The folding graph visualizations


A folding graph is a connected component of a protein graph. Here you can search for all visualizations of the different folding graph types of a protein chain. For each of the folding graph types (e.g., the alpha graph, which only considers alpha helices), there are four different visualizations available:

  • the ADJ notation: all SSEs of the protein graph are shown, order is from N-terminus (left) to C-terminus, and each edge represents a 3D contact between a pair of SSEs.
  • the RED notation: only SSEs of the folding graph are shown, order is from N-terminus (left) to C-terminus, and each edge represents a 3D contact between a pair of SSEs.
  • the SEQ notation: all SSEs of the protein graph are shown, order is from N-terminus (left) to C-terminus, and each edge represents the sequential order in the folding graph.
  • the KEY notation: only SSEs of the folding graph are shown, order is spatial, and edges follow the SSEs in sequence order (N to C terminus). Note that it is not possible to define a spatial ordering for bifurcated graphs, so such graphs do not have a KEY notation.
Select the chain, folding graph type and visualization you are interested in below. You will then be able to browse all folding graphs of the selected protein graph in the respective visualization.

Search Results

The adj albe folding graphs of PDB 1n11 chain A
FG# Fold name # SSEs SSE string (N to C) First vertex # in parent PG Notation adj Image available Linnot overview page
0A24HHHHHHHHHHHHHHHHHHHHHHHH1{h,1mh,2ph,-1mh,-2mh,3zh,2ph,-3mh,2mh,1mh,2mh,-1mh,-2mh,2zh,2mh,1mh,-2ph,1zh,2mh,1mh,-2ph,1zh,2mh,1mh,-2mh,1zh,2mh,1mh,-2mh,1zh,2mh,2mh,1mh,-2mh,-2ph,3zh,2mh,1mh,2ph,-1mh,-2mh}Fold AGo to linnots


Go to protein graph


Folding graph images


The images below show the folding graphs (connected components) of the protein graph. The folding graphs and their linear notations are used to power the motif search and other features of this database server. Note that folding graphs of size 1 (isolated vertices in the graph) are not listed here -- they would not be of any use. In the images, the following abbreviations are used: PG = protein graph, FG = folding graph, SQ = sequential in chain.




Fold number 0 (fold name: A)

The adj albe folding graph A (#0) of PDB 1n11 chain A:



Number of first SSE of fold in parent graph: 1
Download the visualization of fold A in formats: [PNG] [SVG] [PDF]
Download the graph file of fold A in formats: [GML] [JSON] [XML (XGMML)]