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174  structures 8549  species 0  interactions 67072  sequences 357  architectures

Family: Peptidase_M20 (PF01546)

Summary: Peptidase family M20/M25/M40

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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.

Peptidase family M20/M25/M40 Provide feedback

This family includes a range of zinc metallopeptidases belonging to several families in the peptidase classification [1]. Family M20 are Glutamate carboxypeptidases. Peptidase family M25 contains X-His dipeptidases.

Literature references

  1. Rawlings ND, Barrett AJ; , Meth Enzymol 1995;248:183-228.: Evolutionary families of metallopeptidases. PUBMED:7674922 EPMC:7674922


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR002933

This group of proteins contains the metallopeptidases and non-peptidase homologues (amidohydrolases) that belong to the MEROPS peptidase family M20 (clan MH) [ PUBMED:7674922 ]. The peptidases of this clan have two catalytic zinc ions at the active site, bound by His/Asp, Asp, Glu, Asp/Glu and His. The catalysed reaction involves the release of an N-terminal amino acid, usually neutral or hydrophobic, from a polypeptide [ PUBMED:7674922 ]. The peptidase M20 family has four subfamilies:

  • M20A - type example, glutamate carboxypeptidase from Pseudomonas sp. RS16 ( SWISSPROT )
  • M20B - type example, peptidase T from Escherichia coli ( SWISSPROT )
  • M20C - type example, X-His dipeptidase from E. coli ( SWISSPROT )
  • M20D - type example, carboxypeptidase Ss1 from Sulfolobus solfataricus ( SWISSPROT )

Homologues from the family that are not peptidases include:

  • Acetylornithine deacetylase, which releases an acetyl group and L-ornithine from N(2)-acetyl-L-ornithine [ PUBMED:10684608 ]
  • N-acetyldiaminopimelate deacetylase, which catalyses the conversion of N-acetyl-diaminopimelate to diaminopimelate and acetate [ PUBMED:5411754 ]
  • N-carbamoyl-L-amino-acid hydrolase, which converts D,L-5-monosubstituted hydantoins into D- or L-amino acids [ PUBMED:1732229 ]
  • Aminoacylase-1, which hydrolyses N-acylated or N-acetylated amino acids [ PUBMED:12933810 ]
  • Succinyl-diaminopimelate desuccinylase (EC:3.5.1.18), which catalyses the hydrolysis of N-succinyl-L,L-diaminopimelic acid, forming succinate and LL-2,6-diaminoheptanedioate (DAP, a component of bacterial cell walls) [ PUBMED:3276674 ]

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...

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Pfam Clan

This family is a member of clan Peptidase_MH (CL0035), which has the following description:

This clan contains peptidases belonging to MEROPS clan MH, MC and MF. We also include Nicastrin that is part of the gamma secretase complex and not known to be a peptidase.

The clan contains the following 17 members:

Amidase_3 AstE_AspA DUF2817 DUF4910 FGase Gamma_PGA_hydro Glycolytic Ncstrn_small Nicastrin Peptidase_M14 Peptidase_M17 Peptidase_M18 Peptidase_M20 Peptidase_M28 Peptidase_M42 Peptidase_M99 SpoIIP

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
(360)
Full
(67072)
Representative proteomes UniProt
(281136)
RP15
(7462)
RP35
(30170)
RP55
(65365)
RP75
(112366)
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
(360)
Full
(67072)
Representative proteomes UniProt
(281136)
RP15
(7462)
RP35
(30170)
RP55
(65365)
RP75
(112366)
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
(360)
Full
(67072)
Representative proteomes UniProt
(281136)
RP15
(7462)
RP35
(30170)
RP55
(65365)
RP75
(112366)
Raw Stockholm Download   Download   Download   Download   Download      
Gzipped 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: Pfam-B_253 (release 4.0)
Previous IDs: CO_pept_M20;
Type: Family
Sequence Ontology: SO:0100021
Author: Bateman A
Number in seed: 360
Number in full: 67072
Average length of the domain: 322.20 aa
Average identity of full alignment: 14 %
Average coverage of the sequence by the domain: 75.16 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null --hand HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 24.6 24.6
Trusted cut-off 24.6 24.6
Noise cut-off 24.5 24.5
Model length: 207
Family (HMM) version: 30
Download: download the raw HMM for this family

Species distribution

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Viroids Viroids Unclassified sequence Unclassified sequence

Selections

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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...

