EFI - Enzyme Similarity Tool

Download Network Files

Submission Name: IPR004184_IP74_UniProt

Network Name: IPR004184_IP74_UniProt_Minlen650_AS240

The parameters used for the initial submission and the finalization are summarized in the table below.

Analysis Summary

Analysis Job Number35894
Network NameIPR004184_IP74_UniProt_Minlen650_AS240
Alignment Score240
Minimum Length650
Maximum Length50,000
Total Number of Sequences After Length Filtering16,299

Dataset Summary

EST Job Number29535 (Original Dataset)
Database VersionUniProt: 2019-04 / InterPro: 74
Input OptionFamilies (Option B)
Job NameIPR004184_IP74_UniProt
Pfam / InterPro FamilyIPR004184
Number of IDs in Pfam / InterPro Family20,232
Fraction Optionoff
Domain Optionoff
Exclude FragmentsNo
Total Number of Sequences in Dataset20,232
Total Number of Edges166,127,802
Convergence Ratio?0.812

The panels below provide files for full and representative node SSNs for download with the indicated numbers of nodes and edges. As an approximate guide, SSNs with ~2M edges can be opened with 16 GB RAM, ~5M edges can be opened with 32 GB RAM, ~10M edges can be opened with 64 GB RAM, ~20M edges can be opened with 128 GB RAM, ~40M edges can be opened with 256 GB RAM, and ~120M edges can be opened with 768 GB RAM.

Files may be transferred to the Genome Neighborhood Tool (GNT), the Color SSN utility, the Cluster Analysis utility, or the Neighborhood Connectivity utility.

Full Network ?

Each node in the network represents a single protein sequence.

# Nodes # Edges
16,299 32,789,379

 

Representative Node Networks ?

In representative node (RepNode) networks, each node in the network represents a collection of proteins grouped according to percent identity. For example, for a 75% identity RepNode network, all connected sequences that share 75% or more identity are grouped into a single node (meta node). Sequences are collapsed together to reduce the overall number of nodes, making for less complicated networks easier to load in Cytoscape.

The cluster organization is not changed, and the clustering of sequences remains identical to the full network.

% ID # Nodes # Edges
100 12,787 18,329,122
95 5,904 2,966,539
90 4,952 1,780,602
85 4,263 1,099,864
80 3,703 699,250
75 3,221 412,901
70 2,806 223,978
65 2,472 123,096
60 2,170 60,110
55 1,945 32,177
50 1,774 22,188
45 1,676 19,435
40 1,567 17,417

New to Cytoscape?

Portions of these data are derived from the Universal Protein Resource (UniProt) databases.

If you use the EFI web tools, please cite us.

Click here to contact us for help, reporting issues, or suggestions.