Removed long RNA

README.md

@@ -11,7 +11,7 @@ pretty_name: PDB
 ---
 
 # PDB
-	upload_date: 2023-12-06 13:27:53
+	upload_date: 2023-12-06 16:53:41
 	user: alberic
 	source: `bpSEQ_files_pdbee` (BPSEQ files format)
 
@@ -19,8 +19,8 @@ pretty_name: PDB
 	- structure (Read from source.)
 
 	Filtering report: 
-	Over a total of 443 datapoints, there are:
-    - 334 valid datapoints
+	Over a total of 442 datapoints, there are:
+    - 333 valid datapoints
     - 0 invalid datapoints (ex: sequence with non-regular characters)
     - 0 datapoints with the same reference
     - 50 duplicate sequences with the same structure / dms

data.json

@@ -106,7 +106,6 @@
 "2N6X-2D":{"sequence": "GGUGAGUACGUAGAGUAUACUUCGGUAUACUUAUAUACUUACC", "paired_bases": [[0, 42], [1, 41], [2, 40], [3, 39], [4, 38], [5, 37], [6, 36], [7, 35], [13, 30], [14, 29], [15, 28], [16, 27], [17, 26], [18, 25], [19, 24]]},
 "2GV3-2D":{"sequence": "GGCCAGACUCCCGAAUCUGGCC", "paired_bases": [[0, 21], [1, 20], [2, 19], [3, 18], [4, 17], [5, 16], [6, 15], [8, 14]]},
 "1OW9-2D":{"sequence": "GAGCGAAGACGAAAGUCGAGCUC", "paired_bases": [[0, 22], [1, 21], [2, 20], [3, 19], [7, 16], [8, 15], [9, 14]]},
-"1C2W-2D":{"sequence": "GGUUAAGCGACUAAGCGUACACGGUGGAUGCCCUGGCAGUCAGAGGCGAUGAAGGACGUGCUAAUCUGCGAUAAGCGUCGGUAAGGUGAUAUGAACCGUUAUAACCGGCGAUUUCCGAAUGGGGAAACCCAGUGUGUUUCGACACACUAUCAUUAACUGAAUCCAUAGGUUAAUGAGGCGAACCGGGGGAACUGAAACAUCUAAGUACCCCGAGGAAAAGAAAUCAACCGAGAUUCCCCCAGUAGCGGCGAGCGAACGGGGAGCAGCCCAGAGCCUGAAUCAGUGUGUGUGUUAGUGGAAGCGUCUGGAAAGGCGCGCGAUACAGGGUGACAGCCCCGUACACAAAAAUGCACAUGCUGUGAGCUCGAUGAGUAGGGCGGGACACGUGGUAUCCUGUCUGAAUAUGGGGGGACCAUCCUCCAAGGCUAAAUACUCCUGACUGACCGAUAGUGAACCAGUACCGUGAGGGAAAGGCGAAAAGAACCCCGGCGAGGGGAGUGAAAAAGAACCUGAAACCGUGUACGUACAAGCAGUGGGAGCACGCUUAGGCGUGUGACUGCGUACCUUUUGUAUAAUGGGUCAGCGACUUAUAUUCUGUAGCAAGGUUAACCGAAUAGGGGAGCCGAAGGGAAACCGAGUCUUAACUGGGCGUUAAGUUGCAGGGUAUAGACCCGAAACCCGGUGAUCUAGCCAUGGGCAGGUUGAAGGUUGGGUAACACUAACUGGAGGACCGAACCGACUAAUGUUGAAAAAUUAGCGGAUGACUUGUGGCUGGGGGUGAAAGGCCAAUCAAACCGGGAGAUAGCUGGUUCUCCCCGAAAGCUAUUUAGGUAGCGCCUCGUGAAUUCAUCUCCGGGGGUAGAGCACUGUUUCGGCAAGGGGGUCAUCCCGACUUACCAACCCGAUGCAAACUGCGAAUACCGGAGAAUGUUAUCACGGGAGACACACGGCGGGUGCUAACGUCCGUCGUGAAGAGGGAAACAACCCAGACCGCCAGCUAAGGUCCCAAAGUCAUGGUUAAGUGGGAAACGAUGUGGGAAGGCCCAGACAGCCAGGAUGUUGGCUUAGAAGCAGCCAUCAUUUAAAGAAAGCGUAAUAGCUCACUGGUCGAGUCGGCCUGCGCGGAAGAUGUAACGGGGCUAAACCAUGCACCGAAGCUGCGGCAGCGACGCUUAUGCGUUGUUGGGUAGGGGAGCGUUCUGUAAGCCUGCGAAGGUGUGCUGUGAGGCAUGCUGGAGGUAUCAGAAGUGCGAAUGCUGACAUAAGUAACGAUAAAGCGGGUGAAAAGCCCGCUCGCCGGAAGACCAAGGGUUCCUGUCCAACGUUAAUCGGGGCAGGGUGAGUCGACCCCUAAGGCGAGGCCGAAAGGCGUAGUCGAUGGGAAACAGGUUAAUAUUCCUGUACUUGGUGUUACUGCGAAGGGGGGACGCAGAAGGCUAUGUUGGCCGGGCGACGGUUGUCCCGGUUUAAGCGUGUAGGCUGGUUUUCCAGGCAAAUCCGGAAAAUCAAGGCUGAGGCGUGAUGACGAGGCACUACGGUGCUGAAGCAACAAAUGCCCUGCUUCCAGGAAAAGCCUCUAAGCAUCAGGUAACAUCAAAUCGUACCCCAAACCGACACAGGUGGUCAGGUAGAGAAUACCAAGGCGCUUGAGAGAACUCGGGUGAAGGAACUAGGCAAAAUGGUGCCGUAACUUCGGGAGAAGGCACGCUGAUAUGUAGGUGAGGUCCCUCGCGGAUGGAGCUGAAAUCAGUCGAAGAUACCAGCUGGCUGCAACUGUUUAUUAAAAACACAGCACUGUGCAAACACGAAAGUGGACGUAUACGGUGUGACGCCUGCCCGGUGCCGGAAGGUUAAUUGAUGGGGUUAGCGCAAGCGAAGCUCUUGAUCGAAGCCCCGGUAAACGGCGGCCGUAACUAUAACGGUCCUAAGGUAGCGAAAUUCCUUGUCGGGUAAGUUCCGACCUGCACGAAUGGCGUAAUGAUGGCCAGGCUGUCUCCACCCGAGACUCAGUGAAAUUGAACUCGCUGUGAAGAUGCAGUGUACCCGCGGCAAGACGGAAAGACCCCGUGAACCUUUACUAUAGCUUGACACUGAACAUUGAGCCUUGAUGUGUAGGAUAGGUGGGAGGCUUUGAAGUGUGGACGCCAGUCUGCAUGGAGCCGACCUUGAAAUACCACCCUUUAAUGUUUGAUGUUCUAACGUUGACCCGUAAUCCGGGUUGCGGACAGUGUCUGGUGGGUAGUUUGACUGGGGCGGUCUCCUCCUAAAGAGUAACGGAGGAGCACGAAGGUUGGCUAAUCCUGGUCGGACAUCAGGAGGUUAGUGCAAUGGCAUAAGCCAGCUUGACUGCGAGCGUGACGGCGCGAGCAGGUGCGAAAGCAGGUCAUAGUGAUCCGGUGGUUCUGAAUGGAAGGGCCAUCGCUCAACGGAUAAAAGGUACUCCGGGGAUAACAGGCUGAUACCGCCCAAGAGUUCAUAUCGACGGCGGUGUUUGGCACCUCGAUGUCGGCUCAUCACAUCCUGGGGCUGAAGUAGGUCCCAAGGGUAUGGCUGUUCGCCAUUUAAAGUGGUACGCGAGCUGGGUUUAGAACGUCGUGAGACAGUUCGGUCCCUAUCUGCCGUGGGCGCUGGAGAACUGAGGGGGGCUGCUCCUAGUACGAGAGGACCGGAGUGGACGCAUCACUGGUGUUCGGGUUGUCAUGCCAAUGGCACUGCCCGGUAGCUAAAUGCGGAAGAGAUAAGUGCUGAAAGCAUCUAAGCACGAAACUUGCCCCGAGAUGAGUUCUCCCUGACCCUUUAAGGGUCCUGAAGGAACGUUGAAGACGACGACGUUGAUAGGCCGGGUGUGUAAGCGCAGCGAUGCGUUGAGCUAACCGGUACUAAUGAACCGUGAGGCUUAACCUU", "paired_bases": [[0, 2901], [1, 2900], [2, 2899], [3, 2898], [4, 2897], [5, 2896], [6, 2895], [7, 2894], [15, 523], [16, 522], [17, 521], [18, 520], [19, 519], [20, 518], [21, 517], [22, 516], [23, 515], [24, 514], [29, 474], [30, 473], [31, 472], [34, 444], [35, 443], [36, 441], [37, 440], [38, 439], [39, 438], [40, 437], [41, 436], [42, 435], [43, 433], [44, 432], [53, 115], [54, 114], [55, 113], [56, 69], [57, 68], [60, 92], [64, 88], [65, 87], [66, 73], [75, 109], [76, 108], [78, 106], [79, 105], [80, 104], [81, 103], [84, 96], [85, 95], [86, 94], [120, 129], [121, 128], [122, 127], [130, 147], [131, 146], [132, 145], [133, 144], [134, 143], [135, 142], [136, 141], [149, 175], [150, 174], [151, 173], [152, 172], [153, 171], [154, 170], [155, 169], [156, 168], [157, 166], [183, 211], [184, 210], [185, 209], [186, 208], [187, 207], [190, 205], [191, 204], [192, 203], [193, 200], [194, 199], [223, 230], [224, 229], [233, 429], [234, 261], [235, 260], [236, 259], [237, 258], [238, 257], [244, 252], [245, 251], [264, 426], [265, 425], [266, 424], [267, 423], [270, 365], [271, 