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 3-3 Internal Loops (10.1-cluster)

Cluster #structures
2389 212
2388 212
4019 196
4018 196
1841 167
1840 167
3443 162
3442 162
744 156
745 156
3455 152
3454 152
921 120
920 120
1653 120
1652 120
421 119
420 119
3749 78
3748 78
3007 60
3006 60
3077 49
3076 49
2925 48
2924 48
3161 48
3160 48
3133 48
3132 48
3001 46
3000 46
653 44
652 44
2591 33
2590 33
3511 28
3510 28
Small clusters (size < 25)
1257 (22) 1256 (22) 2599 (21) 2598 (21) 2545 (18) 2544 (18) 2727 (16) 2726 (16) 4251 (16) 4250 (16) 2067 (16) 2066 (16) 2293 (14) 2292 (14) 3393 (12) 3392 (12) 1001 (10) 973 (10) 972 (10) 1000 (10) 1055 (10) 1054 (10) 2079 (6) 2078 (6) 3813 (5) 3812 (5) 219 (5) 218 (5) 1037 (5) 1036 (5) 1013 (5) 1012 (5) 1029 (5) 1028 (5) 3565 (4) 3564 (4) 3499 (4) 3498 (4) 1865 (4) 1864 (4) 1509 (4) 1575 (4) 1574 (4) 4321 (4) 4320 (4) 211 (4) 210 (4) 2563 (4) 3745 (4) 3744 (4) 2562 (4) 2183 (4) 2182 (4) 2171 (4) 2170 (4) 3697 (4) 3696 (4) 2155 (4) 2154 (4) 1544 (4) 3013 (3) 3012 (3) 4485 (3) 4484 (3) 104 (3) 105 (3) 3563 (2) 3562 (2) 3557 (2) 3556 (2) 1505 (2) 1504 (2) 3547 (2) 3546 (2) 1491 (2) 1490 (2) 1483 (2) 1479 (2) 949 (2) 948 (2) 1514 (2) 1899 (2) 1898 (2) 873 (2) 872 (2) 1885 (2) 1884 (2) 1477 (2) 1857 (2) 1856 (2) 1851 (2) 1850 (2) 1476 (2) 2695 (2) 2694 (2) 475 (2) 474 (2) 2177 (2) 2176 (2) 2775 (2) 2774 (2) 2165 (2) 1482 (2) 2164 (2) 695 (2) 694 (2) 3763 (2) 3762 (2) 2225 (2) 1641 (2) 2719 (2) 2718 (2) 669 (2) 668 (2) 2181 (2) 2180 (2) 2168 (2) 1640 (2) 2151 (2) 2150 (2) 101 (2) 100 (2) 2143 (2) 2653 (2) 2652 (2) 441 (2) 440 (2) 2627 (2) 2626 (2) 1593 (2) 1592 (2) 1536 (2) 2089 (2) 2088 (2) 2224 (2) 25 (2) 24 (2) 21 (2) 20 (2) 1043 (2) 1042 (2) 17 (2) 16 (2) 13 (2) 12 (2) 9 (2) 8 (2) 1537 (2) 3 (2) 2 (2) 3573 (1) 3572 (1) 2641 (1) 483 (1) 482 (1) 3535 (1) 3534 (1) 1485 (1) 1484 (1) 3419 (1) 3418 (1) 3775 (1) 3787 (1) 3786 (1) 3774 (1) 665 (1) 664 (1) 139 (1) 138 (1) 641 (1) 640 (1) 125 (1) 124 (1) 2152 (1) 2166 (1) 2153 (1) 2640 (1) 2167 (1) 27 (1) 26 (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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