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0  structures 22  species 0  interactions 140  sequences 6  architectures

Family: CaM_binding (PF07839)

Summary: Plant calmodulin-binding domain

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This is the Wikipedia entry entitled "Plant calmodulin-binding domain". More...

Plant calmodulin-binding domain Edit Wikipedia article

CaM_binding
Identifiers
Symbol CaM_binding
Pfam PF07839
InterPro IPR012417

In molecular biology, the plant calmodulin-binding domain is a protein domain found repeated in a number of plant calmodulin-binding proteins. These domains are thought to constitute the calmodulin-binding domains of these proteins.[1][2] Binding of the proteins to calmodulin depends on the presence of calcium ions.[1][2] These proteins are thought to be involved in various processes, such as plant defence responses [1] and stolonisation or tuberization.[2]

References[edit]

  1. ^ a b c Reddy VS, Ali GS, Reddy AS (May 2003). "Characterization of a pathogen-induced calmodulin-binding protein: mapping of four Ca2+-dependent calmodulin-binding domains". Plant Mol. Biol. 52 (1): 143–59. PMID 12825696. 
  2. ^ a b c Reddy AS, Day IS, Narasimhulu SB, Safadi F, Reddy VS, Golovkin M, Harnly MJ (February 2002). "Isolation and characterization of a novel calmodulin-binding protein from potato". J. Biol. Chem. 277 (6): 4206–14. doi:10.1074/jbc.M104595200. PMID 11684678. 

This article incorporates text from the public domain Pfam and InterPro IPR012417

This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

Plant calmodulin-binding domain Provide feedback

The sequences featured in this family are found repeated in a number of plant calmodulin-binding proteins (such as Q8W235 Q84ZT8 and Q8H6X1), and are thought to constitute the calmodulin-binding domains [1,2]. Binding of the proteins to calmodulin depends on the presence of calcium ions [1,2]. These proteins are thought to be involved in various processes, such as plant defence responses [1] and stolonisation or tuberization [2].

Literature references

  1. Reddy VS, Ali GS, Reddy AS; , Plant Mol Biol 2003;52:143-159.: Characterization of a pathogen-induced calmodulin-binding protein: mapping of four Ca2+-dependent calmodulin-binding domains. PUBMED:12825696 EPMC:12825696

  2. Reddy AS, Day IS, Narasimhulu SB, Safadi F, Reddy VS, Golovkin M, Harnly MJ; , J Biol Chem 2002;277:4206-4214.: Isolation and characterization of a novel calmodulin-binding protein from potato. PUBMED:11684678 EPMC:11684678


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR012417

This domain is found repeated in a number of plant calmodulin-binding proteins (such as SWISSPROT, SWISSPROT and SWISSPROT). It is thought to represent a calmodulin-binding domain [PUBMED:12825696, PUBMED:11684678]. Binding of the proteins to calmodulin depends on the presence of calcium ions [PUBMED:12825696, PUBMED:11684678]. Proteins containing this domain are thought to be involved in various processes, such as plant defence responses [PUBMED:12825696] and stolonisation or tuberization [PUBMED:11684678].

Gene Ontology

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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
(19)
Full
(140)
Representative proteomes NCBI
(126)
Meta
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RP15
(12)
RP35
(52)
RP55
(72)
RP75
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  Seed
(19)
Full
(140)
Representative proteomes NCBI
(126)
Meta
(0)
RP15
(12)
RP35
(52)
RP55
(72)
RP75
(90)
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
(19)
Full
(140)
Representative proteomes NCBI
(126)
Meta
(0)
RP15
(12)
RP35
(52)
RP55
(72)
RP75
(90)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download    
Gzipped 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.

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:

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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_9279 (release 14.0)
Previous IDs: none
Type: Domain
Author: Fenech M
Number in seed: 19
Number in full: 140
Average length of the domain: 105.70 aa
Average identity of full alignment: 30 %
Average coverage of the sequence by the domain: 21.15 %

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 21.0 21.0
Trusted cut-off 22.4 21.3
Noise cut-off 20.8 20.6
Model length: 115
Family (HMM) version: 6
Download: download the raw HMM for this family

Species distribution

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