364], [272, 363], [273, 362], [280, 358], [281, 357], [282, 356], [285, 353], [286, 352], [287, 351], [288, 350], [291, 347], [292, 346], [294, 342], [295, 341], [296, 340], [300, 315], [301, 314], [302, 313], [304, 311], [305, 310], [316, 333], [317, 332], [318, 322], [324, 336], [325, 335], [326, 334], [375, 397], [377, 395], [379, 393], [380, 392], [381, 391], [405, 420], [406, 419], [408, 417], [409, 416], [412, 2409], [413, 2408], [414, 2407], [415, 2406], [460, 467], [461, 466], [483, 495], [484, 494], [485, 493], [486, 492], [532, 559], [535, 556], [539, 552], [540, 551], [541, 550], [542, 549], [543, 548], [578, 1260], [579, 1259], [580, 1258], [581, 1257], [582, 1256], [583, 1255], [585, 809], [588, 667], [589, 666], [590, 665], [591, 664], [594, 661], [595, 660], [596, 659], [598, 657], [600, 655], [603, 623], [604, 622], [606, 620], [609, 617], [610, 616], [627, 634], [628, 633], [637, 649], [639, 647], [670, 808], [671, 807], [677, 798], [678, 797], [679, 796], [680, 795], [681, 794], [682, 793], [686, 774], [688, 772], [689, 771], [690, 770], [691, 769], [692, 768], [696, 764], [697, 762], [699, 731], [700, 730], [701, 729], [707, 722], [708, 721], [709, 720], [711, 718], [735, 759], [736, 758], [737, 757], [739, 756], [740, 755], [741, 754], [742, 753], [743, 752], [760, 761], [776, 786], [777, 785], [811, 1194], [812, 1193], [813, 1192], [814, 1191], [815, 1190], [816, 1189], [821, 834], [822, 833], [823, 832], [824, 831], [837, 939], [839, 937], [840, 936], [841, 935], [842, 934], [843, 933], [847, 929], [848, 928], [849, 927], [850, 925], [851, 924], [852, 923], [853, 922], [854, 921], [855, 920], [859, 916], [861, 914], [867, 908], [868, 907], [871, 904], [872, 903], [873, 902], [874, 901], [878, 897], [879, 896], [882, 892], [883, 891], [884, 890], [945, 970], [946, 969], [947, 968], [948, 967], [950, 965], [951, 964], [952, 963], [975, 986], [976, 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1288], [1294, 1644], [1295, 1643], [1296, 1642], [1297, 1641], [1302, 1624], [1303, 1623], [1304, 1622], [1305, 1621], [1306, 1620], [1313, 1337], [1314, 1336], [1315, 1335], [1316, 1334], [1318, 1332], [1319, 1331], [1322, 1330], [1323, 1329], [1342, 1403], [1343, 1402], [1344, 1600], [1345, 1599], [1346, 1598], [1348, 1381], [1349, 1380], [1350, 1379], [1354, 1375], [1356, 1373], [1360, 1369], [1361, 1368], [1362, 1367], [1384, 1401], [1385, 1400], [1386, 1399], [1387, 1398], [1388, 1397], [1404, 1596], [1405, 1595], [1406, 1594], [1408, 1592], [1409, 1591], [1410, 1590], [1411, 1589], [1412, 1588], [1413, 1587], [1419, 