7PO4 Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_7PO4_001 | 1/A/1722:1729 | No text annotation | geometric HL_4V9F_006 HL_48677.1 | |
| HL_7PO4_002 | 1/A/1746:1752 | No text annotation | geometric HL_7A0S_008 HL_76371.1 | |
| HL_7PO4_003 | 1/A/1786:1791 | GNRA | geometric HL_7RQB_015 NA | |
| HL_7PO4_004 | 1/A/1831:1839 | No text annotation | homologous HL_8VTW_016 NA | |
| HL_7PO4_005 | 1/A/1847:1856 | T-loop with 2 stacked bulged bases | geometric HL_3ICQ_005 HL_33597.1 | |
| HL_7PO4_006 | 1/A/1884:1889 | No text annotation | geometric HL_5TBW_006 NA | |
| HL_7PO4_008 | 1/A/1988:1996 | No text annotation | geometric HL_5TBW_021 NA | |
| HL_7PO4_009 | 1/A/2035:2040 | No text annotation | geometric HL_4WF9_025 HL_27530.1 | |
| HL_7PO4_010 | 1/A/2064:2075 | No text annotation | ||
| HL_7PO4_011 | 1/A/2107:2114 | GNRA | geometric HL_7RQB_027 NA | |
| HL_7PO4_012 | 1/A/2129:2136 | No text annotation | geometric HL_5TBW_006 NA | |
| HL_7PO4_014 | 1/A/2202:2209 | GNRA wlth tandem sheared | geometric HL_6PRV_002 HL_98423.1 | |
| HL_7PO4_015 | 1/A/2279:2286 | No text annotation | geometric HL_5E6M_002 HL_37734.1 | |
| HL_7PO4_016 | 1/A/2319:2324 | UNCG | geometric HL_6JQ6_004 NA | |
| HL_7PO4_018 | 1/A/2400:2403 | Mini UNCG | geometric HL_7A0S_039 HL_90436.1 | |
| HL_7PO4_019 | 1/A/2428:2435 | No text annotation | geometric HL_5TBW_075 NA | |
| HL_7PO4_021 | 1/A/2518:2532 | No text annotation | ||
| HL_7PO4_022 | 1/A/2690:2699 | No text annotation | homologous HL_4WF9_047 HL_78372.1 | |
| HL_7PO4_024 | 1/A/2862:2870 | No text annotation | geometric HL_2ZZM_002 NA | |
| HL_7PO4_025 | 1/A/2902:2907 | GNRA | geometric HL_4LFB_020 HL_34789.1 | |
| HL_7PO4_027 | 1/A/3154:3159 | No text annotation | geometric HL_5FMZ_001 HL_19413.1 | |
| HL_7PO4_034 | 1/A/3176:3193 | No text annotation | geometric HL_7A0S_074 NA | |
| HL_7PO4_029 | 1/A/3216:3224 | No text annotation | geometric HL_7RQB_068 NA | |
| HL_7PO4_030 | 1/B/12:23 | tRNA D-loop | geometric HL_5B63_003 HL_65478.1 | |
| HL_7PO4_035 | 1/B/31:39 | tRNA anticodon loop | geometric HL_5E81_235 HL_81376.1 | |
| HL_7PO4_032 | 1/B/53:61 | No text annotation | geometric HL_5TBW_076 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_7PO4_007 | No text annotation | ||
| HL_7PO4_033 | No text annotation | ||
| HL_7PO4_013 | No text annotation | ||
| HL_7PO4_017 | No text annotation | ||
| HL_7PO4_020 | No text annotation | ||
| HL_7PO4_023 | No text annotation | ||
| HL_7PO4_026 | Mini UNCG | ||
| HL_7PO4_028 | No text annotation | ||
| HL_7PO4_031 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_7PO4_001 | 1/A/1672:1678, 1/A/1797:1816 | No text annotation | ||
| IL_7PO4_002 | 1/A/1682:1683, 1/A/1768:1770 | Single bulged C | geometric IL_7KGA_004 NA | |
| IL_7PO4_003 | 1/A/1739:1745, 1/A/1753:1758 | 7x6 Sarcin-Ricin; G-bulge | geometric IL_4V9F_106 IL_02666.1 | |
| IL_7PO4_004 | 1/A/1845:1847, 1/A/1856:1858 | Isolated non-canonical cWW pair | geometric IL_5J7L_257 NA | |
| IL_7PO4_005 | 1/A/1877:1879, 1/A/1895:1897 | Isolated non-canonical cWW pair | geometric IL_3GM7_002 IL_01003.1 | |
| IL_7PO4_006 | 1/A/1880:1883, 1/A/1890:1894 | No text annotation | ||
| IL_7PO4_007 | 1/A/1904:1906, 1/A/2016:2018 | Isolated non-canonical cWW pair | geometric IL_4WF9_020 IL_01003.1 | |
| IL_7PO4_008 | 1/A/1906:1910, 1/A/2009:2016 | No text annotation | ||
| IL_7PO4_009 | 1/A/1913:1915, 1/A/2004:2006 | Isolated non-canonical cWW pair | geometric IL_5TBW_079 NA | |
| IL_7PO4_010 | 1/A/1925:1927, 1/A/1977:1979 | Isolated non-canonical cWW contact | geometric IL_5UNE_001 NA | |
| IL_7PO4_011 | 1/A/1929:1930, 1/A/1973:1975 | Single bulged A | geometric IL_5J7L_261 NA | |
| IL_7PO4_013 | 1/A/1985:1987, 1/A/1997:2001 | Multiple bulged bases | geometric IL_7A0S_021 IL_89509.1 | |
