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29  structures 8529  species 0  interactions 21334  sequences 164  architectures

Family: TGS (PF02824)

Summary: TGS domain

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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.

TGS domain Provide feedback

The TGS domain is named after ThrRS, GTPase, and SpoT [1]. Interestingly, TGS domain was detected also at the amino terminus of the uridine kinase from the spirochaete Treponema pallidum (but not any other organism, including the related spirochaete Borrelia burgdorferi). TGS is a small domain that consists of ~50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role [1].

Literature references

  1. Wolf YI, Aravind L, Grishin NV, Koonin EV; , Genome Res 1999;9:689-710.: Evolution of aminoacyl-tRNA synthetases--analysis of unique domain architectures and phylogenetic trees reveals a complex history of horizontal gene transfer events. PUBMED:10447505 EPMC:10447505

  2. Sankaranarayanan R, Dock-Bregeon AC, Romby P, Caillet J, Springer M, Rees B, Ehresmann C, Ehresmann B, Moras D; , Cell 1999;97:371-381.: The structure of threonyl-tRNA synthetase-tRNA(Thr) complex enlightens its repressor activity and reveals an essential zinc ion in the active site. PUBMED:10319817 EPMC:10319817


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR004095

The TGS domain (named for its presence ThrRS, GTPase, and SpoT) is present in a number of enzymes, for example, in threonyl-tRNA synthetase (ThrRS), a distinct family of GTPases (the OBG family), and guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase (SpoT) [ PUBMED:10447505 , PUBMED:26912459 ] and synthetase (RelA) which are involved in stringent response in bacteria. The TGS domain is also present at the N-terminal of the uridine kinase from the spirochaete Treponema pallidum [ PUBMED:10678983 ] (but not any other organism, including the related spirochaete Borrelia burgdorferi).

TGS is a small domain that consists of ~50 amino acid residues and has nucleic acid binding affinity. It is arranged in a six-stranded half-barrel that curves around an alpha-helix and belongs to the beta-grasp fold superfamily [ PUBMED:12837776 , PUBMED:17430889 , PUBMED:16859499 ]. The function of the TGS domain of SpoT is in transcription of survival and virulence genes in response to environmental stress [ PUBMED:27279228 ].

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
(53)
Full
(21334)
Representative proteomes UniProt
(89087)
RP15
(3142)
RP35
(10163)
RP55
(20508)
RP75
(33906)
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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
(53)
Full
(21334)
Representative proteomes UniProt
(89087)
RP15
(3142)
RP35
(10163)
RP55
(20508)
RP75
(33906)
Alignment:
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Sequence:
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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
(53)
Full
(21334)
Representative proteomes UniProt
(89087)
RP15
(3142)
RP35
(10163)
RP55
(20508)
RP75
(33906)
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: Aravind L
Previous IDs: none
Type: Domain
Sequence Ontology: SO:0000417
Author: Aravind L
Number in seed: 53
Number in full: 21334
Average length of the domain: 62.40 aa
Average identity of full alignment: 32 %
Average coverage of the sequence by the domain: 9.68 %

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 22.2 22.2
Trusted cut-off 22.2 22.2
Noise cut-off 22.1 22.1
Model length: 60
Family (HMM) version: 23
Download: download the raw HMM for this family

Species distribution

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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 TGS domain has been found. There are 29 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
A0A0G2KAI8 View 3D Structure Click here
A0A0R0LLV1 View 3D Structure Click here
A0A1D6GKX7 View 3D Structure Click here
A0A1D6K2J3 View 3D Structure Click here
A0A1D6KSQ7 View 3D Structure Click here
A0A1D6PAS6 View 3D Structure Click here
A0A1D6PIC6 View 3D Structure Click here
A0A1D6PLR6 View 3D Structure Click here
A0A1D8PMV9 View 3D Structure Click here
A0A5K1K870 View 3D Structure Click here
A2BIM7 View 3D Structure Click here
A2RTX5 View 3D Structure Click here
A4IB34 View 3D Structure Click here
A4IC49 View 3D Structure Click here
A4IDJ9 View 3D Structure Click here
B6TI04 View 3D Structure Click here
C0H5I9 View 3D Structure Click here
F4JHA2 View 3D Structure Click here
G5EGL2 View 3D Structure Click here
I1J5B4 View 3D Structure Click here
I1JC08 View 3D Structure Click here
I1JQN9 View 3D Structure Click here
I1JY81 View 3D Structure Click here
I1KBB9 View 3D Structure Click here
I1KHA2 View 3D Structure Click here
I1MJZ5 View 3D Structure Click here
I1NB87 View 3D Structure Click here
K7LMG5 View 3D Structure Click here
O04630 View 3D Structure Click here
P04801 View 3D Structure Click here
P0A8M3 View 3D Structure Click here
P0AG20 View 3D Structure Click here
P0AG24 View 3D Structure Click here
P26639 View 3D Structure Click here
P32233 View 3D Structure Click here
P32234 View 3D Structure Click here
P32235 View 3D Structure Click here
P34280 View 3D Structure Click here
P39729 View 3D Structure Click here
P52709 View 3D Structure Click here
P53295 View 3D Structure Click here
P55039 View 3D Structure Click here
P87144 View 3D Structure Click here
P9WHG9 View 3D Structure Click here
Q2FXP7 View 3D Structure Click here
Q2FXU1 View 3D Structure Click here
Q3UQ84 View 3D Structure Click here
Q4D570 View 3D Structure Click here
Q4D9G6 View 3D Structure Click here
Q4DPR0 View 3D Structure Click here
Q4E4D5 View 3D Structure Click here
Q54HP3 View 3D Structure Click here
Q54J66 View 3D Structure Click here
Q54WT4 View 3D Structure Click here
Q58722 View 3D Structure Click here
Q58728 View 3D Structure Click here
Q5A779 View 3D Structure Click here
Q5AK43 View 3D Structure Click here
Q5I0F0 View 3D Structure Click here
Q5W796 View 3D Structure Click here
Q5XHY5 View 3D Structure Click here
Q5XI17 View 3D Structure Click here
Q68FW7 View 3D Structure Click here
Q6TH20 View 3D Structure Click here
Q6Z0N5 View 3D Structure Click here
Q7T340 View 3D Structure Click here
Q7XI68 View 3D Structure Click here
Q8BLY2 View 3D Structure Click here
Q8GZ45 View 3D Structure Click here
Q9AYT5 View 3D Structure Click here
Q9BW92 View 3D Structure Click here
Q9CAI1 View 3D Structure Click here
Q9D0R2 View 3D Structure Click here
Q9LQK0 View 3D Structure Click here
Q9QXB9 View 3D Structure Click here
Q9SVA6 View 3D Structure Click here
Q9UT21 View 3D Structure Click here
Q9VDV2 View 3D Structure Click here
Q9VKB0 View 3D Structure Click here
Q9Y295 View 3D Structure Click here