PGR: Protein Graph Repository
Computational Processing of Protein Structures

Protein graph description

PDB Id: 1A6Z

HFE (HUMAN) HEMOCHROMATOSIS PROTEIN

  • Class: mhc class i complex
  • Graph building method: Based On All Atoms
  • Distance threshold: 4.0 AAº
  • Related protein structure description in Protein Data Bank
  • Related files:
Graph attributes

A set of graph attributes characterizing current protein graph:
AttributeValueZ-score
Number of nodes 742 0.138
Number of edges 2867 0.09
Average degree 7.72776 -0.334
Diameter 18 0.037
Radius 10 0.043
Density 0.0104288 -0.49
Average clustering coefficient 0.455667 -1.054
Average effective eccentricity 13.9798 0.037
Closeness centrality 0.13316 -0.585
Percentage of central nodes 0.0363881 0.028
Percentage of end points 0 -0.097
Label entropy 2.92639 0.867
Neighborhood impurity 7.25067 -0.218
Link impurity 0.938263 0.363

Graph visualization
Visualization library:
* Default graph visualization is using D3.js with gravity based layout.
** Use mouse click to move protein graph (drag and drop) or mouse wheel to zoom (or unzoom).
*** Blue edges represent the primary structure (the backbone) and gray edges are connections between distant amino acids (spatial links).