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239  structures 419  species 0  interactions 9911  sequences 103  architectures

Family: TGF_beta (PF00019)

Summary: Transforming growth factor beta like domain

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

This is the Wikipedia entry entitled "Transforming growth factor beta superfamily". More...

Transforming growth factor beta superfamily Edit Wikipedia article

  • From a page move: This is a redirect from a page that has been moved (renamed). This page was kept as a redirect to avoid breaking links, both internal and external, that may have been made to the old page name.

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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.

Transforming growth factor beta like domain Provide feedback

No Pfam abstract.

Literature references

  1. Daopin S, Piez KA, Ogawa Y, Davies DR; , Science 1992;257:369-373.: Crystal structure of transforming growth factor-beta 2: an unusual fold for the superfamily. PUBMED:1631557 EPMC:1631557

  2. Griffith DL, Keck PC, Sampath TK, Rueger DC, Carlson WD; , Proc Natl Acad Sci U S A 1996;93:878-883.: Three-dimensional structure of recombinant human osteogenic protein 1: structural paradigm for the transforming growth factor beta superfamily. PUBMED:8570652 EPMC:8570652

  3. Eigenbrot C, Gerber N; , Nat Struct Biol 1997;4:435-438.: X-ray structure of glial cell-derived neurotrophic factor at 1.9 A resolution and implications for receptor binding. PUBMED:9187648 EPMC:9187648


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR001839

Transforming growth factor-beta (TGF-beta) is a multifunctional peptide that controls proliferation, differentiation and other functions in many cell types. TGF-beta-1 is a peptide of 112 amino acid residues derived by proteolytic cleavage from the C-terminal of a precursor protein [ PUBMED:8679613 ].

A number of proteins are known to be related to TGF-beta-1 [ PUBMED:1575734 , PUBMED:8199356 ]. Proteins from the TGF-beta family are only active as homo- or heterodimer; the two chains being linked by a single disulphide bond. From X-ray studies of TGF-beta-2 [ PUBMED:1631557 ], it is known that all the other cysteines are involved in intrachain disulphide bonds. There are four disulphide bonds in the TGF-beta's and in inhibin beta chains, while the other members of this family lack the first bond.

The regulatory cytokine TGFbeta exerts tumour-suppressive effects, but also modulates cell invasion and immune regulation [ PUBMED:18662538 ]. Misregulation of the TGF-beta signalling pathway can result in tumour development.

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 Cystine-knot (CL0079), which has the following description:

The cytokine families in this clan have the cystine-knot fold. In this 6 cysteines form three disulphide bridges that are interlinked.

The clan contains the following 14 members:

Coagulin Cys_knot Cys_Knot_tox D_CNTX DAN Hormone_6 IL17 m_DGTX_Dc1a_b_c NGF Noggin PDGF Sclerostin Spaetzle TGF_beta

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
(277)
Full
(9911)
Representative proteomes UniProt
(19006)
RP15
(1265)
RP35
(3502)
RP55
(8689)
RP75
(11313)
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
(277)
Full
(9911)
Representative proteomes UniProt
(19006)
RP15
(1265)
RP35
(3502)
RP55
(8689)
RP75
(11313)
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
(277)
Full
(9911)
Representative proteomes UniProt
(19006)
RP15
(1265)
RP35
(3502)
RP55
(8689)
RP75
(11313)
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: TGF-beta;
Type: Domain
Sequence Ontology: SO:0000417
Author: Sonnhammer ELL , Griffiths-Jones SR
Number in seed: 277
Number in full: 9911
Average length of the domain: 98.60 aa
Average identity of full alignment: 35 %
Average coverage of the sequence by the domain: 25.73 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 20.3 20.3
Trusted cut-off 20.8 20.4
Noise cut-off 19.5 20.2
Model length: 102
Family (HMM) version: 22
Download: download the raw HMM for this family

