RNA 3D Hub //

8PK0 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8PK0_0011/A/1722:1729No text annotation
geometric
HL_4WF9_006
HL_48677.1
HL_8PK0_0021/A/1746:1752No text annotation
geometric
HL_5J7L_141
NA
HL_8PK0_0031/A/1786:1791GNRA
homologous
HL_4WF9_015
HL_34789.1
HL_8PK0_0041/A/1831:1839No text annotation
homologous
HL_7RQB_017
NA
HL_8PK0_0051/A/1847:1856T-loop with 2 stacked bulged bases
geometric
HL_5HR6_003
HL_33597.1
HL_8PK0_0061/A/1884:1889No text annotation
geometric
HL_7RQB_011
NA
HL_8PK0_0071/A/1934:1940No text annotation
geometric
HL_5M3H_001
NA
HL_8PK0_0081/A/1954:1963No text annotation
homologous
HL_8VTW_022
NA
HL_8PK0_0091/A/1988:1996No text annotation
geometric
HL_5TBW_021
NA
HL_8PK0_0101/A/2035:2040No text annotation
homologous
HL_7RQB_025
NA
HL_8PK0_0111/A/2064:2075No text annotation
HL_8PK0_0131/A/2129:2136No text annotation
homologous
HL_4WF9_028
HL_47171.1
HL_8PK0_0161/A/2279:2286No text annotation
geometric
HL_2Y9H_005
HL_51020.1
HL_8PK0_0171/A/2319:2324UNCG
geometric
HL_4U7U_001
HL_61337.1
HL_8PK0_0181/A/2349:2364No text annotation
HL_8PK0_0191/A/2400:2403Mini UNCG
geometric
HL_7A0S_039
HL_90436.1
HL_8PK0_0201/A/2428:2435No text annotation
homologous
HL_7RQB_040
NA
HL_8PK0_0211/A/2497:2507No text annotation
homologous
HL_4WF9_043
HL_87681.1
HL_8PK0_0221/A/2518:2532No text annotation
HL_8PK0_0251/A/2844:2850No text annotation
geometric
HL_8KEB_002
HL_12125.1
HL_8PK0_0261/A/2858:2872No text annotation
geometric
HL_7KI3_001
HL_75660.6
HL_8PK0_0271/A/2893:2901No text annotation
geometric
HL_2ZZM_002
NA
HL_8PK0_0281/A/2933:2938GNRA
geometric
HL_5J7L_197
NA
HL_8PK0_0291/A/2989:2997UNCG variation
geometric
HL_2CZJ_007
NA
HL_8PK0_0311/A/3069:3075No text annotation
geometric
HL_8C3A_054
NA
HL_8PK0_0321/A/3112:3117GNRA
homologous
HL_7RQB_063
NA
HL_8PK0_0331/A/3157:3162GNRA
geometric
HL_3LQX_001
HL_34789.1
HL_8PK0_0341/A/3185:3190No text annotation
geometric
HL_5FMZ_001
HL_19413.1
HL_8PK0_0351/A/3207:3224No text annotation
geometric
HL_7A0S_074
NA
HL_8PK0_0361/A/3247:3255No text annotation
geometric
HL_7RQB_068
NA
HL_8PK0_0371/B/1613:1622tRNA D-loop
geometric
HL_5B63_003
HL_65478.1
HL_8PK0_0381/B/1629:1639No text annotation
geometric
HL_5IB8_208
NA

