Summary: Biofilm development protein YmgB/AriR
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Biofilm development protein YmgB/AriR Provide feedback
YmgB is part of the three gene cluster ymgABC which has a role in biofilm development and stability. YmgB represses biofilm formation in rich medium containing glucose, decreases cellular motility and also protects the cell from acid which indicates that YmgB has an important function in acid-resistance . YmgB binds as a dimer to genes which are important for biofilm formation via a ligand. Due to its important function in acid resistance it is also known as AriR (regulator of acid resistance influenced by indole) .
Lee J, Page R, Garcia-Contreras R, Palermino JM, Zhang XS, Doshi O, Wood TK, Peti W; , J Mol Biol. 2007;373:11-26.: Structure and function of the Escherichia coli protein YmgB: a protein critical for biofilm formation and acid-resistance. PUBMED:17765265 EPMC:17765265
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR024753
YmgB is part of the three gene cluster ymgABC which has a role in biofilm development and stability. YmgB represses biofilm formation in rich medium containing glucose, decreases cellular motility and also protects the cell from acid, which indicates that YmgB has an important function in acid-resistance [PUBMED:17765265]. YmgB binds as a dimer to genes which are important for biofilm formation via a ligand. Due to its important function in acid resistance it is also known as AriR (regulator of acid resistance influenced by indole) [PUBMED:17765265].
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Biological process||biofilm formation (GO:0042710)|
|cellular response to acid (GO:0071229)|
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Curation and family details
|Author:||Pollington J, Finn RD|
|Number in seed:||6|
|Number in full:||700|
|Average length of the domain:||55.90 aa|
|Average identity of full alignment:||43 %|
|Average coverage of the sequence by the domain:||68.79 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||3|
|Download:||download the raw HMM for this family|
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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 YmgB domain has been found. There are 2 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 seqence.
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