1577], [1420, 1576], [1422, 1574], [1423, 1573], [1428, 1563], [1430, 1561], [1431, 1560], [1434, 1556], [1435, 1555], [1436, 1554], [1439, 1550], [1440, 1549], [1441, 1548], [1442, 1547], [1443, 1546], [1445, 1464], [1446, 1463], [1447, 1462], [1448, 1461], [1449, 1460], [1471, 1518], [1472, 1517], [1478, 1511], [1479, 1510], [1480, 1507], [1481, 1506], [1483, 1504], [1484, 1503], [1485, 1502], [1486, 1501], [1487, 1500], [1488, 1499], [1490, 1498], [1491, 1497], [1529, 1540], [1530, 1539], [1531, 1538], [1532, 1537], [1610, 1619], [1611, 1618], [1626, 1638], [1627, 1637], [1628, 1636], [1629, 1635], [1647, 2008], [1648, 2007], [1649, 2006], [1650, 2005], [1655, 2003], [1656, 2002], [1657, 2001], [1658, 2000], [1659, 1999], [1660, 1998], [1661, 1997], [1662, 1996], [1664, 1994], [1665, 1993], [1668, 1990], [1681, 1705], [1682, 1704], [1683, 1703], [1684, 1702], [1685, 1701], [1707, 1749], [1708, 1748], [1709, 1747], [1710, 1746], [1711, 1745], [1716, 1741], [1717, 1740], [1724, 1734], [1725, 1733], [1726, 1732], [1763, 1987], [1764, 1986], [1765, 1985], [1766, 1984], [1767, 1983], [1770, 1979], [1771, 1978], [1774, 1788], [1775, 1787], [1776, 1786], [1777, 1785], [1778, 1784], [1792, 1825], [1793, 1824], [1794, 1823], [1796, 1821], [1797, 1820], [1803, 1812], [1804, 1811], [1805, 1810], [1828, 1975], [1829, 1974], [1830, 1973], [1831, 1972], [1832, 1971], [1834, 1904], [1835, 1903], [1836, 1902], [1839, 1901], [1840, 1900], [1842, 1896], [1843, 1895], [1844, 1894], [1845, 1893], [1848, 1892], [1849, 1891], [1860, 1880], [1862, 1878], [1864, 1876], [1866, 1873], [1867, 1872], [1905, 1923], [1907, 1921], [1908, 1920], [1909, 1919], [1944, 1960], [1945, 1959], [1946, 1958], [1947, 1957], [1948, 1956], [2022, 2039], [2023, 2038], [2024, 2037], [2025, 2036], [2026, 2035], [2042, 2624], [2043, 2623], [2044, 2622], [2046, 2620], [2047, 2619], [2048, 2618], [2049, 2617], [2051, 2616], [2052, 2615], [2053, 2614], [2055, 2611], [2056, 2610], [2062, 2446], [2063, 2445], [2064, 2444], [2065, 2443], [2066, 2442], [2068, 2441], [2069, 2440], [2070, 2437], [2071, 2436], [2072, 2435], [2073, 2434], [2074, 2433], [2076, 2242], [2077, 2241], [2078, 2240], [2079, 2239], [2083, 2234], [2086, 2231], [2087, 2230], [2088, 2229], [2089, 2228], [2090, 2227], [2091, 2226], [2092, 2195], [2093, 2194], [2094, 2193], [2095, 2192], [2096, 2191], [2097, 2190], [2100, 2187], [2102, 2185], [2104, 2183], [2105, 2182], [2107, 2180], [2119, 2177], [2120, 2176], [2121, 2175], [2122, 2174], [2123, 2173], [2126, 2160], [2127, 2159], [2128, 2158], [2136, 2153], [2137, 2152], [2140, 2149], [2141, 