation | ||
| IL_5AKA_113 | Multiple bulged bases | ||
| IL_5AKA_114 | UAA/GAN with extra cWW | ||
| IL_5AKA_115 | No text annotation | ||
| IL_5AKA_116 | Major groove intercalation | ||
| IL_5AKA_117 | Multiple bulged bases with non-canonical cWW | ||
| IL_5AKA_118 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J4_5AKA_011 | 1/B/1441:1445, 1/B/1466:1478, 1/B/1513:1526, 1/B/1546:1550 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_5AKA_001 | No text annotation | ||
| J3_5AKA_011 | No text annotation | ||
| J3_5AKA_012 | No text annotation | ||
| J3_5AKA_013 | No text annotation | ||
| J3_5AKA_014 | No text annotation | ||
| J3_5AKA_015 | No text annotation | ||
| J3_5AKA_002 | No text annotation | ||
| J3_5AKA_003 | No text annotation | ||
| J3_5AKA_004 | No text annotation | ||
| J3_5AKA_005 | No text annotation | ||
| J3_5AKA_006 | No text annotation | ||
| J3_5AKA_016 | No text annotation | ||
| J3_5AKA_017 | No text annotation | ||
| J3_5AKA_007 | Kink-turn 3-way junction | ||
| J3_5AKA_018 | No text annotation | ||
| J3_5AKA_008 | No text annotation | ||
| J3_5AKA_009 | No text annotation | ||
| J3_5AKA_019 | No text annotation | ||
| J3_5AKA_010 | No text annotation | ||
| J4_5AKA_001 | No text annotation | ||
| J4_5AKA_002 | No text annotation | ||
| J4_5AKA_003 | No text annotation | ||
| J4_5AKA_004 | No text annotation | ||
| J4_5AKA_005 | No text annotation | ||
| J4_5AKA_006 | No text annotation | ||
| J4_5AKA_007 | No text annotation | ||
| J4_5AKA_008 | No text annotation | ||
| J4_5AKA_009 | No text annotation | ||
| J4_5AKA_010 | No text annotation | ||
| J5_5AKA_001 | No text annotation | ||
| J5_5AKA_002 | No text annotation | ||
| J5_5AKA_003 | No text annotation | ||
| J5_5AKA_004 | No text annotation | ||
| J5_5AKA_005 | No text annotation | ||
| J5_5AKA_006 | No text annotation | ||
| J6_5AKA_001 | No text annotation | ||
| J6_5AKA_002 | No text annotation | ||
| J7_5AKA_001 | No text annotation | ||
| J7_5AKA_002 | No text annotation |
Coloring options: