Please cite:
Schudoma et al.,
Nucl. Acids Res. 38: 970-980.
DOI 10.1093/nar/gkp1010.
RLooM: RNA Loop Modeling based on homology and geometric constraints - Loop Database
Current Database Version 12-19-08 (sion)
Browse Database
Hairpins (13,085) Single Strand Segments (46,361) Internal Loops (17,133) Multiloops (5,756)

Length 6 Segments (10.0-cluster)

Cluster #structures
1051 279
2859 133
1234 126
324 122
1295 114
2105 105
2349 99
361 86
2642 86
2309 75
2301 75
2300 74
399 71
1182 66
1087 66
336 64
2077 62
1245 60
1243 59
2468 53
571 46
201 42
94 41
1254 39
1972 35
238 35
575 31
2032 27
2240 26
Small clusters (size < 25)
403 (24) 555 (24) 2267 (22) 2624 (22) 478 (18) 1059 (15) 1720 (14) 1562 (13) 504 (12) 471 (12) 365 (12) 616 (12) 481 (11) 497 (10) 1975 (10) 486 (9) 1650 (9) 2051 (9) 830 (7) 185 (7) 1429 (6) 1883 (6) 1318 (6) 1714 (6) 2197 (6) 1755 (5) 1473 (5) 845 (5) 1447 (5) 415 (5) 854 (5) 881 (5) 879 (5) 878 (5) 871 (5) 870 (5) 860 (5) 858 (5) 838 (5) 2364 (5) 827 (5) 862 (5) 1812 (5) 780 (5) 779 (5) 234 (5) 2394 (5) 887 (5) 819 (5) 2381 (4) 1478 (4) 2988 (4) 416 (4) 2389 (4) 1421 (4) 1358 (4) 1417 (4) 282 (4) 1422 (4) 236 (4) 721 (4) 55 (4) 2576 (4) 2571 (4) 1535 (3) 408 (3) 844 (3) 1475 (3) 441 (3) 1770 (3) 2470 (3) 1612 (3) 2433 (3) 351 (3) 2900 (3) 841 (3) 2373 (3) 564 (3) 1528 (3) 1600 (3) 1137 (3) 1646 (3) 1606 (3) 1601 (3) 1433 (3) 13 (3) 1518 (2) 1496 (2) 1495 (2) 2382 (2) 1941 (2) 2482 (2) 2451 (2) 2448 (2) 1934 (2) 2445 (2) 2894 (2) 2429 (2) 2423 (2) 2412 (2) 2910 (2) 2915 (2) 2390 (2) 1100 (2) 2896 (2) 2892 (2) 1856 (2) 1840 (2) 811 (2) 1827 (2) 1824 (2) 2178 (2) 2176 (2) 1098 (2) 1706 (2) 27 (2) 2183 (2) 2168 (2) 1654 (2) 627 (2) 1120 (2) 1116 (2) 420 (2) 1111 (2) 1108 (2) 1105 (2) 1611 (2) 1609 (2) 1608 (2) 1578 (2) 2593 (2) 2052 (2) 1554 (2) 12 (2) 1194 (1) 2388 (1) 1524 (1) 1522 (1) 1519 (1) 1517 (1) 1959 (1) 2981 (1) 1533 (1) 1834 (1) 1492 (1) 1489 (1) 2417 (1) 1944 (1) 2453 (1) 1544 (1) 1610 (1) 444 (1) 429 (1) 427 (1) 2469 (1) 2974 (1) 1946 (1) 1945 (1) 2456 (1) 2455 (1) 2452 (1) 1937 (1) 1932 (1) 1943 (1) 2441 (1) 2440 (1) 1345 (1) 2438 (1) 1837 (1) 2432 (1) 2431 (1) 2427 (1) 2424 (1) 1904 (1) 2405 (1) 1890 (1) 1936 (1) 2398 (1) 1869 (1) 567 (1) 840 (1) 2375 (1) 2602 (1) 2619 (1) 1848 (1) 2356 (1) 1843 (1) 1842 (1) 1841 (1) 1327 (1) 2610 (1) 1322 (1) 1321 (1) 1832 (1) 2343 (1) 2694 (1) 797 (1) 786 (1) 1808 (1) 1807 (1) 778 (1) 2604 (1) 2603 (1) 768 (1) 1870 (1) 1149 (1) 2586 (1) 739 (1) 737 (1) 728 (1) 726 (1) 725 (1) 2595 (1) 1740 (1) 1887 (1) 2439 (1) 694 (1) 2228 (1) 2589 (1) 1195 (1) 428 (1) 1693 (1) 367 (1) 2195 (1) 146 (1) 145 (1) 144 (1) 138 (1) 1158 (1) 2693 (1) 1154 (1) 1153 (1) 1152 (1) 2175 (1) 1150 (1) 125 (1) 1146 (1) 108 (1) 102 (1) 1852 (1) 99 (1) 1627 (1) 867 (1) 1103 (1) 588 (1) 586 (1) 1095 (1) 1603 (1) 1538 (1) 2618 (1) 57 (1) 1118 (1) 52 (1) 51 (1) 50 (1) 49 (1) 48 (1) 47 (1) 46 (1) 45 (1) 44 (1) 2601 (1) 2600 (1) 2599 (1) 2598 (1) 2597 (1) 2596 (1) 2594 (1) 2591 (1) 28 (1) 1558 (1) 1550 (1) 10 (1) 9 (1) 8 (1) 7 (1) 6 (1) 5 (1) 4 (1) 3 (1) 2 (1) 1 (1) 0 (1)
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Sequence-based queries may include NC-IUB ambiguity codes. Internal loops and multibranched loops can be searched by separating the individual loop segments with a '-' character.



Single strand search:




For a query sequence of N bases, the input range is [0,N]. The default value of 0 will be used when ambiguity codes are present in the query sequence or the input is negative. Similarly, N will be used if the input is larger than the length of the query sequence.

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Enter a 4-character pdb id. The search may be restricted to an individual chain, by attaching ':chain-id' (e.g., 2tra:A), with '%' matching any chain.

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