RNA Secondary Structure Atlas - PDB - DAFS(20)

1VX6_B	[ FASTA input ]	GACUCGUUCAUACUACAGUGGAUACACCAGAUCCCAUCAGAACUCUGAAGUUAAGCACUGUAAGGCUUGGCUAGUACUGAGGUGGGAGACCGCUCGGGAACACCAGGUGAUGAGUCAG
	[ reference std structure ]	((((((((....((((((((.....((.(((...(....)...)))...))....)))))).))((((((......(((((..((....)).))))).....))))))))))))))..
	[ reference ext structure ]	([[[[[[[....[[[[[[[[[.)](((((((...([...).].))))..))...)]]]]]].]](((((((((()(((((((.(((..)))))))))).)))))))))]]]]]]]...                     (                                 )                                                                                           (                    )                                                                                                (                         )                                                                                                  (           )                                                                                                                 (  )                                                                                                     (                           )                                                                                                                                           (                       )                                                     (         )                                                                           (                                                                                                                  )
	[ predicted structure ]	((((((((....((((((((.....((((((............))))..))....)))))).))((((((......((.((.(((....))))).)).....))))))))))))))..
2N1Q_A	[ FASTA input ]	GGUGCCCGUCUGUUGUGUGACUCUGGUGAGAGCCAGAGGAGAUCUCUCGACGCAGGACUCGGCUUGCUGGAGACGGCAAGAGGCGAGGGGCGGCGACUGGUGAGUACGCCAAAAAUUUUGACUAGCGGAGGCUAGAAGGAGAGAGAUGGGUGCCC
	[ reference std structure ]	(((((((((((...((((..(((((((....)))))))...(((..(((.(((....((((.(((((((....)))))))...))))..))).)))..)))....)))).......(((..(((((....)))))..)))...))))))))))).
	[ reference ext structure ]	((((((((((((((((((.(((((((((..)))))))))..((((((((((((((..(((((((((((((..)))))))))..))))))))))))))))))....)))).).....((((((((((....)))))))))).))))))))))))).
	[ predicted structure ]	....((((......................................................(((((((....)))))))..................................................................)))).....
2N7M_X	[ FASTA input ]	GGCCUUAUGCACGGGAAAUACGCAUAUCAGUGAGGAUUCGUCCGAGAUUGUGUUUUUGCUGGUGUAAAUCAGCAGUUCCCCUGCAUAAGGCU
	[ reference std structure ]	(((((((((((.((((...(.(((...(.................)..))).)...((((((......))))))..)))).)))))))))))
	[ reference ext structure ]	(((((((((((.(((((..(((((.(.(.....(((....)))..).))))))...(((((((....))))))).))))).)))))))))))
	[ predicted structure ]	..((.........))....(((((.(((.....(((....)))..)))))))).......................................
3J46_p	[ FASTA input ]	GCGGGAAUAGCUCAGUUGGUAGAGCACGACCUUGCCAAGGUCGGGGUCGCGAGUUCGAGUCUCGUUUCCCGCUCCA
	[ reference std structure ]	(((((((...((..........)).....(.........)........((((.........)))))))))))....
	[ reference ext structure ]	((((((((.[[[..{.<...)<]]](((.((.......)).))).>.}aaaaaa..>A..AAAAA)))))))....               (                                           )                                           (                  )
	[ predicted structure ]	(((((((..((((........)))).(((((.......))))).....(((((.......))))))))))))....
3J5B_1	[ FASTA input ]	GGGUGAUUAGCUCAGCUGGGAGAGCACCUCCCUUACAAGGAGGGGGUCGGCGGUUCGAUCCCGUCAUCACCCACCA
	[ reference std structure ]	(((((.(..((((........))))...(((.......))).......(((((.......)))))).)))))....
	[ reference ext structure ]	(((((((([{{.{)<..ab..}]}}((((((.......))))))...>ccccccAB.C..CCCCC)))))))....            (          )                                                                           (                       )
	[ predicted structure ]	(((((((..((((........)))).(((((.......))))).....(((((.......))))))))))))....
3J5N_W	[ FASTA input ]	GGCUACGUAGCUCAGUUGGUUAGAGCACAUCACUCAUAAUGAUGGGGUCACAGGUUCGAAUCCCGUCGUAGCCACCA
	[ reference std structure ]	(((((((..(((...........))).(((((.......)))))......(.((.......)).).)))))))....
