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 2-2 Internal Loops (10.0-cluster)

Cluster #structures
1559 430
1795 273
1197 154
1196 154
855 84
195 84
192 84
1887 72
89 47
1143 38
418 34
417 34
339 26
336 26
Small clusters (size < 25)
432 (22) 433 (22) 385 (18) 384 (18) 1619 (15) 326 (12) 987 (10) 631 (10) 697 (10) 696 (10) 680 (10) 679 (10) 630 (10) 1249 (8) 647 (8) 1150 (7) 995 (6) 994 (6) 1595 (6) 1594 (6) 693 (5) 692 (5) 664 (5) 643 (5) 642 (5) 74 (5) 1081 (5) 441 (4) 1401 (4) 829 (4) 828 (4) 825 (4) 824 (4) 601 (4) 1071 (4) 30 (4) 27 (4) 469 (2) 468 (2) 945 (2) 933 (2) 932 (2) 1920 (2) 885 (2) 884 (2) 881 (2) 880 (2) 1349 (2) 1348 (2) 831 (2) 830 (2) 269 (2) 268 (2) 1289 (2) 1288 (2) 1279 (2) 1278 (2) 1245 (2) 1244 (2) 1243 (2) 1242 (2) 1140 (2) 1121 (2) 1120 (2) 599 (2) 598 (2) 264 (2) 944 (2) 21 (2) 20 (2) 19 (2) 18 (2) 15 (2) 14 (2) 5 (2) 4 (2) 1099 (1) 1098 (1) 221 (1) 220 (1) 1281 (1) 1280 (1) 1257 (1) 1256 (1) 75 (1) 1063 (1) 1062 (1) 7 (1) 6 (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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