Problematic loops

#loop idProblemSequence
HL_8PK0_012No text annotation
HL_8PK0_014No text annotation
HL_8PK0_040No text annotation
HL_8PK0_015No text annotation
HL_8PK0_043GNRA wlth tandem sheared
HL_8PK0_041No text annotation
HL_8PK0_023No text annotation
HL_8PK0_024No text annotation
HL_8PK0_042No text annotation
HL_8PK0_030No text annotation
HL_8PK0_039No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8PK0_0011/A/1672:1678,
1/A/1797:1816		No text annotation
IL_8PK0_0021/A/1682:1683,
1/A/1768:1770		Single bulged A
homologous
IL_7A0S_002
IL_14190.1
IL_8PK0_0031/A/1739:1745,
1/A/1753:1758		7x6 Sarcin-Ricin; G-bulge
geometric
IL_4V9F_106
IL_02666.1
IL_8PK0_0041/A/1845:1847,
1/A/1856:1858		Isolated non-canonical cWW pair
homologous
IL_4WF9_017
IL_71625.1
IL_8PK0_0051/A/1877:1879,
1/A/1895:1897		Isolated non-canonical cWW pair
geometric
IL_3GM7_002
IL_01003.1
IL_8PK0_0061/A/1880:1883,
1/A/1890:1894		No text annotation
IL_8PK0_0071/A/1904:1906,
1/A/2016:2018		Isolated non-canonical cWW pair
geometric
IL_4WF9_020
IL_01003.1
IL_8PK0_0081/A/1906:1910,
1/A/2009:2016		tHW-tHW cross-strand stack
homologous
IL_7RQB_018
NA
IL_8PK0_0091/A/1913:1915,
1/A/2004:2006		Isolated non-canonical cWW pair
geometric
IL_5TBW_079
NA
IL_8PK0_0101/A/1925:1927,
1/A/1977:1979		Isolated non-canonical cWW contact
geometric
IL_5UNE_001
NA
IL_8PK0_0111/A/1929:1930,
1/A/1973:1975		Single bulged A
homologous
IL_5J7L_261
NA
IL_8PK0_0121/A/1948:1951,
1/A/1966:1968		Major groove platform with extra cWW
homologous
IL_7RQB_022
NA
IL_8PK0_0131/A/1985:1987,
1/A/1997:2001		Multiple bulged bases
homologous
IL_5J7L_265
NA
IL_8PK0_0141/A/2046:2048,
1/A/2091:2094		No text annotation
geometric
IL_4N0T_004
IL_32983.1
IL_8PK0_0151/A/2057:2063,
1/A/2076:2082		No text annotation
geometric
IL_5XWG_002
NA
IL_8PK0_0161/A/2145:2147,
1/A/2254:2255		Single bulged C
homologous
IL_5J7L_276
NA
IL_8PK0_0171/A/2149:2153,
1/A/2248:2252		UAA/GAN
homologous
IL_7A0S_033
IL_08938.1
IL_8PK0_0201/A/2306:2313,
1/A/2705:2711		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_8PK0_0471/A/2330:2333,
1/A/2441:2447		No text annotation
IL_8PK0_0481/A/2377:2381,
1/A/2411:2419		No text annotation
IL_8PK0_0491/A/2384:2400,
1/A/2403:2408		No text annotation
IL_8PK0_0221/A/2456:2461,
1/A/2697:2699		No text annotation
IL_8PK0_0231/A/2467:2469,
1/A/2689:2691		Isolated tWW turn
homologous
IL_4WF9_063
IL_10432.1
IL_8PK0_0241/A/2470:2473,
1/A/2687:2688		Major groove platform; stack outside cWW
homologous
IL_7RQB_066
NA
IL_8PK0_0501/A/2470:2478,
1/A/2684:2688		No text annotation
homologous
IL_4WF9_117
IL_80252.1
IL_8PK0_0251/A/2473:2478,
1/A/2684:2687		Intercalated tWH
geometric
IL_4WF9_065
IL_28217.1
IL_8PK0_0511/A/2478:2487,
1/A/2679:2684		No text annotation
IL_8PK0_0271/A/2490:2491,
1/A/2674:2676		Single bulged A
homologous
IL_7RQB_069
NA
IL_8PK0_0281/A/2743:2746,
1/A/3135:3137		No text annotation
geometric
IL_6DME_003
IL_75527.1
IL_8PK0_0291/A/2761:2763,
1/A/2960:2961		Single bulged U
homologous
IL_7RQB_080
NA
IL_8PK0_0301/A/2764:2765,
1/A/2956:2959		Minor groove platform
homologous
IL_7RQB_081
NA
IL_8PK0_0541/A/2775:2777,
1/A/2833:2834		Minor groove platform
geometric
IL_7A0S_003
IL_34520.1
IL_8PK0_0521/A/2888:2891,
1/A/2903:2906		Double sheared
geometric
IL_8C3A_404
NA
IL_8PK0_0351/A/3028:3030,
1/A/3092:3096		Isolated non-canonical cWW with bulges
geometric
IL_4WF9_095
IL_68118.1
IL_8PK0_0361/A/3030:3031,
1/A/3089:3092		No text annotation
homologous
IL_5J7L_341
NA
IL_8PK0_0371/A/3039:3041,
1/A/3058:3062		No text annotation
IL_8PK0_0401/A/3109:3110,
1/A/3119:3121		Single bulged A
homologous
IL_5J7L_344
NA
IL_8PK0_0411/A/3146:3148,
1/A/3170:3172		Isolated non-canonical cWW pair
geometric
IL_4LFB_061
NA
IL_8PK0_0421/A/3150:3157,
1/A/3162:3168		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5TBW_116
NA
IL_8PK0_0431/A/3179:3183,
1/A/3192:3194		C-loop
geometric
IL_7RQB_104
NA
IL_8PK0_0451/B/1627:1629,
1/B/1639:1641		Isolated non-canonical cWW pair
geometric
IL_4WF9_042
IL_01003.1