2148], [2142, 2147], [2199, 2222], [2200, 2221], [2204, 2218], [2205, 2217], [2206, 2216], [2207, 2215], [2208, 2214], [2245, 2257], [2246, 2256], [2247, 2255], [2249, 2253], [2258, 2280], [2259, 2279], [2260, 2278], [2261, 2277], [2262, 2276], [2263, 2275], [2283, 2383], [2284, 2382], [2287, 2343], [2289, 2341], [2291, 2339], [2292, 2338], [2293, 2337], [2294, 2336], [2295, 2335], [2296, 2320], [2298, 2316], [2299, 2315], [2300, 2314], [2301, 2313], [2302, 2312], [2322, 2331], [2327, 2386], [2328, 2385], [2329, 2384], [2346, 2369], [2347, 2368], [2348, 2367], [2349, 2366], [2352, 2363], [2353, 2362], [2354, 2361], [2371, 2380], [2372, 2379], [2373, 2378], [2394, 2420], [2395, 2419], [2397, 2417], [2398, 2416], [2399, 2415], [2402, 2412], [2403, 2411], [2454, 2495], [2455, 2494], [2458, 2490], [2460, 2488], [2461, 2487], [2462, 2486], [2463, 2485], [2464, 2484], [2465, 2483], [2469, 2479], [2470, 2478], [2506, 2580], [2508, 2578], [2509, 2577], [2510, 2576], [2511, 2575], [2512, 2570], [2514, 2568], [2515, 2567], [2516, 2566], [2517, 2545], [2519, 2543], [2520, 2542], [2521, 2540], [2522, 2539], [2523, 2538], [2524, 2537], [2526, 2535], [2546, 2560], [2547, 2559], [2548, 2558], [2549, 2557], [2550, 2556], [2587, 2605], [2588, 2604], [2589, 2603], [2590, 2602], [2591, 2600], [2592, 2599], [2593, 2598], [2629, 2787], [2630, 2786], [2631, 2785], [2632, 2784], [2633, 2783], [2634, 2782], [2635, 2781], [2636, 2780], [2639, 2773], [2640, 2772], [2641, 2771], [2642, 2770], [2645, 2673], [2648, 2670], [2649, 2669], [2650, 2668], [2651, 2667], [2657, 2662], [2675, 2730], [2676, 2729], [2677, 2728], [2678, 2727], [2679, 2726], [2690, 2717], [2691, 2716], [2692, 2715], [2693, 2714], [2695, 2710], [2696, 2709], [2698, 2707], [2699, 2706], [2700, 2705], [2735, 2767], [2736, 2766], [2741, 2761], [2742, 2760], [2743, 2759], [2744, 2758], [2745, 2757], [2790, 2804], [2791, 2803], [2792, 2802], [2793, 2801], [2794, 2800], [2795, 2799], [2810, 2888], [2811, 2887], [2812, 2832], [2813, 2831], [2814, 2830], [2815, 2829], [2816, 2828], [2818, 2826], [2835, 2881], [2836, 2880], [2837, 2879], [2839, 2876], [2840, 2875], [2841, 2874], [2842, 2873], [2850, 2865], [2852, 2863], [2853, 2862], [2854, 2861], [2855, 2860]]},
 "3CW5-2D":{"sequence": "CGCGGGGUGGAGCAGCCUGGUAGCUCGUCGGGCUCAUAACCCGAAGAUCGUCGGUUCAAAUCCGGCCCCCGCAACCA", "paired_bases": [[1, 71], [2, 70], [3, 69], [4, 68], [5, 67], [6, 66], [9, 25], [10, 24], [11, 23], [12, 22], [19, 56], [27, 43], [28, 42], [29, 41], [30, 40], [31, 39], [49, 65], [50, 64], [51, 63], [52, 62], [53, 61]]},
