Summary: Tripartite tricarboxylate transporter TctA family
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Tripartite tricarboxylate transporter TctA family Provide feedback
This family, formerly known as DUF112, is a family of bacterial and archaeal tripartite tricarboxylate transporters of the extracytoplasmic solute binding receptor-dependent transporter group of families, distinct from the ABC and TRAP-T families [1]. TctA is part of the tripartite TctABC system which, as characterised in S. typhimurium [2] is a secondary carrier that depends for activity on the extracytoplasmic tricarboxylate-binding receptor TctC as well as two integral membrane proteins, TctA and TctB. complete three-component systems are found only in bacteria. TctA is a large transmembrane protein with up to 12 predicted membrane spanning regions in bacteria and up to 11 such in archaea, with the N-terminal within the cytoplasm. TctA is thought to be a permease, and in most other bacteria functions without TctB and TctC molecules [1].
Literature references
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Winnen B, Hvorup RN, Saier MH Jr; , Res Microbiol. 2003;154:457-465.: The tripartite tricarboxylate transporter (TTT) family. PUBMED:14499931 EPMC:14499931
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Sweet GD, Kay CM, Kay WW; , J Biol Chem. 1984;259:1586-1592.: Tricarboxylate-binding proteins of Salmonella typhimurium. Purification, crystallization, and physical properties. PUBMED:6141166 EPMC:6141166
External database links
Transporter classification: | 2.A.80 |
This tab holds annotation information from the InterPro database.
InterPro entry IPR002823
Members of this prokaryotic family have no known function. Members are predicted to be integral membrane proteins and are similar to a protein in a tartrate utilisation region (TAR) of Agrobacterium vitis a common pathogen of grapevine. Most grapevine strains utilise tartrate, an abundant compound in grapevine [PUBMED:8672817].
Domain organisation
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Alignments
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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 (403) |
Full (6731) |
Representative proteomes | UniProt (26165) |
NCBI (34367) |
Meta (3079) |
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RP15 (542) |
RP35 (3011) |
RP55 (6917) |
RP75 (11690) |
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PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key:
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not generated,
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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 (403) |
Full (6731) |
Representative proteomes | UniProt (26165) |
NCBI (34367) |
Meta (3079) |
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---|---|---|---|---|---|---|---|---|---|
RP15 (542) |
RP35 (3011) |
RP55 (6917) |
RP75 (11690) |
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Raw Stockholm | |||||||||
Gzipped |
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
Seed source: | Enright A |
Previous IDs: | DUF112; |
Type: | Family |
Sequence Ontology: | SO:0100021 |
Author: |
Enright A |
Number in seed: | 403 |
Number in full: | 6731 |
Average length of the domain: | 410.60 aa |
Average identity of full alignment: | 36 % |
Average coverage of the sequence by the domain: | 82.88 % |
HMM information
HMM build commands: |
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq
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Model details: |
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Model length: | 409 | ||||||||||||
Family (HMM) version: | 17 | ||||||||||||
Download: | download the raw HMM for this family |
Species distribution
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