Summary: K-box region
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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.
K-box region Provide feedback
The K-box region is commonly found associated with SRF-type transcription factors see PF00319. The K-box is a possible coiled-coil structure [2]. Possible role in multimer formation [1].
Literature references
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Goto K, Meyerowitz EM , Genes Dev 1994;8:1548-1560.: Function and regulation of the Arabidopsis floral homeotic gene PISTILLATA. PUBMED:7958839 EPMC:7958839
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Lupas A, Van Dyke M, Stock J , Science 1991;252:1162-1164.: Predicting coiled coils from protein sequences. PUBMED:2031185 EPMC:2031185
Internal database links
SCOOP: | SLD3 |
External database links
PROSITE: | PDOC00302 |
This tab holds annotation information from the InterPro database.
InterPro entry IPR002487
MADS genes in plants encode key developmental regulators of vegetative and reproductive development. The majority of the plant MADS proteins share a stereotypical MIKC structure. It comprises (from N- to C-terminal) an N-terminal domain, which is, however, present only in a minority of proteins; a MADS domain (see PROSITEDOC, INTERPRO), which is the major determinant of DNA-binding but which also performs dimerisation and accessory factor binding functions; a weakly conserved intervening (I) domain, which constitutes a key molecular determinant for the selective formation of DNA-binding dimers; a keratin-like (K-box) domain, which promotes protein dimerisation; and a C-terminal (C) domain, which is involved in transcriptional activation or in the formation of ternary or quaternary protein complexes. The 80-amino acid K-box domain was originally identified as a region with low but significant similarity to a region of keratin, which is part of the coiled-coil sequence constituting the central rod-shaped domain of keratin [PUBMED:10805792, PUBMED:12032236, PUBMED:12943540]. The K-box protein-protein interaction domain which mediates heterodimerization of MIKC-type MADS proteins contains several heptad repeats in which the first and the fourth positions are occupied by hydrophobic amino acids suggesting that the K-box domain forms three amphipathic alpha-helices referred to as K1, K2, and K3 [PUBMED:12943540].
Gene Ontology
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
Cellular component | nucleus (GO:0005634) |
Molecular function | DNA-binding transcription factor activity (GO:0003700) |
Biological process | regulation of transcription, DNA-templated (GO:0006355) |
Domain organisation
Below is a listing of the unique domain organisations or architectures in which this domain is found. More...
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Alignments
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Seed (168) |
Full (6055) |
Representative proteomes | UniProt (14154) |
NCBI (18259) |
Meta (0) |
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RP15 (170) |
RP35 (2969) |
RP55 (4673) |
RP75 (5938) |
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PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
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Seed (168) |
Full (6055) |
Representative proteomes | UniProt (14154) |
NCBI (18259) |
Meta (0) |
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RP15 (170) |
RP35 (2969) |
RP55 (4673) |
RP75 (5938) |
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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
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Curation
Seed source: | Pfam-B_25 (release 4.0) |
Previous IDs: | none |
Type: | Family |
Sequence Ontology: | SO:0100021 |
Author: |
Bashton M |
Number in seed: | 168 |
Number in full: | 6055 |
Average length of the domain: | 90.30 aa |
Average identity of full alignment: | 29 % |
Average coverage of the sequence by the domain: | 41.01 % |
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: | 93 | ||||||||||||
Family (HMM) version: | 18 | ||||||||||||
Download: | download the raw HMM for this family |
Species distribution
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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 K-box domain has been found. There are 4 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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