Summary: SurA N-terminal domain
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SurA N-terminal domain Provide feedback
This domain is found at the N-terminus of the chaperone SurA. It is a helical domain of unknown function. The C-terminus of the SurA protein folds back and forms part of this domain also but is not included in the current alignment.
Internal database links
|Similarity to PfamA using HHSearch:||Trigger_C SurA_N_3|
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR015391
The correct folding of outer membrane proteins in Gram negative bacteria is facilitated by the survival protein SurA [PUBMED:8626309]. This entry represents the domain found at the N terminus of the chaperone SurA. It is a helical domain of unknown function. The C terminus of the SurA protein folds back and forms part of this domain also but is not included in the current alignment.
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This helical domain is found in two families of chaperones. It is found at the N terminus of the SurA proteins and at the C-terminus of the trigger factors where presumably it shares a common but as yet unknown function.
The clan contains the following 4 members:SurA_N SurA_N_2 SurA_N_3 Trigger_C
We make a range of alignments for each Pfam-A family:
- the curated alignment from which the HMM for the family is built
- the alignment generated by searching the sequence database using the HMM
- Representative Proteomes (RPs) at 15%, 35%, 55% and 75% co-membership thresholds
- alignment generated by searching the NCBI sequence database using the family HMM
- alignment generated by searching the metagenomics sequence database using the family HMM
You can see the alignments as HTML or in three different sequence viewers:
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key: available, not generated, — not available.
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Curation and family details
|Author:||Sammut SJ, Bateman A|
|Number in seed:||19|
|Number in full:||1802|
|Average length of the domain:||113.80 aa|
|Average identity of full alignment:||32 %|
|Average coverage of the sequence by the domain:||28.46 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||6|
|Download:||download the raw HMM for this family|
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The tree shows the occurrence of this domain across different species. More...
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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 SurA_N domain has been found. There are 8 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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