| IL_7PO4_014 | 1/A/2046:2048, 1/A/2091:2094 | No text annotation | geometric IL_4QIK_001 IL_32983.1 | |
| IL_7PO4_015 | 1/A/2057:2063, 1/A/2076:2082 | No text annotation | geometric IL_5XWG_002 NA | |
| IL_7PO4_016 | 1/A/2145:2147, 1/A/2254:2255 | Single bulged A | geometric IL_5TBW_013 NA | |
| IL_7PO4_017 | 1/A/2149:2153, 1/A/2248:2252 | UAA/GAN | geometric IL_7RQB_036 NA | |
| IL_7PO4_019 | 1/A/2197:2200, 1/A/2211:2212 | Major groove platform | geometric IL_3NKB_002 NA | |
| IL_7PO4_020 | 1/A/2306:2313, 1/A/2674:2680 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_5J7L_289 NA | |
| IL_7PO4_021 | 1/A/2329:2333, 1/A/2441:2448 | No text annotation | ||
| IL_7PO4_022 | 1/A/2349:2351, 1/A/2362:2364 | No text annotation | ||
| IL_7PO4_035 | 1/A/2377:2381, 1/A/2411:2419 | No text annotation | ||
| IL_7PO4_036 | 1/A/2384:2400, 1/A/2403:2408 | No text annotation | ||
| IL_7PO4_023 | 1/A/2456:2461, 1/A/2666:2668 | No text annotation | ||
| IL_7PO4_024 | 1/A/2467:2469, 1/A/2658:2660 | Isolated tWW turn | geometric IL_5J7L_305 NA | |
| IL_7PO4_025 | 1/A/2470:2473, 1/A/2656:2657 | Major groove platform; stack outside cWW | geometric IL_7RQB_066 NA | |
| IL_7PO4_037 | 1/A/2470:2478, 1/A/2653:2657 | No text annotation | homologous IL_7A0S_109 IL_80252.1 | |
| IL_7PO4_026 | 1/A/2473:2478, 1/A/2653:2656 | No text annotation | homologous IL_8VTW_066 NA | |
| IL_7PO4_027 | 1/A/2712:2715, 1/A/3104:3106 | Major groove platform with extra pair | geometric IL_5TBW_091 NA | |
| IL_7PO4_039 | 1/A/2728:2732, 1/A/2929:2932 | Tandem non-canonical cWW pairs | geometric IL_5EW4_002 IL_71194.1 | |
| IL_7PO4_028 | 1/A/2730:2732, 1/A/2929:2930 | Single bulged U | geometric IL_7RQB_080 NA | |
| IL_7PO4_040 | 1/A/2733:2735, 1/A/2924:2928 | No text annotation | ||
| IL_7PO4_029 | 1/A/2856:2860, 1/A/2872:2876 | Double sheared with non-canonical cWW | geometric IL_5J7L_274 NA | |
| IL_7PO4_030 | 1/A/3115:3117, 1/A/3139:3141 | Isolated non-canonical cWW pair | geometric IL_4LFB_061 NA | |
| IL_7PO4_031 | 1/A/3119:3126, 1/A/3131:3137 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_1JBR_001 NA | |
| IL_7PO4_032 | 1/A/3148:3152, 1/A/3161:3163 | C-loop | geometric IL_7RQB_051 NA | |
| IL_7PO4_033 | 1/A/3212:3213, 1/A/3227:3230 | Major groove intercalation | geometric IL_5TBW_085 NA | |
| IL_7PO4_034 | 1/B/28:30, 1/B/40:42 | Isolated non-canonical cWW pair | geometric IL_4WF9_042 IL_01003.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_7PO4_012 | No text annotation | ||
| IL_7PO4_018 | No text annotation | ||
| IL_7PO4_038 | Partly complementary |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_7PO4_001 | 1/A/1678:1681, 1/A/1771:1785, 1/A/1792:1797 | No text annotation | ||
| J3_7PO4_005 | 1/A/1684:1722, 1/A/1729:1739, 1/A/1758:1767 | No text annotation | ||
| J3_7PO4_002 | 1/A/1915:1921, 1/A/1983:1985, 1/A/2001:2004 | No text annotation | homologous J3_8VTW_001 NA | |
| J3_7PO4_003 | 1/A/2336:2343, 1/A/2423:2427, 1/A/2436:2438 | No text annotation | ||
| J3_7PO4_004 | 1/A/2343:2345, 1/A/2368:2375, 1/A/2421:2423 | No text annotation | ||
| J4_7PO4_001 | 1/A/2314:2317, 1/A/2326:2327, 1/A/2450:2453, 1/A/2671:2673 | No text annotation | ||
| J4_7PO4_002 | 1/A/2336:2345, 1/A/2368:2375, 1/A/2421:2427, 1/A/2436:2438 | No text annotation | ||
| J4_7PO4_003 | 1/B/7:10, 1/B/25:27, 1/B/43:50, 1/B/64:66 | No text annotation | ||
| J5_7PO4_001 | 1/A/1827:1829, 1/A/1841:1845, 1/A/1858:1860, 1/A/2305:2306, 1/A/2680:2681 | No text annotation | homologous J5_9DFE_003 J5_43153.6 | |
| J5_7PO4_002 | 1/A/1865:1875, 1/A/1899:1903, 1/A/2019:2022, 1/A/2271:2275, 1/A/2290:2300 | No text annotation | ||
| J6_7PO4_002 | 1/A/2027:2032, 1/A/2043:2045, 1/A/2095:2098, 1/A/2123:2127, 1/A/2138:2143, 1/A/2257:2266 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J6_7PO4_001 | No text annotation |
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