Please note: this site relies heavily on the use of javascript. Without a javascript-enabled browser, this site will not function correctly. Please enable javascript and reload the page, or switch to a different browser.
43  structures 4632  species 0  interactions 8559  sequences 77  architectures

Family: Peptidase_M19 (PF01244)

Summary: Membrane dipeptidase (Peptidase family M19)

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

The Pfam group coordinates the annotation of Pfam families in Wikipedia, but we have not yet assigned a Wikipedia article to this family. If you think that a particular Wikipedia article provides good annotation, please let us know.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

Membrane dipeptidase (Peptidase family M19) Provide feedback

No Pfam abstract.

Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR008257

This group of peptidases belong to the MEROPS peptidase family M19 (membrane dipeptidase family, clan MJ). The protein fold of the peptidase domain for members of this family resembles that of Klebsiella urease, the type example for clan MJ [ PUBMED:12144777 ].

Renal dipeptidase ( EC ), also known as microsomal dipeptidase or membrane-bound dipeptidase, is a zinc-dependent metalloenzyme that hydrolyses a wide range of dipeptides. It is involved in renal metabolism of glutathione and its conjugates. It is a homodimeric disulphide-linked glycoprotein attached to the renal brush border microvilli membrane by a GPI-anchor. A glutamate residue has recently been shown [ PUBMED:12144777 , PUBMED:8097406 ] to be important for the catalytic activity of renal dipeptidase. Renal dipeptidase seems to be evolutionary related to hypothetical proteins in the PQQ biosynthesis operons of Acinetobacter calcoaceticus and Klebsiella pneumoniae [ PUBMED:7674922 ].

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

Loading domain graphics...

Pfam Clan

This family is a member of clan Amidohydrolase (CL0034), which has the following description:

This family includes a large family of metal dependent amidohydrolase enzymes [1].

The clan contains the following 17 members:

A_deaminase Amidohydro_1 Amidohydro_2 Amidohydro_3 AMP_deaminase CpsB_CapC DHOase DUF3604 DUF6282 Peptidase_M19 PHP PHP_C PTE RNase_P_p30 TatD_DNase Urease_alpha UxaC

Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB sequence database. More...

View options

We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(40)
Full
(8559)
Representative proteomes UniProt
(34710)
RP15
(1070)
RP35
(3778)
RP55
(8170)
RP75
(13834)
Jalview View  View  View  View  View  View  View 
HTML View             
PP/heatmap 1            

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(40)
Full
(8559)
Representative proteomes UniProt
(34710)
RP15
(1070)
RP35
(3778)
RP55
(8170)
RP75
(13834)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

Download options

We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(40)
Full
(8559)
Representative proteomes UniProt
(34710)
RP15
(1070)
RP35
(3778)
RP55
(8170)
RP75
(13834)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download  

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: Prosite
Previous IDs: Renal_dipeptase;
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD , Bateman A
Number in seed: 40
Number in full: 8559
Average length of the domain: 319.8 aa
Average identity of full alignment: 28 %
Average coverage of the sequence by the domain: 84.07 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 26.0 26.0
Trusted cut-off 26.0 26.0
Noise cut-off 25.7 25.9
Model length: 318
Family (HMM) version: 24
Download: download the raw HMM for this family

Species distribution

Sunburst controls

Hide

Weight segments by...


Change the size of the sunburst

Small
Large

Colour assignments

Archea Archea Eukaryota Eukaryota
Bacteria Bacteria Other sequences Other sequences
Viruses Viruses Unclassified Unclassified
Viroids Viroids Unclassified sequence Unclassified sequence

Selections

Align selected sequences to HMM

Generate a FASTA-format file

Clear selection

This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

Loading sunburst data...

Tree controls

Hide

The tree shows the occurrence of this domain across different species. More...

Loading...

Please note: for large trees this can take some time. While the tree is loading, you can safely switch away from this tab but if you browse away from the family page entirely, the tree will not be loaded.

Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the Peptidase_M19 domain has been found. There are 43 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein sequence.

Loading structure mapping...

AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A0D2GL68 View 3D Structure Click here
A0A0D2HJD9 View 3D Structure Click here
A0A0D2HN24 View 3D Structure Click here
A0A0H3GTU1 View 3D Structure Click here
A0A175W4Q1 View 3D Structure Click here
A0A1C1C9P7 View 3D Structure Click here
A0A1C1CAK7 View 3D Structure Click here
A0A1C1CDI4 View 3D Structure Click here
B8LWT1 View 3D Structure Click here
C0NTL5 View 3D Structure Click here
C1GWM0 View 3D Structure Click here
C4JQN7 View 3D Structure Click here
C5FK77 View 3D Structure Click here
C7ZIE1 View 3D Structure Click here
D4B2N2 View 3D Structure Click here
E5R2Q7 View 3D Structure Click here
E7FBC7 View 3D Structure Click here
E9CV02 View 3D Structure Click here
E9D269 View 3D Structure Click here
F1QFU9 View 3D Structure Click here
K0F7Z6 View 3D Structure Click here
M1VV65 View 3D Structure Click here
O14124 View 3D Structure Click here
O59832 View 3D Structure Click here
P16444 View 3D Structure Click here
P22412 View 3D Structure Click here
P31428 View 3D Structure Click here
P31429 View 3D Structure Click here
P31430 View 3D Structure Click here
P43477 View 3D Structure Click here
Q0CS61 View 3D Structure Click here
Q2UPB0 View 3D Structure Click here
Q3SZM7 View 3D Structure Click here
Q4R7M2 View 3D Structure Click here
Q4WMJ8 View 3D Structure Click here
Q5M872 View 3D Structure Click here
Q5U2X4 View 3D Structure Click here
Q8C255 View 3D Structure Click here
Q9DA79 View 3D Structure Click here
Q9H4A9 View 3D Structure Click here