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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_M20 domain has been found. There are 174 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.

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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
A0A0P0XI05 View 3D Structure Click here
A0A0R0GUR9 View 3D Structure Click here
A0A0R0IPJ5 View 3D Structure Click here
A0A0R0IPM0 View 3D Structure Click here
A0A0R0IPM1 View 3D Structure Click here
A0A0R0IPU2 View 3D Structure Click here
A0A0R0IYN4 View 3D Structure Click here
A0A0R4J3Y3 View 3D Structure Click here
A0A0R4J5T7 View 3D Structure Click here
A0A1D6E5X5 View 3D Structure Click here
A0A1D6GU51 View 3D Structure Click here
A0A1D6IIA2 View 3D Structure Click here
A0A1D6KJ07 View 3D Structure Click here
A0A1D8PDN2 View 3D Structure Click here
A0A1D8PIK3 View 3D Structure Click here
A0A1D8PLD9 View 3D Structure Click here
A0A1D8PLQ3 View 3D Structure Click here
A0A381MQ29 View 3D Structure Click here
A3KG59 View 3D Structure Click here
A3KQX1 View 3D Structure Click here
A4HT45 View 3D Structure Click here
A4HXB0 View 3D Structure Click here
A4HZ10 View 3D Structure Click here
A4HZ11 View 3D Structure Click here
A4I4L8 View 3D Structure Click here
A4I5G9 View 3D Structure Click here
A4I6N7 View 3D Structure Click here
A4I6N8 View 3D Structure Click here
A4I933 View 3D Structure Click here
B4F861 View 3D Structure Click here
B4FA57 View 3D Structure Click here
B4FQ26 View 3D Structure Click here
B4FUS9 View 3D Structure Click here
B4G0F2 View 3D Structure Click here
B6T417 View 3D Structure Click here
B6TIJ2 View 3D Structure Click here
C0HFM5 View 3D Structure Click here
C0M0V4 View 3D Structure Click here
C0P5R8 View 3D Structure Click here
C0PF66 View 3D Structure Click here
C0PG96 View 3D Structure Click here
D4AAB5 View 3D Structure Click here
E7EXK9 View 3D Structure Click here
E9AGU3 View 3D Structure Click here
F1M0Q9 View 3D Structure Click here
F4JTK8 View 3D Structure Click here
I1JYG0 View 3D Structure Click here
I1JZ39 View 3D Structure Click here
I1KAC2 View 3D Structure Click here
I1KGF9 View 3D Structure Click here
I1KUY3 View 3D Structure Click here
I1KXL2 View 3D Structure Click here
I1L153 View 3D Structure Click here
I1LC96 View 3D Structure Click here
I1LH18 View 3D Structure Click here
I1M5E5 View 3D Structure Click here
I1MCX3 View 3D Structure Click here
I1NCV4 View 3D Structure Click here
I1NI56 View 3D Structure Click here
I6X4J0 View 3D Structure Click here
K7K4T7 View 3D Structure Click here
K7M6U8 View 3D Structure Click here
K7M776 View 3D Structure Click here
L7N663 View 3D Structure Click here
L7N684 View 3D Structure Click here
L7N690 View 3D Structure Click here
O04373 View 3D Structure Click here
O13968 View 3D Structure Click here
O18000 View 3D Structure Click here
O49434 View 3D Structure Click here
O74916 View 3D Structure Click here
O81641 View 3D Structure Click here
P0AED7 View 3D Structure Click here
P15288 View 3D Structure Click here
P23908 View 3D Structure Click here
P27614 View 3D Structure Click here
P29745 View 3D Structure Click here
P38149 View 3D Structure Click here
P43616 View 3D Structure Click here
P54638 View 3D Structure Click here
