RNA FRABASE - RNA FRAgments search engine & dataBASE

Sequence & secondary structure in dot-bracket notation

PDB id	NDB id	Strands	Number of models	Functional class	Experimental method	Resolution [Å]	PDB deposition
3J3F		5, 7, 8	1	RIBOSOME	Electron Microscopy	5	2013-02-27

model 1

>strand_5
cGCGACCUCAGAUCAGACGUGGCGACCCGCUGAAUUUAAGCAUAUUAGUCAGCGGAGGAGAAGAAACUAACCAGGAUUCCCUCAGUAACGGCGAGUGAACAGGGAAGAGCCCAGCGCCGAAUCCCCGCCCCGCGGCGGGGCGCGGGACAUGUGGCGUACGGAAGACCCGCUCCCCGGCGCCGCUCGUGGGGGGCCCAAGUCCUUCUGAUCGAGGCCCAGCCCGUGGACGGUGUGAGGCCGGUAGCGGCCCCCGGCGCGCCGGGCCCGGGUCUUCCCGGAGUCGGGUUGCUUGGGAAUGCAGCCCAAAGCGGGUGGUAAACUCCAUCUAAGGCUAAAUACCGGCACGAGACCGAUAGUCAACAAGUACCGUAAGGGAAAGUUGAAAAGAACUUUGAAGAGAGAGUUCAAGAGGGCGUGAAACCGUUAAGAGGUAAACGGGUGGGGUCCGCGCAGUCCGCCCGGAGGAUUCAACCCGGCGGCGGGUCCGGCCGUGUCGGCGGCCCGGCGGAUCUUUCCCGCCCCCCUCCUCCUCCUCCCCGGAGGGGGCGGGGUCGGCGGGGGACCGUCCCCCGACCGGCGACCGGCCGCCGCCGGGCGCAUUUCCACCGCGGCGGUGCGCCGCGACCGGCUCCGGGACGGCUGGGAAGGCCCGGCGGGGAAGGUGGCUCGGGGUCCGUCCUCCUCCUCCCCCGUCUCCGCCCCCCGGCCCCGCGUCCUCCCUCGGGAGGGCGCGCGGGUCGGGGCGGCGGCGGCGGCGGCGGUGGCGCCCCCCGAGUGUUACAGCCCCCCCGGCAGCAGCACUCGCCGAAUCCCGGGGCCGAGGGAGCGAGACCCGUCGCCGCGCUCUCCCCCCUCCCGGCGAUCCCCCGCGAGGGGGGUGCGCCGGGGGGGGGCCGGGCCACCCCUCCCACGGCGCGACCGCUCUCCCACCCGCCCCGGCGACGGGGGGGGGGCGGGGCGGACUGUCCCCAGUGCGCCCCGGGCGGGUCGCGCCGUCGGGCCCGGGGGACGGGGCCACGCGCGCGUCCCCCGAAGAGGGGGACGGCGGAGCGAGCGCACGGGGUCGGCGGCGACGUCGGCUACCCACCCGACCCGUCUUGAAACACGGACCAAGGAGUCUAACACGUGCGCGAGUCGGGGGCUCGCACGAAAGCCGCCGUGGCGCAAUGAAGGUGAAGGCCGGCGCGCUCGCCGGCCGAGGUGGGAUCCCGAGGCCUCUCCAGUCCGCCGAGGGCGCACCACCGGCCCGUCUCGCCCGCCGCGCCGGGGAGGUGGAGCACGAGCGCACGUGUUAGGACCCGAAAGAUGGUGAACUAUGCCUGGGCAGGGCGAAGCCAGAGGAAACUCUGGUGGAGGUCCGUAGCGGUCCUGACGUGCAAAUCGGUCGUCCGACCUGGGUAUAGGGGCGAAAGACUAAUCGAACCAUCUAGUAGCUGGUUCCCUCCGAAGUUUCCCUCAGGAUAGCUGGCGCUCUCGCAGCACGCAGUUUUAUCCGGUAAAGCGAAUGAUUAGAGGUCUUGGGGCCGAAACGAUCUCAACCUAUUCUCAAACUUUAAAUGGGUAAGAAGCCCGGCUCGCUGGCGUGGAGCCGGGCGUGGAAUGCGAGUGCCUAGUGGGCCACUUUUGGUAAGCAGAACUGGCGCUGCGGGAUGAACCGAACGCCGGGUUAAGGCGCCCGAUGCCGACGCUCAUCAGACCCCAGAAAAGGUGUUGGUUGAUAUAGACAGCAGGACGGUGGCCAUGGAAGUCGGAAUCCGCUAAGGAGUGUGUAACAACUCACCUGCCGAAUCAACUAGCCCUGAAAAUGGAUGGCGCUGGAGCGUCGGGCCCAUACCCGGCCGUCGCCGGCAGUCGAGAGUGGACGGGAGCGGCGGGGGCGGCGCGCGCGCGCGCGCGGCGGCGGCGGCGGCGGGGGUGUGGGGUCCUUCCCCCGCCCCCCCCCCCACGCCUCCUCCCCCGCCCCCGGAGCCCCGCGGACGCUACGCCGCGACGAGUAGGAGGGCCGCUGCGGUGAGCCUUGAAGCCUAGGGCGCGGGCCCGGGUGGAGCCGCCGCAGGUGCAGAUCUUGGUGGUAGUAGCAAAUAUUCAAACGAGAACUUUGAAGGCCGAAGUGGAGAAGGGUUCCAUGUGAACAGCAGUUGAACAUGGGUCAGUCGGUCCUGAGAGAUGGGCGAGCGCCGUUCCGAAGGGACGGGCGAUGGCCUCCGUUGCCCUCGGCCGAUCGAAAGGGAGUCGGGUUCAGAUCCCCGAAUCCGGAGUGGCGGAGAUGGGCGCCGCGAGGCGUCCAGUGCGGUAACGCGACCGAUCCCGGAGAAGCCGGCGGGAGCCCCGGGGAGAGUUCUCUUUUCUUUGUGAAGGGCAGGGCGCCCUGGAAUGGGUUCGCCCCGAGAGAGGGGCCCGUGCCUUGGAAAGCGUCGCGGUUCCGGCGGCGUCCGGUGAGCUCUCGCUGGCCCUUGAAAAUCCGGGGGAGAGGGUGUAAAUCUCGCGCCGGGCCGUACCCAUAUCCGCAGCAGGUCUCCAAGGUGAACAGCCUCUGGCAUGUUGGAACAAUGUAGGUAAGGGAAGUCGGCAAGCCGGAUCCGUAACUUCGGGAUAAGGAUUGGCUCUAAGGGCUGGGUCGGUCGCGAGGCGCCGCCGCCCCCCCCACGCCCGGGGCACCCCCCUCGCGGCCCUCCCCCGCCCCACCCCGCGCGCGCCGCUCGCUCCCUCCCCGCCCCGCGCCCUCUCUCUCUCUCUCUCCCCCGCUCCCCGUCCUCCCCCCUCCCCGGGGGAGCGCCGCGUGGGGGCGGCGGCGGGGGGAGAAGGGUCGGGGCGGCAGGGGCCGGCGGCGGCCCGCCGCGGGGCCCCGGCGGCGGGGGCACGGUCCCCCGCGAGGGGGGCCCGGGCACCCGGGGGGCCGGCGGCGGCGGCGACCCCCGGGGAGCCCGGCGGGCGCCGGCGCGCCCCCCCCCCCACCCCACGUCUCGUCGCGCGCGCGUCCGCUGGGGGCGGGGAGCGGUCGGGCGGCGGCGGUCGGCGGGCGGCGGGGCGGGGCGGUUCGUCCCCCCGCCCUACCCCCCCGGCCCCGUCCGCCCCCCGUUCCCCCCUCCUCCUCGGCGCGCGGCGGCGGCGGCGGCAGGCGGCGGAGGGGCCGCGGGCCGGUCCCCCCCGCCGGGUCCGCCCCCGGGGCCCGGCCGGCGCCUAGCAGCCGACUUAGAACUGGUGCGGACCAGGGGAAUCCGACUGUUUAAUUAAAACAAAGCAUCGCGAAGGCCCGCGGCGGGUGUUGACGCGAUGUGAUUUCUGCCCAGUGCUCUGAAUGUCAAAGUGAAGAAAUUCAAUGAAGCGCGGGUAAACGGCGGGAGUAACUAUGACUCUCUUAAGGUAGCCAAAUGCCUCGUCAUCUAAUUAGUGACGCGCAUGAAUGGAUGAACGAGAUUCCCACUGUCCCUACCUACUAUCCAGCGAAACCACAGCCAAGGGAACGGGCUUGGCGGAAUCAGCGGGGAAAGAAGACCCUGUUGAGCUUGACUCUAGUCUGGCACGGUGAAGAGACAUGAGAGGUGUAGAAUAAGUGGGAGGCCCGGGCCGCCGGUGAAAUACCACUACUCUGAUCGUUUUUUCACUGACCCGGUGAGGCGGGGGGGCGAGCCCCGAGGGGCUCUCGCUUCUGGCGCCAAGCGCCCGGCCGCGCGCCGGCCGGGCGCGACCCGCUCCGGGGACAGUGCCAGGUGGGGAGUUUGACUGGGGCGGUACACCUGUCAAACGGUAACGCAGGUGUCCUAAGGCGAGCUCAGGGAGGACAGAAACCUCCCGUGGAGCAGAAGGGCAAAAGCUCGCUUGAUCUUGAUUUUCAGUACGAAUACAGACCGUGAAAGCGGGGCCUCACGAUCCUUCUGACCUUUUGGGUUUUAAGCAGGAGGUGUCAGAAAAGUUACCACAGGGAUAACUGGCUUGUGGCGGCCAAGCGUUCAUAGCGACGUCGCUUUUUGAUCCUUCGAUGUCGGCUCUUCCUAUCAUUGUGAAGCAGAAUUCACCAAGCGUUGGAUUGUUCACCCACUAAUAGGGAACGUGAGCUGGGUUUAGACCGUCGUGAGACAGGUUAGUUUUACCCUACUGAUGAUGUGUUGUUGCCAUGGUAAUCCUGCUCAGUACGAGAGGAACCGCAGGUUCAGACAUUUGGUGUAUGUGCUUGGCUGAGGAGCCAAUGGGGCGAAGCUACCAUCUGUGGGAUUAUGACUGAACGCCUCUAAGUCAGAAUCCCGCCCAGGCGGAACGAUACGGCAGCGCCGCGGAGCCUCGGUUGGCCUCGGAUAGCCGGUCCCCCGGCGCCCCGCGCGCGCCGGGGUCCGGUGCGGAGUGCCCUUCGUCCUGGGAAACGGGGCGCGGCCGGAGAGGCGGCCGCCCCCUCGCCCGUCACGCACCGCACGUUCGUGGGGAACCUGGCGCUAAACCAUUCGUAGACGACCUGCUUCUGGGUCGGGGUUUCGUACGUAGCAGAGCAGCUCCCUCGCUGCGAUCUAUUGAAAGUCAGCCCUCGACACAAGGGUUUGUC
