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0  structures 527  species 0  interactions 12446  sequences 508  architectures

Family: Pep_M12B_propep (PF01562)

Summary: Reprolysin family propeptide

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.

Reprolysin family propeptide Provide feedback

This region is the propeptide for members of peptidase family M12B. The propeptide contains a sequence motif similar to the "cysteine switch" of the matrixins. This motif is found at the C terminus of the alignment but is not well aligned.

Literature references

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


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR002870

This signature covers the region of the propeptide for members of the MEROPS peptidase family M12B (clan MA(M), adamalysin family). The propeptide contains a sequence motif similar to the "cysteine switch" of the matrixins, which mediate cell-cell or cell-matrix interactions.

Domain organisation

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

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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
(217)
Full
(12446)
Representative proteomes UniProt
(21204)
RP15
(1276)
RP35
(3781)
RP55
(10301)
RP75
(14299)
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
(217)
Full
(12446)
Representative proteomes UniProt
(21204)
RP15
(1276)
RP35
(3781)
RP55
(10301)
RP75
(14299)
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
(217)
Full
(12446)
Representative proteomes UniProt
(21204)
RP15
(1276)
RP35
(3781)
RP55
(10301)
RP75
(14299)
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: Pfam-B_117 (release 4.0)
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Bateman A
Number in seed: 217
Number in full: 12446
Average length of the domain: 129.90 aa
Average identity of full alignment: 22 %
Average coverage of the sequence by the domain: 14.05 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild --amino -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 22.7 22.7
Trusted cut-off 22.7 22.7
Noise cut-off 22.6 22.6
Model length: 140
Family (HMM) version: 21
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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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.

