Welcome to RNApdbee, a webserver to derive secondary structures from pdb files of knotted and unknotted RNAs.

RNApdbee runs according to the following scenarios:

In both scenarios, the resulting secondary structure encoded in dot-bracket, BPSEQ and CT is immediately released together with a graphical image (if checked).


1)
Upload RNA pdb file:
 
– from PDB
 
– from local disk

 
– from example
Data uploaded from: - (no file selected)

2)
Identify base-pairs using:
RNAView
MC-Annotate
3DNA/DSSR Analyse helices

 
and include non-canonical ones:
in text and graphical representation
in graphical representation only
do not include


3)
Generate graphical image using: (Note)
PseudoViewer-based procedure
VARNA-based procedure
No image

4)
1)
Upload RNA base-pair list:
 
– from local file (BPSEQ/CT)

 
– from BPSEQ example
 
– from CT example
Data uploaded from: - (no file selected)

2)
Generate graphical image using: (Note)
PseudoViewer-based procedure
VARNA-based procedure
No image

3)