.(((.(((((((.(((.((.(.....((((......(...[..).......))))...........((....))...((((......((.]...)).....))))...((((...(.(..(((((.((((((...))))))..))))....)).).....(((((((((...((((((((.(((....((((((((..({((((......)))))....[[(...).(((....}]])))...).))))))))))))))))))..)))))))))...)....(((((((........))))))).....(((((..[[[[[[)))))..))).........(((((((.((...............((....))....((.........((((....)))).............(.....((((((((((.....((((((((..(((.((...((((((((.(((.....(((((((((((.(..((.(..(((((.((.....((...((..((((((((((-----------------------))))..))))))))..)).)))).)))..)...)).))))))))))))......))).))).)))))..((((((((.(((((((((..((((.........((((.((((....(.((((((((----------------------------------------------------------------------------------------------..)))))))))......)))).))))...........))))....))))))))).................(..(((....(((((((..(((((------------------.))))).)))))))...((((.((((...(((((((((((((((...((.(((---------------)))))..((((((.((((....)))).)))))).))).))))))))))).).....).)))....)))).......((((((((.....))))))))..........))).)....))).)))))..)))))...))))))))..((.(........).))((((((....(((((((((((((..(((.(..(((........)))..)...)))...((....))...((((((((....))))))))..(((((...(((..(((...[[[..[[.)))..)))....))))).(((((((((.((.(......).))))))))).))....)))))))))))))..((.(...((((((.....(((((((((..(((....(((((((....))))))).....)))...(((..((.((........)))).)))....))))))))).(.((.......))...)..))))))......).))..((((((......(((....))).....(((((((..........((..((.(((((...(((....(((..(.(((..(.((((.(.....).))))).))).)..)))..)).)...))))).)...(((((((.(.........).)))))))...)..)).)))))))......((((.((.((.....)).)).))))....(((......)))...(((((((...((([[[...(.(.(((((......(..........(((.((((((((((.......(.(((.(.(...((.........))...).).....(....(......)..).))).)...)))))))))))))..........]]].)....))))))))))...)))))))((((((.(((..........]]..]]].......................(((.(-------------------------------------------------------------).))).......................)))))))))....)))))).(.((((((((.((......((((.((((....))))))))...))))))))))..).....))))))((.....((.....((((((.......)))))).(((.....((((..((...((((((...((.....)).))))))....[[(((.((...((....(((....)))..........((.(((((((((...)))))))))))......))....))...(((((........)))))]]((((....((((....