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 CAlpha
  • Distance threshold: 7.0 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 2875 0.092
Average degree 7.74933 -0.304
Diameter 24 0.245
Radius 13 0.241
Density 0.0104579 -0.49
Average clustering coefficient 0.545117 0.58
Average effective eccentricity 18.5647 0.244
Closeness centrality 0.102059 -1.01
Percentage of central nodes 0.0269542 -0.135
Percentage of end points 0 -0.097
Label entropy 2.92639 0.867
Neighborhood impurity 7.31267 -0.13
Link impurity 0.943652 0.56

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).