	[ reference ext structure ]	(((((((([{{..)<..ab...b]}}((((((.......)))))).B.>cc.cccAB.C..CC.CC)))))))....                                                   (              )                       (           )
	[ predicted structure ]	(((((((..((((.........)))).(((((.......))))).....(((((.......))))))))))))....
3JB9_N	[ FASTA input ]	GAUCUUCGGAUCACUUUGGUCAAAUUGAAACGAUACAGAGAAGAUUAGCAUGGCCCCUGCACAAGGAUGACACUGCGACAUUGAGAGAAA
	[ reference std structure ]	.(........)........................................(..((((.....)))..).)...................
	[ reference ext structure ]	((((....))))...........................((.....))(.[[[.[(((.....))).)]]]]..................
	[ predicted structure ]	((((....)))..).................................((.((...(((.....)))....))..))..............
3WQY_C	[ FASTA input ]	GGGCUCGUAGCUCAGCGGGAGAGCGCCGCCUUUGCGAGGCGGAGGCCGCGGGUUCAAAUCCCGCCGAGUCCACCA
	[ reference std structure ]	(((((((..((((....[..)))).((((((.....)))))).....{{{{{..]....}}}}})))))))....
	[ reference ext structure ]	(((((((([{{.{)<.ab..}]}}(((((((.....)))))))...>ccccccAB.C..CCCCC)))))))....                     (                       )                                          (         )
	[ predicted structure ]	(((((((..((((.......)))).(((((.......))))).....(((((.......))))))))))))....
4CXG_Y	[ FASTA input ]	GCGGAUUUAGCUCAGUUGGGAGAGCGCCGGUCUCCAAAACCGGAGGUCCUGUGUUCGAUCCACAGAAUUCGCACCA
	[ reference std structure ]	(((((((..((.(.....[..).)).(((((.......))))).....{{{{{..]....}}}}})))))))....
	[ reference ext structure ]	(((((((([{{.{)<a.ab..}]}}.((((((.....))))))....>ccccccAB.CA.CCCCC)))))))....            (          )                                                                           (                       )
	[ predicted structure ]	(((((((..((((........)))).(((((.......))))).....(((((.......))))))))))))....
4L81_A	[ FASTA input ]	GGAUCACGAGGGGGAGACCCCGGCAACCUGGGACGGACACCCAAGGUGCUCACACCGGAGACGGUGGAUCCGGCCCGAGAGGGCAACGAAGUCCGU
	[ reference std structure ]	(((((....((((....))))(((..((((((.[[[[..))).))).)))..(((((....)))))))))).((((....)))).......]]]].
	[ reference ext structure ]	(((((..(((((((..)))))[)).()(((((.{{{{..))).))....]..((((((..)))))))))))((((((..))))))......}}}}.                           (                  )                                                                         (                         )                                                                       (                       )                                                                               (                                                          )                                                   (                          )                                                                  (                                            )                                                    ()
	[ predicted structure ]	.((......((((....))))((((.((((((.(....))))).))))))..................))...(((....))).............
4MGN_D	[ FASTA input ]	CGGAAGUAGUUCAGUGGUAGAACACCACCUUGCCAAGGUGGGGGUCGCGGGUUCGAGUCCCGUCUUCCGCUC
	[ reference std structure ]	((((((..((((....[..)))).(((((.......))))).....{{{{{..]....}}}}}))))))...
	[ reference ext structure ]	((((((([{{.{)<.a().}]}}((((((.......))))))...>bbbbbbA..B..BBBBB))))))...                    (                       )                                             (                                    )                             (         )
	[ predicted structure ]	((((((..((((.......)))).(((((.......))))).....(((((.......)))))))))))...
4MGN_B	[ FASTA input ]	CGGAAGUAGUUCAGUGGUAGAACACCACCUUGCCAAGGUGGGGGUCGCGGGUUCGAGUCCCGUCUUCCGCU
	[ reference std structure ]	((((((..((((....[..)))).(((((.......))))).....{{{{{..]....}}}}}))))))..
	[ reference ext structure ]	((((((([{{.{)<.a().}]}}((((((.......))))))...>bbbbbbA..B..BBBBB))))))..                    (                       )                                            (                                    )                            (         )
	[ predicted structure ]	((((((..((((.......)))).(((((.......))))).....(((((.......)))))))))))..
