|Gene:||ybcN||Accession Numbers: G6303 (EcoCyc), b0547, ECK0538|
YbcN is encoded by the cryptic lambdoid prophage DLP12 and is a distantly related member of the Orf phage protein family. The protein binds to single-stranded DNA [Curtis14] as well as to double-stranded DNA containing base mismatches and bubbles [Chen08, Curtis14]. YbcN interacts with the C terminus of ssDNA-binding protein [Curtis14].
YbcN binds to double-stranded DNA with a G:T mismatch and flips the mismatched base out of the DNA duplex into an extrahelical conformation. It may thus be involved in DNA mismatch repair [Chen08].
ybcN mutants are weak suppressors of the growth defect of a ΔyciM mutant [Mahalakshmi14].
|Map Position: [571,689 -> 572,144] (12.32 centisomes, 44°)||Length: 456 bp / 151 aa|
Molecular Weight of Polypeptide: 17.433 kD (from nucleotide sequence)
Unification Links: ASAP:ABE-0001874 , EchoBASE:EB3395 , EcoGene:EG13630 , EcoliWiki:b0547 , OU-Microarray:b0547 , PortEco:ybcN , Protein Model Portal:Q47269 , RefSeq:NP_415079 , RegulonDB:G6303 , String:511145.b0547 , UniProt:Q47269
Relationship Links: InterPro:IN-FAMILY:IPR008711
|Biological Process:||GO:0006298 - mismatch repair [Chen08]|
|Molecular Function:||GO:0000405 - bubble DNA binding
GO:0003697 - single-stranded DNA binding [Curtis14]
GO:0005515 - protein binding [Curtis14]
|Cellular Component:||GO:0019038 - provirus|
|MultiFun Terms:||extrachromosomal → prophage genes and phage related functions|
|information transfer → DNA related → DNA repair|
|Growth Medium||Growth?||T (°C)||O2||pH||Osm/L||Growth Observations|
|LB Lennox||Yes||37||Aerobic||7||Yes [Baba06, Comment 1]|
|M9 medium with 1% glycerol||Yes||37||Aerobic||7.2||0.35||Yes [Joyce06, Comment 2]|
|MOPS medium with 0.4% glucose||Yes||37||Aerobic||7.2||0.22||Yes [Baba06, Comment 1]|
Markus Krummenacker on Tue Oct 14, 1997:
Gene object created from Blattner lab Genbank (v. M52) entry.
Baba06: Baba T, Ara T, Hasegawa M, Takai Y, Okumura Y, Baba M, Datsenko KA, Tomita M, Wanner BL, Mori H (2006). "Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection." Mol Syst Biol 2;2006.0008. PMID: 16738554
Chen08: Chen CS, Korobkova E, Chen H, Zhu J, Jian X, Tao SC, He C, Zhu H (2008). "A proteome chip approach reveals new DNA damage recognition activities in Escherichia coli." Nat Methods 5(1);69-74. PMID: 18084297
Curtis14: Curtis FA, Malay AD, Trotter AJ, Wilson LA, Barradell-Black MM, Bowers LY, Reed P, Hillyar CR, Yeo RP, Sanderson JM, Heddle JG, Sharples GJ (2014). "Phage ORF family recombinases: conservation of activities and involvement of the central channel in DNA binding." PLoS One 9(8);e102454. PMID: 25083707
Joyce06: Joyce AR, Reed JL, White A, Edwards R, Osterman A, Baba T, Mori H, Lesely SA, Palsson BO, Agarwalla S (2006). "Experimental and computational assessment of conditionally essential genes in Escherichia coli." J Bacteriol 188(23);8259-71. PMID: 17012394
Mahalakshmi14: Mahalakshmi S, Sunayana MR, SaiSree L, Reddy M (2014). "yciM is an essential gene required for regulation of lipopolysaccharide synthesis in Escherichia coli." Mol Microbiol 91(1);145-57. PMID: 24266962
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