Problematic loops

#loop idProblemSequence
IL_8PK0_018No text annotation
IL_8PK0_046No text annotation
IL_8PK0_019No text annotation
IL_8PK0_021No text annotation
IL_8PK0_026No text annotation
IL_8PK0_031No text annotation
IL_8PK0_032No text annotation
IL_8PK0_033Double sheared with non-canonical cWW
IL_8PK0_034Double sheared with non-canonical cWW
IL_8PK0_038Isolated non-canonical cWW pair
IL_8PK0_039Isolated near basepair
IL_8PK0_053Other IL
IL_8PK0_044Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8PK0_0011/A/1678:1681,
1/A/1771:1785,
1/A/1792:1797		No text annotation
J3_8PK0_0071/A/1684:1722,
1/A/1729:1739,
1/A/1758:1767		No text annotation
J3_8PK0_0021/A/1915:1921,
1/A/1983:1985,
1/A/2001:2004		No text annotation
homologous
J3_5J7L_038
NA
J3_8PK0_0031/A/1930:1932,
1/A/1942:1946,
1/A/1970:1973		No text annotation
homologous
J3_7RQB_005
NA
J3_8PK0_0041/A/2336:2343,
1/A/2423:2427,
1/A/2436:2438		No text annotation
J3_8PK0_0051/A/2343:2345,
1/A/2368:2375,
1/A/2421:2423		No text annotation
J3_8PK0_0081/A/2877:2879,
1/A/2921:2931,
1/A/2940:2946		No text annotation
J3_8PK0_0061/A/3035:3038,
1/A/3063:3065,
1/A/3079:3085		No text annotation
homologous
J3_4WF9_009
J3_32601.6
J4_8PK0_0011/A/2314:2317,
1/A/2326:2327,
1/A/2450:2453,
1/A/2702:2704		No text annotation
J4_8PK0_0021/A/2336:2345,
1/A/2368:2375,
1/A/2421:2427,
1/A/2436:2438		No text annotation
J4_8PK0_0031/A/2492:2496,
1/A/2508:2513,
1/A/2537:2542,
1/A/2668:2673		No text annotation
J4_8PK0_0041/B/1608:1611,
1/B/1624:1627,
1/B/1641:1648,
1/B/1661:1663		No text annotation
J5_8PK0_0011/A/1827:1829,
1/A/1841:1845,
1/A/1858:1860,
1/A/2305:2306,
1/A/2711:2712		No text annotation
homologous
J5_9DFE_003
J5_43153.6
J5_8PK0_0041/A/1865:1875,
1/A/1899:1903,
1/A/2019:2022,
1/A/2271:2275,
1/A/2290:2300		No text annotation
J5_8PK0_0031/A/2768:2771,
1/A/2838:2841,
1/A/2853:2854,
1/A/2876:2877,
1/A/2946:2953		No text annotation
homologous
J5_7A0S_007
J5_39529.2
J6_8PK0_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_8PK0_0021/A/2768:2771,
1/A/2838:2841,
1/A/2853:2854,
1/A/2876:2879,
1/A/2921:2931,
1/A/2940:2953		No text annotation

Problematic loops

#loop idProblemSequence
J5_8PK0_002No text annotation

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