Species distribution

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Colour assignments

Archea Archea Eukaryota Eukaryota
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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 TGF_beta domain has been found. There are 239 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
A0A0B5GNT7 View 3D Structure Click here
A0A0G2KD75 View 3D Structure Click here
A0A0G2KKG9 View 3D Structure Click here
A0A0N4STS9 View 3D Structure Click here
A0A0R4ILD5 View 3D Structure Click here
A0A0R4IZE5 View 3D Structure Click here
A0A2R8PYI5 View 3D Structure Click here
A0A2R8Q0N4 View 3D Structure Click here
A0A2R8Q1P5 View 3D Structure Click here
A0A2R8QQ48 View 3D Structure Click here
A0A2R8RKR5 View 3D Structure Click here
A0A2R8RLC3 View 3D Structure Click here
A2AVJ4 View 3D Structure Click here
A2BGK2 View 3D Structure Click here
A2SY89 View 3D Structure Click here
A8E7B8 View 3D Structure Click here
A8E7N9 View 3D Structure Click here
B0S4U4 View 3D Structure Click here
B0S7E0 View 3D Structure Click here
B0ZE98 View 3D Structure Click here
B3DI86 View 3D Structure Click here
B8A5X9 View 3D Structure Click here
D3ZGK9 View 3D Structure Click here
D3ZTI5 View 3D Structure Click here
D3ZWC5 View 3D Structure Click here
D4A670 View 3D Structure Click here
D4A7P9 View 3D Structure Click here
E7FAV4 View 3D Structure Click here
E9PTU9 View 3D Structure Click here
E9QHW0 View 3D Structure Click here
F1MAE8 View 3D Structure Click here
F1QA78 View 3D Structure Click here
F1QAD6 View 3D Structure Click here
F1QD07 View 3D Structure Click here
F1QDD0 View 3D Structure Click here
F1QDT8 View 3D Structure Click here
F1QK08 View 3D Structure Click here
F1QPH9 View 3D Structure Click here
F1QWZ4 View 3D Structure Click here
F1QWZ9 View 3D Structure Click here
F1QXC6 View 3D Structure Click here
F1R5Z7 View 3D Structure Click here
F1R678 View 3D Structure Click here
F1R741 View 3D Structure Click here
F8W4A6 View 3D Structure Click here
G3V6W8 View 3D Structure Click here
G5EBY8 View 3D Structure Click here
G5EEL5 View 3D Structure Click here
I3ITH7 View 3D Structure Click here
M0RAY4 View 3D Structure Click here
M0RB87 View 3D Structure Click here
O00292 View 3D Structure Click here
O08689 View 3D Structure Click here
O08717 View 3D Structure Click here
O14793 View 3D Structure Click here
O16273 View 3D Structure Click here
O35312 View 3D Structure Click here
O42222 View 3D Structure Click here
O60383 View 3D Structure Click here
O60542 View 3D Structure Click here
O61643 View 3D Structure Click here
O70300 View 3D Structure Click here
O70301 View 3D Structure Click here
O75610 View 3D Structure Click here
O88959 View 3D Structure Click here
O93369 View 3D Structure Click here
O95390 View 3D Structure Click here
O95393 View 3D Structure Click here
O95972 View 3D Structure Click here
P01137 View 3D Structure Click here
P03971 View 3D Structure Click here
P04202 View 3D Structure Click here
P05111 View 3D Structure Click here
P07713 View 3D Structure Click here
P08476 View 3D Structure Click here
P09529 View 3D Structure Click here
P10600 View 3D Structure Click here
P12643 View 3D Structure Click here
P12644 View 3D Structure Click here
P12645 View 3D Structure Click here
P17125 View 3D Structure Click here
P17246 View 3D Structure Click here
P17490 View 3D Structure Click here
P17491 View 3D Structure Click here
P18075 View 3D Structure Click here
P18331 View 3D Structure Click here
P20722 View 3D Structure Click here
P20863 View 3D Structure Click here
P21274 View 3D Structure Click here
P21275 View 3D Structure Click here
P22003 View 3D Structure Click here
P22004 View 3D Structure Click here
P23359 View 3D Structure Click here
P27090 View 3D Structure Click here
P27091 View 3D Structure Click here
P27106 View 3D Structure Click here
P27539 View 3D Structure Click here
P34820 View 3D Structure Click here
P34821 View 3D Structure Click here
P35621 View 3D Structure Click here
P39905 View 3D Structure Click here
P43021 View 3D Structure Click here
P43026 View 3D Structure Click here
P43027 View 3D Structure Click here
P43028 View 3D Structure Click here
P43029 View 3D Structure Click here
P48540 View 3D Structure Click here
P49000 View 3D Structure Click here
P49001 View 3D Structure Click here
P49002 View 3D Structure Click here
P49003 View 3D Structure Click here
P54631 View 3D Structure Click here
P55103 View 3D Structure Click here
P55104 View 3D Structure Click here
P55105 View 3D Structure Click here
P55107 View 3D Structure Click here
P55108 View 3D Structure Click here
P57785 View 3D Structure Click here
P58166 View 3D Structure Click here
P61812 View 3D Structure Click here
P85857 View 3D Structure Click here
P92172 View 3D Structure Click here
P97463 View 3D Structure Click here
P97737 View 3D Structure Click here
Q04906 View 3D Structure Click here
Q04997 View 3D Structure Click here
Q04998 View 3D Structure Click here
Q04999 View 3D Structure Click here
Q06826 View 3D Structure Click here
Q07104 View 3D Structure Click here
Q07105 View 3D Structure Click here
Q07257 View 3D Structure Click here
Q07258 View 3D Structure Click here
Q07731 View 3D Structure Click here
Q1HI69 View 3D Structure Click here
Q1LWW7 View 3D Structure Click here
Q32PR5 View 3D Structure Click here
Q4AEG6 View 3D Structure Click here
Q5T4W7 View 3D Structure Click here
Q64280 View 3D Structure Click here
Q66I23 View 3D Structure Click here
Q68IN2 View 3D Structure Click here
Q6AYE8 View 3D Structure Click here
Q6HA10 View 3D Structure Click here
Q6KF10 View 3D Structure Click here
Q7Z4P5 View 3D Structure Click here
Q7Z5Y6 View 3D Structure Click here
Q811Q5 View 3D Structure Click here
Q8BHE5 View 3D Structure Click here
Q8JFP9 View 3D Structure Click here
Q8QGE3 View 3D Structure Click here
Q965N9 View 3D Structure Click here
Q96S42 View 3D Structure Click here
Q98TU0 View 3D Structure Click here
Q99748 View 3D Structure Click here
Q99988 View 3D Structure Click here
Q9NR23 View 3D Structure Click here
Q9PTF9 View 3D Structure Click here
Q9QYW4 View 3D Structure Click here
Q9R229 View 3D Structure Click here
Q9UK05 View 3D Structure Click here
Q9V4E6 View 3D Structure Click here
Q9V4F4 View 3D Structure Click here
Q9VQG9 View 3D Structure Click here
Q9W6I6 View 3D Structure Click here
Q9WUK5 View 3D Structure Click here
Q9WV56 View 3D Structure Click here
Q9Z0J6 View 3D Structure Click here
Q9Z0J7 View 3D Structure Click here
Q9Z0L2 View 3D Structure Click here
Q9Z0L4 View 3D Structure Click here
Q9Z1W4 View 3D Structure Click here
Q9Z217 View 3D Structure Click here