RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_7ODS_0011/A/1722:1729No text annotation
geometric
HL_4WF9_006
HL_48677.1
HL_7ODS_0021/A/1746:1752No text annotation
geometric
HL_5J7L_141
NA
HL_7ODS_0031/A/1786:1791GNRA
homologous
HL_4WF9_015
HL_34789.4
HL_7ODS_0041/A/1831:1839No text annotation
homologous
HL_7RQB_017
NA
HL_7ODS_0051/A/1847:1856T-loop with 2 bulged bases not stacked
geometric
HL_4FRN_005
NA
HL_7ODS_0061/A/1884:1889No text annotation
geometric
HL_7RQB_011
NA
HL_7ODS_0071/A/1934:1940No text annotation
geometric
HL_5M3H_001
NA
HL_7ODS_0081/A/1954:1963No text annotation
homologous
HL_7RQB_023
NA
HL_7ODS_0091/A/1988:1996No text annotation
geometric
HL_5TBW_021
NA
HL_7ODS_0101/A/2035:2040No text annotation
homologous
HL_4WF9_025
HL_27530.1
HL_7ODS_0111/A/2064:2075No text annotation
HL_7ODS_0121/A/2107:2114No text annotation
HL_7ODS_0131/A/2129:2136No text annotation
homologous
HL_4WF9_028
HL_47171.1
HL_7ODS_0161/A/2279:2286No text annotation
geometric
HL_5E6M_002
HL_10874.1
HL_7ODS_0171/A/2319:2324No text annotation
geometric
HL_5U3G_001
HL_75660.8
HL_7ODS_0181/A/2349:2364No text annotation
HL_7ODS_0191/A/2400:2403Mini UNCG
geometric
HL_2F8K_001
HL_90436.3
HL_7ODS_0201/A/2428:2435No text annotation
homologous
HL_7RQB_040
NA
HL_7ODS_0431/A/2497:2507No text annotation
homologous
HL_5J7L_178
NA
HL_7ODS_0221/A/2518:2532No text annotation
HL_7ODS_0241/A/2690:2699No text annotation
homologous
HL_4WF9_047
HL_78372.1
HL_7ODS_0261/A/2813:2819Pseudoknot geometry
geometric
HL_4KQY_001
HL_30680.5
HL_7ODS_0271/A/2828:2840No text annotation
HL_7ODS_0281/A/2862:2870No text annotation
geometric
HL_2ZZM_002
HL_33487.1
HL_7ODS_0291/A/2902:2907GNRA
geometric
HL_5J7L_197
NA
HL_7ODS_0301/A/2958:2966No text annotation
homologous
HL_4WF9_056
HL_52011.1
HL_7ODS_0311/A/3015:3022GNRA variation
homologous
HL_5J7L_194
NA
HL_7ODS_0321/A/3038:3044No text annotation
geometric
HL_2Y8W_001
HL_40612.1
HL_7ODS_0331/A/3081:3086GNRA
homologous
HL_7RQB_063
NA
HL_7ODS_0341/A/3126:3131GNRA
geometric
HL_5FJC_002
HL_34789.4
HL_7ODS_0351/A/3154:3159No text annotation
geometric
HL_4WRT_001
HL_19413.2
HL_7ODS_0361/A/3176:3193No text annotation
geometric
HL_7A0S_074
NA
HL_7ODS_0371/A/3216:3224No text annotation
geometric
HL_7RQB_068
NA
HL_7ODS_0381/B/1613:1622tRNA D-loop
geometric
HL_5B63_003
HL_20490.1
HL_7ODS_0391/B/1630:1638Anticodon loop related
geometric
HL_5T83_002
HL_81376.3