 "2A64-2D":{"sequence": "GUUAAUCAUGCUCGGGUAAUCGCUGCGGCCGGUUUCGGCCGUAGAGGAAAGUCCAUGCUCGCACGGUGCUGAGAUGCCCGUAGUGUUCGUGCCUAGCGAAUCCAUAAGCUAGGGCAGCCUGGCUUCGGCUGGGCUGACGGCGGGGAAAGAACCUACGUCCGGCUGGGAUAUGGUUCGAUUACCCUGAAAGUGCCACAGUGACGGAGCUCUAAGGGAAACCUUAGAGGUGGAACGCGGUAAACCCCACGAGCGAGAAACCCAAAUGAUGGUAGGGGCACCUUCCCGAAGGAAAUGAACGGAGGGAAGGACAGGCGGCGCAUGCAGCCUGUAGAUAGAUGAUUACCGCCGGAGUACGAGGCGCAAAGCCGCUUGCAGUACGAAGGUACAGAACAUGGCUUAUAGAGCAUGAUUAAC", "paired_bases": [[2, 411], [3, 410], [4, 409], [5, 408], [6, 407], [7, 406], [8, 405], [9, 404], [10, 403], [11, 402], [12, 401], [13, 399], [14, 343], [15, 342], [16, 341], [17, 340], [18, 339], [19, 338], [20, 337], [22, 43], [23, 42], [24, 41], [25, 40], [26, 39], [27, 38], [28, 37], [29, 36], [30, 35], [45, 385], [49, 396], [50, 395], [52, 394], [53, 393], [54, 392], [55, 391], [56, 390], [57, 253], [58, 252], [59, 251], [60, 250], [61, 249], [62, 80], [63, 79], [64, 78], [65, 77], [67, 76], [68, 75], [86, 248], [87, 247], [88, 246], [89, 245], [90, 244], [91, 112], [92, 111], [93, 110], [94, 109], [95, 108], [96, 107], [113, 137], [114, 135], [115, 134], [116, 133], [117, 132], [118, 131], [138, 243], [139, 242], [141, 183], [142, 182], [143, 181], [189, 241], [190, 240], [192, 236], [193, 235], [257, 273], [258, 272], [259, 271], [277, 306], [278, 305], [279, 304], [280, 303], [281, 302], [282, 301], [283, 300], [287, 296], [307, 328], [308, 327], [309, 326], [310, 325], [311, 324], [312, 323], [345, 382], [346, 381], [350, 377], [352, 375], [353, 374]]},
 "1SCL-2D":{"sequence": "GGGUGCUCAGUACGAGAGGAACCGCACCC", "paired_bases": [[0, 28], [1, 27], [2, 26], [3, 25], [4, 24], [5, 23], [12, 17]]},

info.json

@@ -1,9 +1,9 @@
 {
     "name": "PDB",
-    "upload_date": "2023-12-06 13:27:53",
+    "upload_date": "2023-12-06 16:53:41",
     "user": "alberic",
     "source": "`bpSEQ_files_pdbee` (BPSEQ files format)",
     "structure": "source",
     "about structure": "Read from source.",
-    "filtering_report": "Over a total of 443 datapoints, there are:\n    - 334 valid datapoints\n    - 0 invalid datapoints (ex: sequence with non-regular characters)\n    - 0 datapoints with the same reference\n    - 50 duplicate sequences with the same structure / dms\n    - 59 duplicate sequences with different structure / dms"
+    "filtering_report": "Over a total of 442 datapoints, there are:\n    - 333 valid datapoints\n    - 0 invalid datapoints (ex: sequence with non-regular characters)\n    - 0 datapoints with the same reference\n    - 50 duplicate sequences with the same structure / dms\n    - 59 duplicate sequences with different structure / dms"
 }