Summary: LRRFIP family
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LRRFIP family Provide feedback
LRRFIP1 is a transcriptional repressor which preferentially binds to the GC-rich consensus sequence (5'- AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA [1]. LRRFIP2 may function as activator of the canonical Wnt signalling pathway, in association with DVL3, upstream of CTNNB1/beta-catenin [2].
Literature references
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Suriano AR, Sanford AN, Kim N, Oh M, Kennedy S, Henderson MJ, Dietzmann K, Sullivan KE;, Mol Cell Biol. 2005;25:9073-9081.: GCF2/LRRFIP1 represses tumor necrosis factor alpha expression. PUBMED:16199883 EPMC:16199883
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Liu J, Bang AG, Kintner C, Orth AP, Chanda SK, Ding S, Schultz PG;, Proc Natl Acad Sci U S A. 2005;102:1927-1932.: Identification of the Wnt signaling activator leucine-rich repeat in Flightless interaction protein 2 by a genome-wide functional analysis. PUBMED:15677333 EPMC:15677333
Internal database links
SCOOP: | ATG16 KASH_CCD |
This tab holds annotation information from the InterPro database.
InterPro entry IPR019139
Leucine-rich repeat flightless-interacting protein 1 (LRRFIP1) is a transcriptional repressor which preferentially binds to the GC-rich consensus sequence (5'-AGCCCCCGGCG-3') and may regulate expression of TNF, EGFR and PDGFA [PUBMED:16199883]. It may control smooth muscle cell proliferation following artery injury through PDGFA repression and may also bind double-stranded RNA. It interacts with the leucine-rich repeat domain of human flightless-I (FliI) protein [PUBMED:19265123].
Leucine-rich repeat flightless-interacting protein 2 (LRRFIP2) may function as activator of the canonical Wnt signaling pathway, in association with DVL3, upstream of CTNNB1/beta-catenin [PUBMED:15677333]. It positively regulates Toll-like receptor (TLR) signalling in response to agonist probably by competing with the negative FLII regulator for MYD88-binding [PUBMED:19265123].
Gene Ontology
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
Biological process | regulation of transcription, DNA-templated (GO:0006355) |
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 (23) |
Full (1348) |
Representative proteomes | UniProt (2105) |
NCBI (10598) |
Meta (0) |
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RP15 (159) |
RP35 (383) |
RP55 (700) |
RP75 (827) |
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PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
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Seed (23) |
Full (1348) |
Representative proteomes | UniProt (2105) |
NCBI (10598) |
Meta (0) |
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RP15 (159) |
RP35 (383) |
RP55 (700) |
RP75 (827) |
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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: | KOGs (KOG2010) |
Previous IDs: | DUF2051; |
Type: | Family |
Sequence Ontology: | SO:0100021 |
Author: |
KOGs, Finn RD |
Number in seed: | 23 |
Number in full: | 1348 |
Average length of the domain: | 205.40 aa |
Average identity of full alignment: | 24 % |
Average coverage of the sequence by the domain: | 60.04 % |
HMM information
HMM build commands: |
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 45638612 -E 1000 --cpu 4 HMM pfamseq
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Model details: |
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Model length: | 297 | ||||||||||||
Family (HMM) version: | 9 | ||||||||||||
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 LRRFIP 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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