P54968 View 3D Structure Click here
P54969 View 3D Structure Click here
P54970 View 3D Structure Click here
P65807 View 3D Structure Click here
P76052 View 3D Structure Click here
P77357 View 3D Structure Click here
P77425 View 3D Structure Click here
P9WHS9 View 3D Structure Click here
Q03154 View 3D Structure Click here
Q08BB2 View 3D Structure Click here
Q17898 View 3D Structure Click here
Q17899 View 3D Structure Click here
Q17900 View 3D Structure Click here
Q18621 View 3D Structure Click here
Q2FVT7 View 3D Structure Click here
Q2FWC4 View 3D Structure Click here
Q2FWN8 View 3D Structure Click here
Q2FXH9 View 3D Structure Click here
Q2FY59 View 3D Structure Click here
Q2FYN6 View 3D Structure Click here
Q2G064 View 3D Structure Click here
Q2G0M9 View 3D Structure Click here
Q2G1P6 View 3D Structure Click here
Q2QMN7 View 3D Structure Click here
Q32LT9 View 3D Structure Click here
Q4CPW5 View 3D Structure Click here
Q4CPW6 View 3D Structure Click here
Q4CR09 View 3D Structure Click here
Q4CR10 View 3D Structure Click here
Q4CYZ4 View 3D Structure Click here
Q4CYZ5 View 3D Structure Click here
Q4CYZ6 View 3D Structure Click here
Q4D7V2 View 3D Structure Click here
Q4DAI0 View 3D Structure Click here
Q4DAI2 View 3D Structure Click here
Q4DBK5 View 3D Structure Click here
Q4DGW6 View 3D Structure Click here
Q4DGW8 View 3D Structure Click here
Q4DGX6 View 3D Structure Click here
Q4DPI6 View 3D Structure Click here
Q4DU62 View 3D Structure Click here
Q54RW1 View 3D Structure Click here
Q54UX0 View 3D Structure Click here
Q54X02 View 3D Structure Click here
Q55DL1 View 3D Structure Click here
Q55DP8 View 3D Structure Click here
Q55FR8 View 3D Structure Click here
Q57899 View 3D Structure Click here
Q58892 View 3D Structure Click here
Q5AKA5 View 3D Structure Click here
Q5N8F2 View 3D Structure Click here
Q5WRS4 View 3D Structure Click here
Q5Z678 View 3D Structure Click here
Q655X8 View 3D Structure Click here
Q66HG3 View 3D Structure Click here
Q69TX7 View 3D Structure Click here
Q6AYS7 View 3D Structure Click here
Q6GTS8 View 3D Structure Click here
Q6Q0N1 View 3D Structure Click here
Q6ZGS9 View 3D Structure Click here
Q7XUA8 View 3D Structure Click here
Q851L5 View 3D Structure Click here
Q851L6 View 3D Structure Click here
Q8BUG2 View 3D Structure Click here
Q8C165 View 3D Structure Click here
Q8H3C7 View 3D Structure Click here
Q8H3C8 View 3D Structure Click here
Q8H3C9 View 3D Structure Click here
Q8IYS1 View 3D Structure Click here
Q8MT58 View 3D Structure Click here
Q8S9S4 View 3D Structure Click here
Q8T490 View 3D Structure Click here
Q8VXY9 View 3D Structure Click here
Q8VYX0 View 3D Structure Click here
Q96KN2 View 3D Structure Click here
Q96KP4 View 3D Structure Click here
Q99JW2 View 3D Structure Click here
Q9BL46 View 3D Structure Click here
Q9C5C4 View 3D Structure Click here
Q9C6Y8 View 3D Structure Click here
Q9D1A2 View 3D Structure Click here
Q9I7K3 View 3D Structure Click here
Q9LPE9 View 3D Structure Click here
Q9P6I2 View 3D Structure Click here
Q9SWX9 View 3D Structure Click here
Q9VCQ8 View 3D Structure Click here
Q9VCQ9 View 3D Structure Click here
Q9VCR0 View 3D Structure Click here
Q9VCR2 View 3D Structure Click here
X1WHB9 View 3D Structure Click here