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
A0A0G2JX23 View 3D Structure Click here
A0A0G2K0E8 View 3D Structure Click here
A0A0G2K229 View 3D Structure Click here
A0A0G2K693 View 3D Structure Click here
A0A0G2KI55 View 3D Structure Click here
A0A0G2KPG1 View 3D Structure Click here
A0A0R4IDF3 View 3D Structure Click here
A0A0R4IES1 View 3D Structure Click here
A0A0R4IHE4 View 3D Structure Click here
A0A0R4INJ8 View 3D Structure Click here
A0A0R4ISF7 View 3D Structure Click here
A0A0R4IV26 View 3D Structure Click here
A0A1D5NT24 View 3D Structure Click here
A0A1W2Q6C2 View 3D Structure Click here
A0A2R8Q0T5 View 3D Structure Click here
A0A2R8Q3V6 View 3D Structure Click here
A0A2R8Q4Q9 View 3D Structure Click here
A0A2R8Q9M6 View 3D Structure Click here
A0A2R8QAQ1 View 3D Structure Click here
A0A2R8RLE2 View 3D Structure Click here
A2RSG8 View 3D Structure Click here
B0S6F1 View 3D Structure Click here
B2RSY5 View 3D Structure Click here
B2RUD9 View 3D Structure Click here
D3Z1A5 View 3D Structure Click here
D3ZA74 View 3D Structure Click here
D3ZB52 View 3D Structure Click here
D3ZEP8 View 3D Structure Click here
D3ZIP6 View 3D Structure Click here
D3ZLL7 View 3D Structure Click here
D3ZMB0 View 3D Structure Click here
D3ZN23 View 3D Structure Click here
D3ZPM7 View 3D Structure Click here
D3ZT36 View 3D Structure Click here
D3ZTE7 View 3D Structure Click here
D3ZTJ3 View 3D Structure Click here
D3ZXM1 View 3D Structure Click here
D4A065 View 3D Structure Click here
D4A2E7 View 3D Structure Click here
D4ABB3 View 3D Structure Click here
D4AD55 View 3D Structure Click here
E7F698 View 3D Structure Click here
E7F6J8 View 3D Structure Click here
E7FCQ4 View 3D Structure Click here
E7FEJ5 View 3D Structure Click here
E7FEN5 View 3D Structure Click here
E7FFX0 View 3D Structure Click here
E7FGJ0 View 3D Structure Click here
E7FGU7 View 3D Structure Click here
E9PTA4 View 3D Structure Click here
E9PTQ3 View 3D Structure Click here
E9PUN6 View 3D Structure Click here
E9PX39 View 3D Structure Click here
E9Q287 View 3D Structure Click here
E9Q4D1 View 3D Structure Click here
F1LW54 View 3D Structure Click here
F1LWE4 View 3D Structure Click here
F1LXB5 View 3D Structure Click here
F1M8J6 View 3D Structure Click here
F1M9Z9 View 3D Structure Click here
F1Q4N9 View 3D Structure Click here
F1QDC4 View 3D Structure Click here
F1QF43 View 3D Structure Click here
F1QFD2 View 3D Structure Click here
F1QU24 View 3D Structure Click here
F1R6Q4 View 3D Structure Click here
F1R8A1 View 3D Structure Click here
F8VQ03 View 3D Structure Click here
F8W3T1 View 3D Structure Click here
G3V673 View 3D Structure Click here
G3V9N4 View 3D Structure Click here
G5ECS8 View 3D Structure Click here
G5EFD5 View 3D Structure Click here
G5EFD9 View 3D Structure Click here
M0R5I2 View 3D Structure Click here
M0R5P8 View 3D Structure Click here
O14672 View 3D Structure Click here
O15072 View 3D Structure Click here
O15204 View 3D Structure Click here
O35227 View 3D Structure Click here
O35598 View 3D Structure Click here
O35674 View 3D Structure Click here
O43184 View 3D Structure Click here
O43506 View 3D Structure Click here
O75077 View 3D Structure Click here
O75078 View 3D Structure Click here
O75173 View 3D Structure Click here
O88839 View 3D Structure Click here
O95450 View 3D Structure Click here
P57110 View 3D Structure Click here
P58397 View 3D Structure Click here
P58459 View 3D Structure Click here
P59384 View 3D Structure Click here
P59509 View 3D Structure Click here
P59510 View 3D Structure Click here
P59511 View 3D Structure Click here
P70505 View 3D Structure Click here
P78325 View 3D Structure Click here
P78536 View 3D Structure Click here
P97857 View 3D Structure Click here
Q05910 View 3D Structure Click here
Q10743 View 3D Structure Click here
Q13443 View 3D Structure Click here
Q13444 View 3D Structure Click here
Q19204 View 3D Structure Click here
Q1EHB3 View 3D Structure Click here
Q3B7V9 View 3D Structure Click here
Q3TTE0 View 3D Structure Click here
Q4VC17 View 3D Structure Click here
Q5BK84 View 3D Structure Click here
Q60718 View 3D Structure Click here
Q60813 View 3D Structure Click here
Q61072 View 3D Structure Click here
Q61824 View 3D Structure Click here
Q63180 View 3D Structure Click here
Q63202 View 3D Structure Click here
Q68SA9 View 3D Structure Click here
Q69Z28 View 3D Structure Click here
Q6IMH6 View 3D Structure Click here
Q6IMH7 View 3D Structure Click here
Q6NVV9 View 3D Structure Click here
Q6QU65 View 3D Structure Click here
Q7M762 View 3D Structure Click here
Q7M763 View 3D Structure Click here
Q7M766 View 3D Structure Click here
Q7ZYZ9 View 3D Structure Click here
Q811B3 View 3D Structure Click here
Q811Q3 View 3D Structure Click here
Q811Q4 View 3D Structure Click here
Q8BNJ2 View 3D Structure Click here
Q8C9W3 View 3D Structure Click here
Q8CGQ2 View 3D Structure Click here
Q8K410 View 3D Structure Click here
Q8R534 View 3D Structure Click here
Q8SXB0 View 3D Structure Click here
Q8TC27 View 3D Structure Click here
Q8TE56 View 3D Structure Click here
Q8TE57 View 3D Structure Click here
Q8TE58 View 3D Structure Click here
Q8TE59 View 3D Structure Click here
Q8TE60 View 3D Structure Click here
Q8WXS8 View 3D Structure Click here
Q923W9 View 3D Structure Click here
Q99965 View 3D Structure Click here
Q9BZ11 View 3D Structure Click here
Q9H013 View 3D Structure Click here
Q9H2U9 View 3D Structure Click here
Q9H324 View 3D Structure Click here
Q9JI76 View 3D Structure Click here
Q9JLN6 View 3D Structure Click here
Q9P0K1 View 3D Structure Click here
Q9P2N4 View 3D Structure Click here
Q9QYV0 View 3D Structure Click here
Q9R001 View 3D Structure Click here
Q9R0X2 View 3D Structure Click here
Q9R157 View 3D Structure Click here
Q9R158 View 3D Structure Click here
Q9R159 View 3D Structure Click here
Q9R160 View 3D Structure Click here
Q9R1V4 View 3D Structure Click here
Q9R1V6 View 3D Structure Click here
Q9R1V7 View 3D Structure Click here
Q9UHI8 View 3D Structure Click here
Q9UKF2 View 3D Structure Click here
Q9UKF5 View 3D Structure Click here
Q9UKJ8 View 3D Structure Click here
Q9UKP4 View 3D Structure Click here
Q9UKP5 View 3D Structure Click here
Q9UKQ2 View 3D Structure Click here
Q9UNA0 View 3D Structure Click here
Q9UP79 View 3D Structure Click here
Q9VAC5 View 3D Structure Click here
Q9VAI2 View 3D Structure Click here
Q9VJW9 View 3D Structure Click here
Q9W493 View 3D Structure Click here
Q9WUQ1 View 3D Structure Click here
Q9Y3Q7 View 3D Structure Click here
Q9Z0F8 View 3D Structure Click here
Q9Z1K9 View 3D Structure Click here
U3JAD1 View 3D Structure Click here
X2JE21 View 3D Structure Click here

trRosetta Structure

The structural model below was generated by the Baker group with the trRosetta software using the Pfam UniProt multiple sequence alignment.

The InterPro website shows the contact map for the Pfam SEED alignment. Hovering or clicking on a contact position will highlight its connection to other residues in the alignment, as well as on the 3D structure.

Improved protein structure prediction using predicted inter-residue orientations. Jianyi Yang, Ivan Anishchenko, Hahnbeom Park, Zhenling Peng, Sergey Ovchinnikov, David Baker Proceedings of the National Academy of Sciences Jan 2020, 117 (3) 1496-1503; DOI: 10.1073/pnas.1914677117;