EFI - Enzyme Similarity Tool

This web resource is supported by a Research Resource from the National Institute of General Medical Sciences (R24GM141196-01).

The tools are available without charge or license to both academic and commercial users.

Important Notice
The UniProtKB database used by the EFI tools is undergoing major reorganization starting with the 2025_04 release (https://www.uniprot.org/release-notes/forthcoming-changes). When the reorganization is fully implemented (2026_02 release, Spring 2026), the number of proteins in UniProtKB is expected to decrease from ~253M accessions in the current 2025_03 release to ~141M accessions in the 2026_02 release.

In response to these changes, we are planning to provide the current 2025_03 release until the 2026_02 release is available.

More information about the changes is located here.

Neighborhood Connectivity

Uploaded Filename: 27106_IP91_IPR004184_UniRef90_NoFragments_Minlen650_AS240_full_ssn.xgmml.zip

Two node attributes were added to the input SSN: 1) Neighborhood Connectivity that quantitates the internode connections and 2) Neighborhood Connectivity Coloring that assigns a color based on the value of the NC.

The Data File Download tab provides the SSN with the nodes colored according to the value of the Neighborhood Connectivity Coloring.

The Neighborhood Connectivity Color Scale download provides the color scale in the SSN.

Submission Summary
Data File Download

Submission Summary Table

Job Number	27116
Input Option	Neighborhood Connectivity
Uploaded Filename	27106_IP91_IPR004184_UniRef90_NoFragments_Minlen650_AS240_full_ssn.xgmml.zip
Database Version	UniProt: 2022-04 / InterPro: 91

Please cite your use of the EFI tools:

Rémi Zallot, Nils Oberg, and John A. Gerlt, The EFI Web Resource for Genomic Enzymology Tools: Leveraging Protein, Genome, and Metagenome Databases to Discover Novel Enzymes and Metabolic Pathways. Biochemistry 2019 58 (41), 4169-4182. https://doi.org/10.1021/acs.biochem.9b00735

Nils Oberg, Rémi Zallot, and John A. Gerlt, EFI-EST, EFI-GNT, and EFI-CGFP: Enzyme Function Initiative (EFI) Web Resource for Genomic Enzymology Tools. J Mol Biol 2023. https://doi.org/10.1016/j.jmb.2023.168018

Colored SSN

Each node in the submitted SSN has been colored by NC, and a Neighborhood Connectivity attribute has been added with the NC factor.

Supplementary Files


	Neighborhood Connectivity Color Scale (PNG)
	Neighborhood Connectivity Table

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