EFI - Enzyme Similarity Tool

Download Network Files

Submission Name: IPR004184_IP74_UniRef90

Network Name: IPR004184_IP74_UniRef90_Minlen650_AS240

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

Analysis Summary

Analysis Job Number35892
Network NameIPR004184_IP74_UniRef90_Minlen650_AS240
Alignment Score240
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 1,187,272

 

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 1,187,272
95 4,158 1,168,872
90 4,104 1,115,997
85 3,592 723,325
80 3,114 450,040
75 2,720 266,863
70 2,382 150,891
65 2,090 79,301
60 1,826 35,250
55 1,648 19,635
50 1,513 13,805
45 1,447 12,492
40 1,361 11,841

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

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