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0  structures 172  species 0  interactions 187  sequences 1  architecture

Family: HrpE (PF06188)

Summary: HrpE/YscL/FliH and V-type ATPase subunit E

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HrpE/YscL/FliH and V-type ATPase subunit E Provide feedback

This is a prokaryotic family that contains proteins of the FliH and HrpE/YscL family. These proteins are involved in type III secretion, which is the process that drives flagellar biosynthesis and mediates bacterial-eukaryotic interactions [1-2]. This family also V-type ATPase subunit E. This subunit appears to form a tight interaction with subunit G in the F0 complex [3]. Subunits E and G may act together as stators to prevent certain subunits from rotating with the central rotary element [3]. PF01991 also contains V-type ATPase subunit E proteins.

Literature references

  1. Huang HC, Lin RH, Chang CJ, Collmer A, Deng WL; , Mol Plant Microbe Interact 1995;8:733-746.: The complete hrp gene cluster of Pseudomonas syringae pv. syringae 61 includes two blocks of genes required for harpinPss secretion that are arranged colinearly with Yersinia ysc homologs. PUBMED:7579617 EPMC:7579617

  2. Pallen MJ, Bailey CM, Beatson SA; , Protein Sci. 2006;15:935-941.: Evolutionary links between FliH/YscL-like proteins from bacterial type III secretion systems and second-stalk components of the FoF1 and vacuolar ATPases. PUBMED:16522800 EPMC:16522800

  3. Fethiere J, Venzke D, Diepholz M, Seybert A, Geerlof A, Gentzel M, Wilm M, Bottcher B;, J Biol Chem. 2004;279:40670-40676.: Building the stator of the yeast vacuolar-ATPase: specific interaction between subunits E and G. PUBMED:15292229 EPMC:15292229


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR009335

This family consists of several bacterial HrpE proteins, which are believed to function on the type III secretion system, specifically the secretion of HrpZ (harpinPss) [PUBMED:9045830]. This family also includes V-type proton ATPase subunit E proteins. This subunit appears to form a tight interaction with subunit G in the F0 complex. Subunits E and G may act together as stators to prevent certain subunits from rotating with the central rotary element [PUBMED:15292229]. also contains V-type ATPase subunit E proteins.

There is an evolutionary link between type III secretion systems and membrane-associated proton translocating ATPases [PUBMED:16522800].

Domain organisation

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Pfam Clan

This family is a member of clan ATP_synthase (CL0255), which has the following description:

This clan contains subunits of the F0 complex of ATP-synthase. The F0 complex is the non-catalytic unit of ATPase and is involved in proton translocation across membranes.

The clan contains the following 12 members:

ATP-synt_8 ATP-synt_B FliH Fun_ATP-synt_8 HrpE Mt_ATP-synt_B NolV OSCP V-ATPase_G vATP-synt_E Yae1_N YMF19

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 using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the NCBI sequence database, and our metagenomics sequence database. More...

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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
(10)
Full
(187)
Representative proteomes NCBI
(328)
Meta
(31)
RP15
(10)
RP35
(19)
RP55
(26)
RP75
(31)
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(10)
Full
(187)
Representative proteomes NCBI
(328)
Meta
(31)
RP15
(10)
RP35
(19)
RP55
(26)
RP75
(31)
Alignment:
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Sequence:
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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
(10)
Full
(187)
Representative proteomes NCBI
(328)
Meta
(31)
RP15
(10)
RP35
(19)
RP55
(26)
RP75
(31)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download  
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You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

External links

MyHits provides a collection of tools to handle multiple sequence alignments. For example, one can refine a seed alignment (sequence addition or removal, re-alignment or manual edition) and then search databases for remote homologs using HMMER3.

Pfam alignments:

HMM logo

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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: Pfam-B_11055 (release 9.0)
Previous IDs: none
Type: Family
Author: Moxon SJ
Number in seed: 10
Number in full: 187
Average length of the domain: 164.80 aa
Average identity of full alignment: 25 %
Average coverage of the sequence by the domain: 79.76 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 23.5 23.5
Trusted cut-off 23.5 23.5
Noise cut-off 23.4 23.4
Model length: 191
Family (HMM) version: 7
Download: download the raw HMM for this family

Species distribution

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