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0  structures 572  species 0  interactions 55428  sequences 1807  architectures

Family: TSP1_ADAMTS (PF19030)

Summary: Thrombospondin type 1 domain

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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.

Thrombospondin type 1 domain Provide feedback

This subfamily of thrombospondin type 1 repeats are mainly found in ADAMTS proteins.

Literature references

  1. Xu ER, Lafita A, Bateman A, Hyvonen M;, Acta Crystallogr D Struct Biol. 2020;76:124-134.: The thrombospondin module 1 domain of the matricellular protein CCN3 shows an atypical disulfide pattern and incomplete CWR layers. PUBMED:32038043 EPMC:32038043


Internal database links

This tab holds annotation information from the InterPro database.

No InterPro data for this Pfam family.

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 TSP1 (CL0692), which has the following description:

This superfamiy includes the TSP1 domain and its variants.

The clan contains the following 4 members:

TSP1_ADAMTS TSP1_CCN TSP1_spondin TSP_1

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
(21)
Full
(55428)
Representative proteomes UniProt
(92587)
RP15
(6647)
RP35
(16013)
RP55
(41764)
RP75
(56917)
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
(21)
Full
(55428)
Representative proteomes UniProt
(92587)
RP15
(6647)
RP35
(16013)
RP55
(41764)
RP75
(56917)
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
(21)
Full
(55428)
Representative proteomes UniProt
(92587)
RP15
(6647)
RP35
(16013)
RP55
(41764)
RP75
(56917)
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: Bateman A
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Bateman A
Number in seed: 21
Number in full: 55428
Average length of the domain: 54.90 aa
Average identity of full alignment: 32 %
Average coverage of the sequence by the domain: 21.62 %

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 23.8 23.8
Trusted cut-off 23.8 23.8
Noise cut-off 23.7 23.7
Model length: 55
Family (HMM) version: 3
Download: download the raw HMM for this family

Species distribution

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Colour assignments

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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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Tree controls

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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
A0A0G2K229 View 3D Structure Click here
A0A0G2KI55 View 3D Structure Click here
A0A0G2KPG1 View 3D Structure Click here
A0A0P0V550 View 3D Structure Click here
A0A0R4IES1 View 3D Structure Click here
A0A0R4IHE4 View 3D Structure Click here
A0A0R4ISF7 View 3D Structure Click here
A0A0R4ITM6 View 3D Structure Click here
A0A1D6NLY3 View 3D Structure Click here
A0A1W2Q6M9 View 3D Structure Click here
A0A286Y999 View 3D Structure Click here
A0A286Y9K2 View 3D Structure Click here
A0A286YBL0 View 3D Structure Click here
A0A2R8Q4Q9 View 3D Structure Click here
A0A2R8Q9M6 View 3D Structure Click here
A0A2R8QAQ1 View 3D Structure Click here
A0A2R8QKV2 View 3D Structure Click here
A0A2R8QMQ5 View 3D Structure Click here
A0A2R8RLE2 View 3D Structure Click here
B0S6F1 View 3D Structure Click here
D3Z1A5 View 3D Structure Click here
D3Z8G4 View 3D Structure Click here
D3ZA74 View 3D Structure Click here
D3ZD40 View 3D Structure Click here
D3ZLL7 View 3D Structure Click here
D3ZMB0 View 3D Structure Click here
D3ZN23 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
D4A0T9 View 3D Structure Click here
D4A4X6 View 3D Structure Click here
D4AAT1 View 3D Structure Click here
D4ABB3 View 3D Structure Click here
D4AD55 View 3D Structure Click here
D4ADD4 View 3D Structure Click here
E7FBX1 View 3D Structure Click here
E7FCQ4 View 3D Structure Click here
E7FE04 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;