RNA 3D Hub //

7PD3 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7PD3_0011/A/1722:1729No text annotation
geometric
HL_5J7L_139
NA
HL_7PD3_0021/A/1746:1752No text annotation
geometric
HL_7A0S_008
HL_76371.3
HL_7PD3_0031/A/1786:1791GNRA
homologous
HL_4WF9_015
HL_34789.5
HL_7PD3_0041/A/1831:1839No text annotation
homologous
HL_7RQB_017
NA
HL_7PD3_0051/A/1847:1856T-loop with 2 stacked bulged bases
homologous
HL_5J7L_150
NA
HL_7PD3_0061/A/1884:1889No text annotation
geometric
HL_5TBW_006
NA
HL_7PD3_0071/A/1934:1940No text annotation
geometric
HL_5J7L_151
NA
HL_7PD3_0081/A/1954:1963No text annotation
homologous
HL_7RQB_023
NA
HL_7PD3_0091/A/1988:1996No text annotation
geometric
HL_5TBW_021
NA
HL_7PD3_0101/A/2035:2040No text annotation
homologous
HL_4WF9_025
HL_27530.2
HL_7PD3_0121/A/2107:2114GNRA
homologous
HL_7RQB_027
NA
HL_7PD3_0131/A/2129:2136No text annotation
homologous
HL_5J7L_160
NA
HL_7PD3_0141/A/2175:2185No text annotation
homologous
HL_6PRV_001
HL_20174.1
HL_7PD3_0151/A/2202:2209No text annotation
homologous
HL_7RQB_030
NA
HL_7PD3_0161/A/2279:2286No text annotation
geometric
HL_2Y9H_005
HL_44506.3
HL_7PD3_0171/A/2319:2324UNCG
geometric
HL_4U7U_001
HL_61337.5
HL_7PD3_0191/A/2400:2403Mini UNCG
geometric
HL_5F9R_002
NA
HL_7PD3_0201/A/2428:2435No text annotation
homologous
HL_7RQB_040
NA
HL_7PD3_0211/A/2497:2507No text annotation
homologous
HL_5J7L_178
NA
HL_7PD3_0221/A/2518:2532No text annotation
HL_7PD3_0231/A/2575:2582No text annotation
geometric
HL_5TBW_006
NA
HL_7PD3_0241/A/2612:2620No text annotation
geometric
HL_8H9D_001
NA
HL_7PD3_0251/A/2690:2699No text annotation
homologous
HL_4WF9_047
HL_78372.2
HL_7PD3_0271/A/2813:2819No text annotation
HL_7PD3_0281/A/2828:2840No text annotation
HL_7PD3_0291/A/2862:2870No text annotation
geometric
HL_2ZZM_002
HL_33487.2
HL_7PD3_0301/A/2902:2907GNRA
geometric
HL_5J7L_197
NA
HL_7PD3_0311/A/2958:2966No text annotation
homologous
HL_4WF9_056
HL_52011.2
HL_7PD3_0321/A/3015:3022No text annotation
homologous
HL_7RQB_061
NA
HL_7PD3_0331/B/1613:1622No text annotation
geometric
HL_4V88_198
NA
HL_7PD3_0341/B/1630:1638tRNA anticodon loop
geometric
HL_6JXM_002
HL_97725.1
HL_7PD3_0351/B/1650:1659No text annotation
geometric
HL_4V88_198
NA

Problematic loops

#loop idProblemSequence
HL_7PD3_011No text annotation
HL_7PD3_018No text annotation
HL_7PD3_026tRNA anticodon loop