Problematic loops

#loop idProblemSequence
HL_7ODS_041No text annotation
HL_7ODS_014No text annotation
HL_7ODS_015No text annotation
HL_7ODS_042No text annotation
HL_7ODS_021No text annotation
HL_7ODS_023No text annotation
HL_7ODS_025No text annotation
HL_7ODS_040No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_7ODS_0011/A/1672:1678,
1/A/1797:1816		No text annotation
IL_7ODS_0021/A/1682:1683,
1/A/1768:1770		Single bulged A
homologous
IL_7RQB_002
NA
IL_7ODS_0451/A/1739:1745,
1/A/1753:1758		7x6 Sarcin-Ricin; G-bulge
geometric
IL_4V9F_106
IL_02666.1
IL_7ODS_0031/A/1845:1847,
1/A/1856:1858		Isolated non-canonical cWW pair
homologous
IL_5J7L_257
NA
IL_7ODS_0041/A/1877:1879,
1/A/1895:1897		Isolated non-canonical cWW pair
geometric
IL_4E59_001
IL_01003.4
IL_7ODS_0051/A/1880:1883,
1/A/1890:1894		No text annotation
IL_7ODS_0061/A/1904:1906,
1/A/2016:2018		Isolated non-canonical cWW pair
homologous
IL_4WF9_020
IL_01003.4
IL_7ODS_0071/A/1906:1910,
1/A/2009:2016		tHW-tHW cross-strand stack
geometric
IL_7RQB_018
NA
IL_7ODS_0081/A/1913:1915,
1/A/2004:2006		Isolated non-canonical cWW pair
geometric
IL_5TBW_079
NA
IL_7ODS_0091/A/1925:1927,
1/A/1977:1979		Isolated non-canonical cWW contact
geometric
IL_5UNE_001
IL_87720.1
IL_7ODS_0101/A/1929:1930,
1/A/1973:1975		Single bulged A
homologous
IL_5J7L_261
NA
IL_7ODS_0111/A/1948:1951,
1/A/1966:1968		Major groove platform with extra cWW
homologous
IL_7RQB_022
NA
IL_7ODS_0121/A/1985:1987,
1/A/1997:2001		Multiple bulged bases
homologous
IL_5J7L_265
NA
IL_7ODS_0131/A/2046:2048,
1/A/2091:2094		No text annotation
geometric
IL_6ZDU_001
NA
IL_7ODS_0141/A/2057:2063,
1/A/2076:2082		No text annotation
geometric
IL_5XWG_002
IL_74768.1
IL_7ODS_0151/A/2145:2147,
1/A/2254:2255		Single bulged C
homologous
IL_5J7L_276
NA
IL_7ODS_0161/A/2149:2153,
1/A/2248:2252		UAA/GAN
homologous
IL_7RQB_036
NA
IL_7ODS_0191/A/2306:2313,
1/A/2674:2680		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_7ODS_0461/A/2330:2333,
1/A/2441:2447		No text annotation
IL_7ODS_0471/A/2377:2381,
1/A/2411:2419		No text annotation
IL_7ODS_0481/A/2384:2400,
1/A/2403:2408		No text annotation
IL_7ODS_0211/A/2456:2461,
1/A/2666:2668		No text annotation
IL_7ODS_0221/A/2467:2469,
1/A/2658:2660		Isolated tWW turn
homologous
IL_4WF9_063
IL_10432.1
IL_7ODS_0231/A/2470:2473,
1/A/2656:2657		Major groove platform; stack outside cWW
geometric
IL_4WF9_064
IL_74641.2
IL_7ODS_0491/A/2470:2478,
1/A/2653:2657		No text annotation
homologous
IL_4WF9_117
IL_80252.1
IL_7ODS_0241/A/2473:2478,
1/A/2653:2656		Intercalated tWH
homologous
IL_4WF9_065
IL_28217.1
IL_7ODS_0251/A/2478:2487,
1/A/2648:2653		No text annotation
IL_7ODS_0261/A/2490:2491,
1/A/2643:2645		Single bulged A
homologous
IL_7RQB_069
NA
IL_7ODS_0271/A/2712:2715,
1/A/3104:3106		No text annotation
geometric
IL_6DME_003
IL_75527.2
IL_7ODS_0281/A/2717:2719,
1/A/3099:3102		No text annotation
homologous
IL_4WF9_079
IL_80025.1
IL_7ODS_0291/A/2730:2732,
1/A/2929:2930		Single bulged U
homologous
IL_7RQB_080
NA
IL_7ODS_0301/A/2733:2734,
1/A/2925:2928		Minor groove platform
homologous
IL_7RQB_081
NA
IL_7ODS_0531/A/2744:2746,
1/A/2802:2803		Minor groove platform
geometric
IL_9DFE_348
IL_34520.3
IL_7ODS_0511/A/2857:2860,
1/A/2872:2875		Double sheared
geometric
IL_4LFB_060
IL_58355.2
IL_7ODS_0341/A/2953:2955,
1/A/2968:2971		No text annotation
geometric
IL_4P3T_002
NA
IL_7ODS_0351/A/2955:2957,
1/A/2967:2968		Minor groove platform
geometric
IL_2QWY_009
IL_34520.3
IL_7ODS_0361/A/2997:2999,
1/A/3061:3065		Isolated non-canonical cWW with bulges
homologous
IL_7RQB_097
NA
IL_7ODS_0371/A/2999:3000,
1/A/3058:3061		No text annotation
geometric
IL_5J7L_341
NA
IL_7ODS_0521/A/3008:3010,
1/A/3027:3031		No text annotation
IL_7ODS_0391/A/3078:3079,
1/A/3088:3090		No text annotation
geometric
IL_8GLP_097
IL_14190.2
IL_7ODS_0401/A/3115:3117,
1/A/3139:3141		Isolated non-canonical cWW pair
geometric
IL_6OL3_002
IL_01003.4
IL_7ODS_0411/A/3119:3126,
1/A/3131:3137		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5TBW_116
NA
IL_7ODS_0421/A/3148:3152,
1/A/3161:3163		C-loop
geometric
IL_7RQB_051
NA
IL_7ODS_0431/A/3173:3174,
1/A/3195:3197		No text annotation
IL_7ODS_0441/B/1627:1629,
1/B/1639:1641		Isolated non-canonical cWW pair
geometric
IL_4WF9_042
IL_01003.4

