EFI - Enzyme Similarity Tool

Download Network Files

Submission Name: IPR004184_IP74_UniRef90

Network Name: IPR004184_IP74_UniRef90_Minlen650_AS120

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

Analysis Summary

Analysis Job Number35890
Network NameIPR004184_IP74_UniRef90_Minlen650_AS120
Alignment Score120
Minimum Length650
Maximum Length50,000
Total Number of Sequences After Length Filtering4,178

Dataset Summary

EST Job Number29536 (Original Dataset)
Database VersionUniProt: 2019-04 / InterPro: 74
Input OptionFamilies (Option B)
Job NameIPR004184_IP74_UniRef90
Pfam / InterPro FamilyIPR004184
Number of IDs in Pfam / InterPro Family20,232
Domain Optionoff
UniRef Version90
Number of Cluster IDs in UniRef90 Family6,020
Exclude FragmentsNo
Total Number of Sequences in Dataset6,020
Total Number of Edges13,553,197
Convergence Ratio?0.748

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
4,178 2,085,476

 

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 4,178 2,085,476
95 4,158 2,056,934
90 4,104 1,981,472
85 3,592 1,378,854
80 3,114 925,145
75 2,720 635,074
70 2,382 429,003
65 2,090 289,643
60 1,826 192,326
55 1,648 145,968
50 1,513 111,905
45 1,447 96,711
40 1,361 77,378

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

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