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7PD3_0021/A/1682:1683,
1/A/1768:1770		Single bulged A
homologous
IL_7A0S_002
IL_14190.3
IL_7PD3_0491/A/1739:1745,
1/A/1753:1758		7x6 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_251
NA
IL_7PD3_0041/A/1845:1847,
1/A/1856:1858		Isolated non-canonical cWW pair
geometric
IL_5J7L_257
NA
IL_7PD3_0051/A/1877:1879,
1/A/1895:1897		Isolated non-canonical cWW pair
geometric
IL_3SZX_002
IL_71625.4
IL_7PD3_0061/A/1880:1883,
1/A/1890:1894		No text annotation
IL_7PD3_0071/A/1904:1906,
1/A/2016:2018		Isolated non-canonical cWW pair
homologous
IL_4WF9_020
IL_01003.5
IL_7PD3_0081/A/1906:1910,
1/A/2009:2016		tHW-tHW cross-strand stack
geometric
IL_7RQB_018
NA
IL_7PD3_0091/A/1913:1915,
1/A/2004:2006		No text annotation
geometric
IL_3LA5_001
NA
IL_7PD3_0101/A/1925:1927,
1/A/1977:1979		Isolated non-canonical cWW pair
geometric
IL_1MFQ_003
IL_01003.5
IL_7PD3_0111/A/1929:1930,
1/A/1973:1975		Single bulged A
geometric
IL_5J7L_261
NA
IL_7PD3_0121/A/1948:1951,
1/A/1966:1968		Major groove platform with extra cWW
homologous
IL_7RQB_022
NA
IL_7PD3_0131/A/1985:1987,
1/A/1997:2001		Multiple bulged bases
geometric
IL_7A0S_021
IL_89509.2
IL_7PD3_0141/A/2046:2048,
1/A/2091:2094		No text annotation
geometric
IL_6ZDU_001
NA
IL_7PD3_0151/A/2057:2063,
1/A/2076:2082		No text annotation
geometric
IL_5XWG_002
IL_74768.1
IL_7PD3_0161/A/2145:2147,
1/A/2254:2255		Single bulged C
homologous
IL_5J7L_276
NA
IL_7PD3_0171/A/2149:2153,
1/A/2248:2252		UAA/GAN
homologous
IL_7RQB_036
NA
IL_7PD3_0181/A/2170:2173,
1/A/2187:2190		No text annotation
homologous
IL_5J7L_285
NA
IL_7PD3_0191/A/2197:2200,
1/A/2211:2212		No text annotation
homologous
IL_6PRV_002
NA
IL_7PD3_0201/A/2306:2313,
1/A/2674:2680		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_7PD3_0411/A/2330:2333,
1/A/2441:2447		No text annotation
IL_7PD3_0421/A/2377:2381,
1/A/2411:2419		No text annotation
IL_7PD3_0431/A/2384:2400,
1/A/2403:2408		No text annotation
IL_7PD3_0221/A/2456:2461,
1/A/2666:2668		No text annotation
IL_7PD3_0231/A/2467:2469,
1/A/2658:2660		Isolated tWW turn
homologous
IL_4WF9_063
IL_10432.2
IL_7PD3_0241/A/2470:2473,
1/A/2656:2657		Major groove platform; stack outside cWW
homologous
IL_4WF9_064
IL_74641.3
IL_7PD3_0441/A/2470:2478,
1/A/2653:2657		No text annotation
homologous
IL_4WF9_117
IL_80252.2
IL_7PD3_0251/A/2473:2478,
1/A/2653:2656		Intercalated tWH
geometric
IL_4WF9_065
IL_28217.2
IL_7PD3_0261/A/2478:2487,
1/A/2648:2653		No text annotation
IL_7PD3_0271/A/2490:2491,
1/A/2643:2645		Single bulged A
homologous
IL_7RQB_069
NA
IL_7PD3_0461/A/2554:2570,
1/A/2587:2602		No text annotation
IL_7PD3_0281/A/2730:2732,
1/A/2929:2930		Single bulged U
homologous
IL_7RQB_080
NA
IL_7PD3_0291/A/2733:2734,
1/A/2925:2928		Minor groove platform
homologous
IL_4WF9_081
IL_34520.4
IL_7PD3_0501/A/2744:2746,
1/A/2802:2803		Minor groove platform
geometric
IL_9DFE_348
IL_34520.4
IL_7PD3_0321/A/2856:2860,
1/A/2872:2876		Double sheared with non-canonical cWW
geometric
IL_5J7L_274
NA
IL_7PD3_0331/A/2940:2941,
1/A/2985:2987		Single stack bend
geometric
IL_4WF9_089
IL_15011.4
IL_7PD3_0341/A/2941:2942,
1/A/2983:2985		Major groove platform
homologous
IL_7RQB_092
NA
IL_7PD3_0351/A/2943:2948,
1/A/2976:2982		No text annotation
IL_7PD3_0361/A/2953:2955,
1/A/2968:2971		No text annotation
geometric
IL_4P3T_002
NA
IL_7PD3_0371/A/2955:2957,
1/A/2967:2968		Minor groove platform
geometric
IL_2QWY_009
IL_34520.4
IL_7PD3_0381/A/3008:3010,
1/A/3027:3031		No text annotation
geometric
IL_7EL1_001
IL_70784.2

Problematic loops

#loop idProblemSequence
IL_7PD3_001No text annotation
IL_7PD3_0038x7 Sarcin-Ricin with CC bifurcated pair; G-bulge
IL_7PD3_039Tandem non-canonical cWW pairs
IL_7PD3_040No text annotation
IL_7PD3_021No text annotation
IL_7PD3_045No text annotation
IL_7PD3_030No text annotation
IL_7PD3_031No text annotation
IL_7PD3_047No text annotation
IL_7PD3_048No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_7PD3_0011/A/1678:1681,
1/A/1771:1785,
1/A/1792:1797		No text annotation
J3_7PD3_0021/A/1915:1921,
1/A/1983:1985,
1/A/2001:2004		No text annotation
homologous
J3_4WF9_002
J3_46658.2
J3_7PD3_0031/A/1930:1932,
1/A/1942:1946,
1/A/1970:1973		No text annotation
homologous
J3_7RQB_005
NA
J3_7PD3_0041/A/2336:2343,
1/A/2423:2427,
1/A/2436:2438		No text annotation
J3_7PD3_0051/A/2343:2345,
1/A/2368:2375,
1/A/2421:2423		No text annotation
J3_7PD3_0071/A/2544:2553,
1/A/2603:2608,
1/A/2624:2635		No text annotation
J4_7PD3_0011/A/2314:2317,
1/A/2326:2327,
1/A/2450:2453,
1/A/2671:2673		No text annotation
J4_7PD3_0021/A/2336:2345,
1/A/2368:2375,
1/A/2421:2427,
1/A/2436:2438		No text annotation
J4_7PD3_0031/A/2492:2496,
1/A/2508:2513,
1/A/2537:2542,
1/A/2637:2642		No text annotation
J5_7PD3_0011/A/1827:1829,
1/A/1841:1845,
1/A/1858:1860,
1/A/2305:2306,
1/A/2680:2681		No text annotation
homologous
J5_7A0S_003
J5_43153.6
J5_7PD3_0021/A/1865:1875,
1/A/1899:1903,
1/A/2019:2022,
1/A/2271:2275,
1/A/2290:2300		No text annotation
J6_7PD3_0011/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
J6_7PD3_0021/A/2737:2740,
1/A/2807:2810,
1/A/2822:2823,
1/A/2845:2848,
1/A/2890:2900,
1/A/2909:2922		No text annotation

Problematic loops

#loop idProblemSequence
J3_7PD3_006No text annotation

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