Problematic loops

#loop idProblemSequence
IL_7ODS_017No text annotation
IL_7ODS_018No text annotation
IL_7ODS_020No text annotation
IL_7ODS_050Major groove platform with extra cWW
IL_7ODS_031No text annotation
IL_7ODS_032No text annotation
IL_7ODS_033Double sheared with non-canonical cWW
IL_7ODS_038No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_7ODS_0011/A/1678:1681,
1/A/1771:1785,
1/A/1792:1797		No text annotation
J3_7ODS_0071/A/1684:1722,
1/A/1729:1739,
1/A/1758:1767		No text annotation
J3_7ODS_0021/A/1915:1921,
1/A/1983:1985,
1/A/2001:2004		No text annotation
homologous
J3_4WF9_002
J3_46658.1
J3_7ODS_0031/A/1930:1932,
1/A/1942:1946,
1/A/1970:1973		No text annotation
homologous
J3_7RQB_005
NA
J3_7ODS_0041/A/2336:2343,
1/A/2423:2427,
1/A/2436:2438		No text annotation
J3_7ODS_0051/A/2343:2345,
1/A/2368:2375,
1/A/2421:2423		No text annotation
J3_7ODS_0081/A/2846:2848,
1/A/2890:2900,
1/A/2909:2915		No text annotation
J3_7ODS_0061/A/3004:3007,
1/A/3032:3034,
1/A/3048:3054		No text annotation
homologous
J3_7RQB_012
NA
J4_7ODS_0011/A/2314:2317,
1/A/2326:2327,
1/A/2450:2453,
1/A/2671:2673		No text annotation
J4_7ODS_0021/A/2336:2345,
1/A/2368:2375,
1/A/2421:2427,
1/A/2436:2438		No text annotation
J4_7ODS_0031/A/2492:2496,
1/A/2508:2513,
1/A/2537:2542,
1/A/2637:2642		No text annotation
J4_7ODS_0051/B/1608:1611,
1/B/1624:1626,
1/B/1642:1648,
1/B/1661:1663		No text annotation
J5_7ODS_0011/A/1865:1875,
1/A/1899:1903,
1/A/2019:2022,
1/A/2271:2275,
1/A/2290:2300		No text annotation
J5_7ODS_0021/A/2737:2740,
1/A/2807:2810,
1/A/2822:2823,
1/A/2845:2846,
1/A/2915:2922		No text annotation
homologous
J5_7A0S_007
J5_39529.2
J6_7ODS_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_7ODS_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
J4_7ODS_004No text annotation

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