4OQU_A	[ FASTA input ]	GGAUCACGAGGGGGAGACCCCGGCAACCUGGGACGGACACCCAAGGUGCUCACACCGGAGACGGUGGAUCCGGCCCGAGAGGGCAACGAAGGUCCGA
	[ reference std structure ]	(((((....((((....))))(((..((((((.[[[[[.))).))).)))..(((((....)))))))))).((((....)))).......]]]]].
	[ reference ext structure ]	(((((..((((((....))))[))..((((((.{{{{{.))).)))...]..(((((....))))))))))((((((..))))))......}}}}}.                       (                         )                                                                        (                       )                                                                                (                                                          )                                                    (                          )                                                                   (                                            )                                                     ()
	[ predicted structure ]	..(......((((....))))((((.((((((.(....))))).))))))..................)((.(((......))).))..........
4QK8_A	[ FASTA input ]	GUUGCCGAAUCCGAAAGGUACGGAGGAACCGCUUUUUGGGGUUAAUCUGCAGUGAAGCUGCAGUAGGGAUACCUUCUGUCCCGCACCCGACAGCUAACUCCGGAGGCAAUAAAGGAAGGA
	[ reference std structure ]	..((((....((....))..(((((....(.....(.[((((....((((((.....))))))..(((((.{{{{{{)))))..)))).)].)....)))))..)))).....}}}}}}.
	[ reference ext structure ]	..((((((.((((..))))[.(((((..((.....(.[((((.(.(((((((.....)))))))[)((((.{{{{{{)))).].)))).)].))..))))))]))))).....}}}}}}.                                                                              (                                 )                                                                                                (   )                                                                                              (               )                                                           (                                                                                )                                                                                                           ( )                                                                    (                                                    )
	[ predicted structure ]	..((((....((....))..(((((.....................((((.........))))..((.(.........).))...............)))))..))))............
4UE4_A	[ FASTA input ]	GCCGUGCUAAGCGGGGAGGUAGCGGUGCCCUGUACCUGCAAUCCGCUCUAGCAGGGCCGAAUCCCUUCUCGAGGUUCGUUUACUUUAAGGCCUGCCUUAAGUAAGUGGUGUUGACGUUUGGGUCCUGCGCAAUGGGAAUUCAUGAACCAUGUCAGGUCCGGAAGGAAGCAGCAUUAAGUGAAACCUCUCAUGUGCCGCAGGGUUGCCUGGGCCGAGCUAACUGCUUAAGUAACGCUAGGGUAGCGAAUCGACAGAAGGUGCACGGU
	[ reference std structure ]	(((((((...((((((.......[[..))))...{{{{{...]]......}}}}}))......((((((...((((((.((((((((.(..((((.(((((((.(((((.(((..(((((((.((((((((..((((.(((((.....((((....(((....)))....))))...)))).)..))))...)).))))))....)))))))))))))).)))))))))))..))))))))))))))))...)))))).)))))))                                                                                          (                                                                                                                                                )
	[ reference ext structure ]	(((((((((((((((((..([[)[[[)))))(.){{{{{.].]].]]...}}}}})))))(..(((((((((((((((.((((((((.(..((((.(((((((.(((((({)(..(((((((.((((((((..(((((((((((....(((((.(((((....)))).))))))..))))).).)))))...)).))))))....)))))))).})))).)))))))))))..)))))))))))))))))))))))))))))))))         (                                                   )                                                                                                                                                                                                                                                                                            (                                                                                                                                                                    )                                                                                                                   (                                                                                                                                           )                                                       (                          )                                                                                                                                                                                                                                                                                                                                         (                                                                                                     )                                                                                                                                              (                                                                                                                                                )                                                      (                          )
	[ predicted structure ]	..((((..............(((((.((.........))...))))).........................((...((...((((.((......((((((..((((((......((((((((((((((((((((((..((((.....((((....(((....)))....))))...))))....)))))).)).))))))...))))))))...)))).)).)))))).....))))))..))...))...........))))..
