Top Level Name

  ⌊ Superfamily (core) Enolase

    ⌊ Subgroup muconate cycloisomerase

     ⌊ Family dipeptide epimerase

Total 100% <100%
Functional domains 4657 4652 5
UniProtKB 7898 7889 9
GI 17331 17311 20
Structures 29
Reactions 1
Functional domains of this family were last updated on June 3, 2017
New functional domains were last added to this family on May 7, 2015

Enzymes in the dipeptide epimerase family catalyze the epimerization of dipeptides, with the preferred substrate often L-Ala-D/L-Glu. Based on genomic context and substrate specificity, these enzymes may be involved in metabolism of the murein peptide, of which L-Ala-D-Glu is a component.

Kalyanaraman C, Imker HJ, Fedorov AA, Fedorov EV, Glasner ME, Babbitt PC, Almo SC, Gerlt JA, Jacobson MP

Discovery of a dipeptide epimerase enzymatic function guided by homology modeling and virtual screening

▸ Abstract

Structure 2008;16(11):1668-1677 | PubMed ID: 19000819

Lukk T, Sakai A, Kalyanaraman C, Brown SD, Imker HJ, Song L, Fedorov AA, Fedorov EV, Toro R, Hillerich B, Seidel R, Patskovsky Y, Vetting MW, Nair SK, Babbitt PC, Almo SC, Gerlt JA, Jacobson MP

Homology models guide discovery of diverse enzyme specificities among dipeptide epimerases in the enolase superfamily

▸ Abstract

Proc Natl Acad Sci U S A 2012;109(11):4122-4127 | PubMed ID: 22392983

No notes.

Sequence Similarity Networks

Download a Sequence Similarity Network of this family (XGMML format ).

Network downloads are XGMML files that are readable by program such as Cytoscape. In these networks, nodes represent proteins and edges represent pairwise similarities better than a given edge-score cutoff. The edge score is either a bit score for full networks or mean E values for a Repnet. Additionally, these networks contain several attributes with data from the SFLD.

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Maximum number of edges:
250K 500K 750K ALL
edge-score cutoff

Full sequence similarity network is not available for this superfamily due to its size.
Repnet: 50% ID (9-Oct-2015)

List of files included in the download. A detailed list of included node attributes, their definitions, and their uses [revised: 1/24/2014].

Disclaimer
Although the download speed has improved please keep in mind that network files can be quite large. We are currently working on improving the network download and finding ways to make large networks manageable. Please see How to increase memory for Cytoscape.

Multiple Sequence Alignment

View the alignment of a representative set of sequences of this family using

Multiple Sequence Alignment

Align one or multiple sequences to the alignment of a representative set of sequences of this family.
Enter FASTA formatted sequence(s) : and view results using

Downloads

Data Type All (#) Known (#)
Full length FASTA (4657) ()
Complete annotation (.tsv) (4657) ()
Annotation suitable for Excel ® (.tsv) (4657) ()
Clear form

Some of these files can be quite large, please be patient during the download.

To identify your sequence later, please make sure to provide a header line starting with '>' for each sequence. Empty headers are allowed, but a header line is always required.
Cutoff Value
The least significant edge-score at which pairwise similarities are included in the network. A bit score for the full network, or a mean E value for the Repnet.
XGMML format
Open in Cytoscape via:
 Menu
 →Import
 →Network (multiple file types)
Download the annotation of all sequences as shown in the table below as a ͟Tab ͟Separated ͟Value (TSV) file. This file can be imported into a spreadsheet application.
Full length FASTA
Full length sequences in FASTA format.
Functional Domain FASTA
Sequences of the Functional Domain in FASTA format.
Complete annotation
Download complete annotation of sequences sets of this superfamily as a ͟Tab ͟Separated ͟Value (TSV) file. This file has all data but cell size can exceed the maximum supported by spreadsheet programs (such as Microsoft Excel ®).
Spreadsheet ready annotation
Annotation of sequences sets of this superfamily in a ͟Tab ͟Separated ͟Value (TSV) file. This file can be imported into a spreadsheet application. Cells which exceed the allowed spreadsheet maximum (32.5K) are preceded by the word "Truncated" and clipped short.
Total number of functional domains in this group.
Number of Functional Domains that have been manually or automatically been assigned to a family.
Number of Functional Domains that have not been assigned to a family.
Number of structures available from the PDB for members of this group.
Number of Functional Domains with 100% of Conserved Residues
Number of Functional Domains with less than 100% Conserved Residues

Catalyzed Reaction(s)

L-Ala-D/L-Glu epimerase

L-alanyl-L-glutamate(1-)
61396
L-alanyl-D-glutamate(1-)
61395

EC: 5.1.1.20 | IntEnz: 5.1.1.20 | Kegg: 5.1.1.20 | BioCyc: 5.1.1.20 | BRENDA: 5.1.1.20