(((((((....)))))))...(((....)))...(...(((((....((((((((((((((.(((((((....{{...)))))....(((((.((((.((((......((.....))......))))))))..))))).....((((((.(....)..)))))))).).).))))))))))))(...).....)))))...)..........)..))).)))).)))..)).....((......)).)))).((((.....))))..)))....((((.....(((((((.((..(............(((((....(.[..).....)))))((.(((((((.(((...((((((------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------))))))........))).)..)))))).))(...).......(((((((((...((.........))...(((((((....((((.....))))......))))))).].(((.(((...(((((.(...(......((((....))))......).)))))..).)))(((((.........)))))........((..........(((((.......)))))..)..)....)))....)).)))))))....))).)))))))..))))))....))....(((((........)))))....(((((..(((.((.......(((.((((((..(((((.((((((((..((((((((((((.((((..........(.((.....((()))...............)).).)))).)).))))))))))....((((.....((((...(.((((((....)))))))................(((.((((((.....)))))).)))...))))..))))......))))))))..)))))..((.......[.).)((((((..........]))))))([((...(((((((.(.((((((.......))))))...).((]..[[[))....)))))))...(((..((((....{..))))..))).(((....))).))]]].......((((((..(((..]]]]]].)))))))))....)}....))))..)))))........(..(.(.((((((...((.......))...))))))...))...)........((((.((((((..(.(.(((((......)))))...).).(((.(.....).))).....)))))..)...))).).....(((((((....))).))))....))..))).))))).....((((((.(..(((..(.(((((......(....).....))))).)((((....((((....((.(((((((}}..)))))..)).))...))))...)))).((((...((((.............))))...))))..)))...).))))))......((((((.((..(((.....(..........(((((..(((((---------------))))).)))))........)......(..((((....((((.(((((((......)))))))))))...))))..).................)))..))))))))..((((.(..(.......)..)....((.(((((((.((.....((((.(....((........))....)))))....))....)))).))).))..))))....

>strand_7
gUCUACGGCCAUACCACCCUGAACGCGCCCGAUCUCGUCUGAUCUCGGAAGCUAAGCAGGGUCGGGCCUGGUUAGUACUUGGAUGGGAGACCGCCUGGGAAUACCGGGUGCUGUAGGCUUU
(((((((((....((((((((.....(.((((...(....)...))))...)....)))))).))(((((((.....((.((..((....)).)).))....))))))))))))))))...

>strand_8
cGACUCUUAGCGGUGGAUCACUCGGCUCGUGCGUCGAUGAAGAACGCAGCUAGCUGCGAGAAUUAAUGUGAAUUGCAGGACACAUUGAUCAUCGACACUUCGAACGCACUUGCGGCCCCGGGUUCCUCCCGGGGCUACGCCUGUCUGAGCGUCGCUU
...)))))))))).....)))..)))))))))..).......((.((.[[.....))......(.(((......]].............)))..)...)).....((....))(((((.((.......)).))))).)).))))))))).).)))..