4UE5_A	[ FASTA input ]	GCCGGGCGCGGUGGCGCGCGCCUGUAGUCCCAGCUACUCGGGAGGCUGAGGCAGGAGGAUCGCUUGAGCCCAGGAGUUCUGGGCUGCAGUGCGCUAUGCCGAUCGGGUGUCCGCACUAAGUUCGGCAUCAAUAUGGUGACCUCCCGGGAGCGGGGGACCACCAGGUUGCCUAAGGAGGGGUGAACCGGCCCAGGUCGGAAACGGAGCAGGUCAAAACUCCCGUGCUGAUCAGUAGUGGGAUCGCGCCUGUGAAUAGCCACUGCACUCCAGCCUGUGCAACAUAGCGAGACCCCGUCUCU
	[ reference std structure ]	((((((((((..[...)))))))....{{{{.....]..}}}}))).(((((.((....(((((...((.((((.....((((..((((((.(((((......(((((((((.(((((.(.(((((.(((.(..((.(..((((((....))))))..).))..).))......(.(((((.....((((....(((....)))....))))...))))))).))))).)..)))))))...)))))))...)))))))))))..)))).)))).)).....)))))...)).))))).
	[ reference ext structure ]	(((((((((((.[{).)))))))....<<<<.....]}.>>>>))).((((((((.(.)(((((..((..((((...(<)(((.(((((((.(((((......(((((((((.((((((((((((((((((((.((.(((((((((..<a)))))))))).)).))))......b.bbbbbb....bbbbbbbbbb....>ABBBBBBBBBB..BBBBBBB)))))))))).)))))))...)))))))...)))))))))))).))).>)))).).)....)))))...)))))))).                                                                                                                                         (                      )                                                                                                                                                                                                                                                                                                                                                (    )                                                                                                                                                                                                                                                                                                                                                                                       ( )                                                                                                                                                           (                        )                                                                                                                                                                                                                                                                               (                              )                                                                                                                                                                                                                                                                                             (                                                  )                                                                                                                                                                                                                                        (                            )                                                                                                                                                                                                             (                                                                                                                                                                                                              )                                      (                       )                                                                                                                                                                                                                                                                                                                                        (                                                                                                                                                                                                                )                                                                                                      (                                                                                                                                                                                            )                                                                                                                                                                                                                                    (  )
	[ predicted structure ]	....(((............))).........((((........))))....................(((((((....(((((((((((((.(((((..(...(((((((((.(((((.(.(((((((((((.(((((.(((((((....))))))).))))).))))........(((((......(((....(((....)))....)))....))))).))))))).)..)))))))...))))))).).)))))))))))))))))))))))))......................
4W24_7	[ FASTA input ]	GUCUACGGCCAUACCACCCUGAACGCGCCCGAUCUCGUCUGAUCUCGGAAGCUAAGCAGGGUCGGGCCUGGUUAGUACUUGGAUGGGAGACCGCCUGGGAAUACCGGGUGCUGUAGGCUU
	[ reference std structure ]	((((((.......((...((......((((((...(....)...))))..)).....))....))((((((......((.((..((....)).)).)).....))))))...))))))..
	[ reference ext structure ]	(((((...(...)(((.((((.....((((((...(....)...))))..))....)))))..))((((((..(()(((((((.(((..)))))))))).)..))))))...).))))..                                                                                                                ()                                  (                           )                                                                                              (                    )                                                                                                         (         )                                                                                           (                                             )                                                               (                                                                                                            )                                  (                         )                                                                                                                                              (                       )                                     (                                           )                                                                                             (           )                                                                                                                   (  )                                                                                  (                                                                                                          )
	[ predicted structure ]	(((((((((....((((((((...((..((((............))))..))....)))))).))(((((((.....((.((.(((....))))).))....))))))))))))))))..
4W24_8	[ FASTA input ]	CGACUCUUAGCGGUGGAUCACUCGGCUCGUGCGUCGAUGAAGAACGCAGCUAGCUGCGAGAAUUAAUGUGAAUUGCAGGACACAUUGAUCAUCGACACUUCGAACGCACUUGCGGCCCCGGGUUCCUCCCGGGGCUACGCCUGUCUGAGCGUCGCU
	[ reference std structure ]	............................................(((.[[....[)))...]...{{{......]].............}}}.............((....))(.....((.......)).....)....................
	[ reference ext structure ]	....................................(..(.(.(.((.[[....[))).{.]...{{{{{{{..]]..}.......}}}}}}...}....))..)((....))(((...((((.)..)))...)))....................                                                          ()                                                                                                                                             (                                                      )                                                                                                       (              )                                                                                                                                            (            )
	[ predicted structure ]	...................................((((.....((((......))))...............................))))....................(((((((((.....)))))))))....................
