Summary: Calcium/calmodulin dependent protein kinase II association domain
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Calcium/calmodulin dependent protein kinase II association domain Provide feedback
This domain is found at the C-terminus of the Calcium/calmodulin dependent protein kinases II (CaMKII). These proteins also have a Ser/Thr protein kinase domain (PF00069) at their N-terminus [1]. The function of the CaMKII association domain is the assembly of the single proteins into large (8 to 14 subunits) multimers [2].
Literature references
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Gangopadhyay SS, Barber AL, Gallant C, Grabarek Z, Smith JL, Morgan KG; , Biochem J 2003;372:347-357.: Differential functional properties of calmodulin-dependent protein kinase IIgamma variants isolated from smooth muscle. PUBMED:12603201 EPMC:12603201
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Griffith LC, Lu CS, Sun XX; , Mol Interv 2003;3:386-403.: CaMKII, an enzyme on the move: regulation of temporospatial localization. PUBMED:14993460 EPMC:14993460
Internal database links
SCOOP: | DUF3225 DUF4440 NTF2 SnoaL SnoaL_2 SnoaL_3 SnoaL_4 |
Similarity to PfamA using HHSearch: | DUF3225 SnoaL_2 SnoaL_3 SnoaL_4 DUF4440 |
This tab holds annotation information from the InterPro database.
InterPro entry IPR013543
Protein phosphorylation, which plays a key role in most cellular activities, is a reversible process mediated by protein kinases and phosphoprotein phosphatases. Protein kinases catalyse the transfer of the gamma phosphate from nucleotide triphosphates (often ATP) to one or more amino acid residues in a protein substrate side chain, resulting in a conformational change affecting protein function. Phosphoprotein phosphatases catalyse the reverse process. Protein kinases fall into three broad classes, characterised with respect to substrate specificity [PUBMED:3291115]:
- Serine/threonine-protein kinases
- Tyrosine-protein kinases
- Dual specificity protein kinases (e.g. MEK - phosphorylates both Thr and Tyr on target proteins)
Protein kinase function is evolutionarily conserved from Escherichia coli to human [PUBMED:12471243]. Protein kinases play a role in a multitude of cellular processes, including division, proliferation, apoptosis, and differentiation [PUBMED:12368087]. Phosphorylation usually results in a functional change of the target protein by changing enzyme activity, cellular location, or association with other proteins. The catalytic subunits of protein kinases are highly conserved, and several structures have been solved [PUBMED:15078142], leading to large screens to develop kinase-specific inhibitors for the treatments of a number of diseases [PUBMED:15320712].
This domain is found at the C terminus of the Calcium/calmodulin dependent protein kinases II (CaMKII). These proteins also have a Ser/Thr protein kinase domain (INTERPRO) at their N terminus [PUBMED:12603201]. The function of the CaMKII association domain is the assembly of the single proteins into large (8 to 14 subunits) multimers [PUBMED:14993460] and is a prominent kinase in the central nervous system that may function in long-term potentiation and neurotransmitter release.
Gene Ontology
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
Molecular function | calmodulin-dependent protein kinase activity (GO:0004683) |
calmodulin binding (GO:0005516) | |
Biological process | protein phosphorylation (GO:0006468) |
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 NTF2 (CL0051), which has the following description:
This superfamily contains a variety of enzymes such as Scytalone dehydratase, Delta-5-3-ketosteroid isomerase, Limonene-1,2-epoxide hydrolase among others. The family also includes presumed non-enzymatic homologues such as NTF2.
The clan contains the following 40 members:
CaMKII_AD DUF1348 DUF2358 DUF3225 DUF3804 DUF3828 DUF3887 DUF4348 DUF4440 DUF4467 DUF4518 DUF4783 DUF4829 DUF4864 DUF4878 DUF4904 DUF5104 DUF5105 Endopep_inhib LEH Lumazine_bd_2 MBA1 MecA_N MlaC Mtr2 NTF2 ORF_12_N PHZA_PHZB Ring_hydroxyl_B Scytalone_dh SnoaL SnoaL_2 SnoaL_3 SnoaL_4 T4BSS_DotI_IcmL Tim44 TpcC UPF0225 VirB8 WI12Alignments
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...
View options
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 (5) |
Full (3050) |
Representative proteomes | UniProt (6413) |
NCBI (20948) |
Meta (138) |
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RP15 (226) |
RP35 (691) |
RP55 (1948) |
RP75 (3486) |
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PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key:
available,
not generated,
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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 (5) |
Full (3050) |
Representative proteomes | UniProt (6413) |
NCBI (20948) |
Meta (138) |
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---|---|---|---|---|---|---|---|---|---|
RP15 (226) |
RP35 (691) |
RP55 (1948) |
RP75 (3486) |
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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_1025 (release 18.0) |
Previous IDs: | none |
Type: | Domain |
Sequence Ontology: | SO:0000417 |
Author: | Wuster A |
Number in seed: | 5 |
Number in full: | 3050 |
Average length of the domain: | 124.10 aa |
Average identity of full alignment: | 67 % |
Average coverage of the sequence by the domain: | 27.13 % |
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: | 128 | ||||||||||||
Family (HMM) version: | 11 | ||||||||||||
Download: | download the raw HMM for this family |
Species distribution
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Selections
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Structures
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 CaMKII_AD domain has been found. There are 93 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 sequence.
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