Summary: Caleosin related protein
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Caleosin related protein Provide feedback
This family contains plant proteins related to caleosin. Caleosins contain calcium-binding domains and have an oleosin-like association with lipid bodies. Caleosins are present at relatively low levels and are mainly bound to microsomal membrane fractions at the early stages of seed development. As the seeds mature, overall levels of caleosins increased dramatically and they were associated almost exclusively with storage lipid bodies [1]. This family is probably related to EF hands PF00036.
Literature references
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Murphy DJ, Hernendez-Pinzon I, Patel K, Hope RG, McLauchlan J; , Biochem Soc Trans 2000;28:710-711.: New insights into the mechanisms of lipid-body biogenesis in plants and other organisms. PUBMED:11171180 EPMC:11171180
Internal database links
SCOOP: | EF-hand_1 EF-hand_6 |
This tab holds annotation information from the InterPro database.
InterPro entry IPR007736
Caleosins are a family of lipid-associated proteins that are ubiquitous in plants and true fungi. In plants, caleosinss are Ca(2+)-binding oil-body surface proteins [PUBMED:16961733]. Later, caleosin was identified as a putative peroxygenase, which is involved in oxylipin metabolism during biotic and abiotic stress responses in Arabidopsis [PUBMED:19467604]. The calcium binding domain is probably related to the calcium-binding EF-hands motif INTERPRO.
Domain organisation
Below is a listing of the unique domain organisations or architectures in which this domain is found. More...
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Pfam Clan
This family is a member of clan EF_hand (CL0220), which has the following description:
The EF hand is a calcium binding domain found in a wide variety of proteins [1].
The clan contains the following 30 members:
Ca_chan_IQ Caleosin Cbl_N2 Cullin_binding DAG_kinase_N Dockerin_1 EF-hand_1 EF-hand_10 EF-hand_11 EF-hand_12 EF-hand_13 EF-hand_14 EF-hand_2 EF-hand_3 EF-hand_4 EF-hand_5 EF-hand_6 EF-hand_7 EF-hand_8 EF-hand_9 EF-hand_like EF_assoc_2 EFhand_Ca_insen Internalin_N IQ IQCJ-SCHIP1 NADPH_Ox p25-alpha S_100 SPARC_Ca_bdgAlignments
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 (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the UniProtKB sequence database, 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 (104) |
Full (1507) |
Representative proteomes | UniProt (2235) |
NCBI (2545) |
Meta (3) |
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RP15 (138) |
RP35 (659) |
RP55 (1122) |
RP75 (1498) |
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Jalview | |||||||||
HTML | |||||||||
PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key:
available,
not generated,
— not available.
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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 (104) |
Full (1507) |
Representative proteomes | UniProt (2235) |
NCBI (2545) |
Meta (3) |
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---|---|---|---|---|---|---|---|---|---|
RP15 (138) |
RP35 (659) |
RP55 (1122) |
RP75 (1498) |
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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: | Pfam-B_5163 (release 7.7) |
Previous IDs: | none |
Type: | Family |
Sequence Ontology: | SO:0100021 |
Author: |
Moxon SJ |
Number in seed: | 104 |
Number in full: | 1507 |
Average length of the domain: | 148.60 aa |
Average identity of full alignment: | 41 % |
Average coverage of the sequence by the domain: | 64.66 % |
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: | 170 | ||||||||||||
Family (HMM) version: | 14 | ||||||||||||
Download: | download the raw HMM for this family |
Species distribution
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