4WFL_A	[ FASTA input ]	GCCGUGCUAAGCGGGGAGGUAGCGGUGCCCUGUACCUGCAAUCCGCUCUAGCAGGGCCGAAUCCCUUCUCGAGGUUCGGUAACGAAUCGACAGAAGGUGCACGGU
	[ reference std structure ]	(((((((...((((((....[[[[[..))))...{{{{{...]]]]]...}}}}}))......((((((...((((((....))))))...)))))).)))))))
	[ reference ext structure ]	(((((((((((((((((...[[[[[.)))))(.){{{{{]...]]]]...}}}}})))))(..((((((((((((((((..))))))))))))))))))))))))                      (                           )                                                                (                                                   )                                                                     (                 )
	[ predicted structure ]	.((((((.............((((((((.........)))..)))))................((((((...((((((....))))))...)))))).))))).)
4WJ4_B	[ FASTA input ]	UCCGCGAUAGCUCAGUCGGUAGAGCAAAUGACUGUUAAUCAUUGGGUCCCUGGUUCGAGUCCAGGUCGCGGAGCCA
	[ reference std structure ]	(((((((..((((.....[..)))).(((((.......))))).....{{{{{..]....}}}}})))))))....
	[ reference ext structure ]	(((((((([{{.{)<..ab..}]}}(((((((.....)))))))...>ccccccAB.C..CCCCC)))))))....            (          )                                                                           (                       )
	[ predicted structure ]	(((((((..((((........)))).(((((.......))))).....(((((.......))))))))))))....
4XW7_A	[ FASTA input ]	GGGUCGUGACUGGCGAACAGGUGGGAAACCACCGGGGAGCGACCCUUGCCGCCCGCCUGGGCAA
	[ reference std structure ]	(((((((..((........(((((....))))).))..)))))))(((((.........)))))
	[ reference ext structure ]	((((((((((((......[[[[[[...)]]]]]])))))))))))(((((.........)))))
	[ predicted structure ]	.....((..(.(((((....((((....))))(.....).............))))).).))..
4ZNP_A	[ FASTA input ]	GGGAUACAGGACUGGCGGAUUAGUGGGAAACCACGUGGACUGUAUCCGAAAAAAAGCCGACCGCCUGGGCAUC
	[ reference std structure ]	.((((((((..(.[[[[[....((((....))))..)..))))))))........{{{..]]]]]..}}}...
	[ reference ext structure ]	(((((((((((((([{{{....{{{{...)}}}}.))))))))))))).......<<<.]}}}....>>>...              (                                                  )                       (                                                )
	[ predicted structure ]	.((((((((..(....).....((((....)))).....))))))))........(((.........)))...
5CCB_N	[ FASTA input ]	GGCCCGGAUAGCUCAGUCGGUAGAGCAUCAGACUUUUAAUCUGAGGGUCCAGGGUUCAAGUCCCUGUUCGGGCGCCA
	[ reference std structure ]	.(((((((..((((........)))).(((((.(...).))))).....(((((.......))))))))))))....
	[ reference ext structure ]	((((((((([{{.{).......}]}}((((((((...))))))))....(((((.......)))))))))))))...                       (                       )                                       (            )                                                                    (          )                                                      (                                                                          )   (                                                                         )
	[ predicted structure ]	.(((((((..((((........)))).(((((.......))))).....(((((.......))))))))))))....
5DDR_A	[ FASTA input ]	CGUUGACCCAGGAAACUGGGCGGAAGUAAGGUCCAUUGCACUCCGGGCCUGAAGCAACGCG
	[ reference std structure ]	(((((.(((((....)))))..[.....((((((..........))))))....)))))].
	[ reference ext structure ]	(([[[(((((((..)))))))){.(()(((((((..........))))))).).]]].)}.                           (                        )                                                               ( )       (                                                       )
	[ predicted structure ]	(((((.((((......))))........(((................)))....)))))..
5DI4_A	[ FASTA input ]	GGGUACUUAAGCCCACUGAUGAGUCGCUGGGAUGCGACGAAACGCCCA
	[ reference std structure ]	...............(....).(((((......)))))..........
	[ reference ext structure ]	.........(.....(....)[[[[[[[)..].]]]]]].........
	[ predicted structure ]	(((((((...)...........(((((......)))))....))))))

• N/A - RNA 2D structure in Vienna format could not have been generated (most likely due to difficult to represent pseudoknot structure). Check secondary structure file for details.
• std - standard base pair definition
• ext - extended base pair definition