Summary: TolB amino-terminal domain
TolB amino-terminal domain Provide feedback
TolB is an essential periplasmic component of the tol-dependent translocation system. This function of this amino terminal domain is uncertain.
Carr S, Penfold CN, Bamford V, James R, Hemmings AM. , Structure Fold Des 2000;8:57-66.: The structure of TolB, an essential component of the tol-dependent translocation system, and its protein-protein interaction with the translocation domain of colicin E9. PUBMED:10673426 EPMC:10673426
Internal database links
|Similarity to PfamA using HHSearch:||CsgG DUF3280|
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR007195
TolB is a periplasmic protein from Escherichia coli that is part of the Tol-dependent translocation system involving group A and E colicins that is used to penetrate and kill cells [PUBMED:10545334, PUBMED:10673426]. TolB has two domains, an alpha-helical N-terminal domain that shares structural similarity with the C-terminal domain of transfer RNA ligases, and a beta-propeller C-terminal domain (INTERPRO) that shares structural similarity with numerous members of the prolyl oligopeptidase family and, to a lesser extent, to class B metallo-beta-lactamases [PUBMED:10545334]. The function of the N-terminal domain is uncertain.
|Cellular component||periplasmic space (GO:0042597)|
|Biological process||protein transport (GO:0015031)|
- the number of sequences which exhibit this architecture
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This example describes an architecture with one
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Members of this superfamily appear to behave like the N-terminal fold of the TolB transport-portal complex protein, which is beta-stranded.
The clan contains the following 6 members:CsgG DUF330 DUF3897 DUF799 Lipoprotein_16 TolB_N
We make a range of alignments for each Pfam-A family:
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Curation and family details
|Seed source:||Bateman A|
|Number in seed:||174|
|Number in full:||1688|
|Average length of the domain:||103.20 aa|
|Average identity of full alignment:||37 %|
|Average coverage of the sequence by the domain:||23.83 %|
|HMM build commands:||
build method: hmmbuild --amino -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||8|
|Download:||download the raw HMM for this family|
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There are 2 interactions for this family. More...
We determine these interactions using iPfam, which considers the interactions between residues in three-dimensional protein structures and maps those interactions back to Pfam families. You can find more information about the iPfam algorithm in the journal article that accompanies the website.
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 TolB_N domain has been found. There are 15 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 seqence.
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