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0  structures 83  species 0  interactions 1404  sequences 27  architectures

Family: WEMBL (PF05701)

Summary: Weak chloroplast movement under blue light

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Weak chloroplast movement under blue light Provide feedback

WEMBL consists of several plant proteins required for the chloroplast avoidance response under high intensity blue light. This avoidance response consists in the relocation of chloroplasts on the anticlinal side of exposed cells. Acts in association with PMI2 to maintain the velocity of chloroplast photo-relocation movement via the regulation of cp-actin filaments [1]. Thus several member-sequences are described as "myosin heavy chain-like".

Literature references

  1. Kodama Y, Suetsugu N, Kong SG, Wada M;, Proc Natl Acad Sci U S A. 2010;107:19591-19596.: Two interacting coiled-coil proteins, WEB1 and PMI2, maintain the chloroplast photorelocation movement velocity in Arabidopsis. PUBMED:20974974 EPMC:20974974


Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR008545

Proteins in this family include WEB1 (At2g26570) and PMI15 (At5g38150) from Arabidopsis thaliana.

Both Web1 and PMI15 are required for the chloroplast avoidance response under high intensity blue light. This avoidance response consists in the relocation of chloroplasts on the anticlinal side of exposed cells. Web1 acts in association with PMI2 to maintain the velocity of chloroplast photorelocation movement via cp-actin filaments regulation [PUBMED:20974974,PUBMED:16778016].

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
(31)
Full
(1404)
Representative proteomes UniProt
(1781)
NCBI
(2681)
Meta
(0)
RP15
(243)
RP35
(891)
RP55
(1221)
RP75
(1372)
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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
(31)
Full
(1404)
Representative proteomes UniProt
(1781)
NCBI
(2681)
Meta
(0)
RP15
(243)
RP35
(891)
RP55
(1221)
RP75
(1372)
Alignment:
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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
(31)
Full
(1404)
Representative proteomes UniProt
(1781)
NCBI
(2681)
Meta
(0)
RP15
(243)
RP35
(891)
RP55
(1221)
RP75
(1372)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download    
Gzipped Download   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.

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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_6516 (release 8.0)
Previous IDs: DUF827;
Type: Family
Sequence Ontology: SO:0100021
Author: Moxon SJ
Number in seed: 31
Number in full: 1404
Average length of the domain: 353.00 aa
Average identity of full alignment: 21 %
Average coverage of the sequence by the domain: 67.49 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 45638612 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 35.0 35.0
Trusted cut-off 35.0 35.0
Noise cut-off 34.9 34.9
Model length: 562
Family (HMM) version: 11
Download: download the raw HMM for this family

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