Escherichia coli K-12 substr. MG1655 Polypeptide: modulator of Rho-dependent transcription termination

Gene: rof Accession Numbers: G6097 (EcoCyc), b0189, ECK0188

Synonyms: yaeO

Regulation Summary Diagram: ?

Regulation summary diagram for rof

Rof interacts with the Rho terminator protein and inhibits binding of RNA to Rho, thus showing antiterminator activity [Pichoff98, Gutierrez07].

The Rho transcription termination factor co-purifies with Rof, suggesting direct interaction between the proteins. Expression of Rof reduces termination at the Rho-dependent terminator tL1 and rho itself in vivo [Pichoff98].

A solution structure of Rof has been determined. A docked model of the Rof-Rho complex based on NMR titrations suggests that Rof acts as a competitive inhibitor of Rho RNA binding, which was confirmed in vitro [Gutierrez07].

rof is a multicopy suppressor of temperature-sensitive alleles of genes such as ftsA, ftsQ, groEL, grpE, a malE-minE fusion allele [Pichoff98], and an rpoB allele [Kawamura05]. Suppression appears to be due to antitermination [Pichoff98].

Expression of yaeP-rof is growth rate-regulated [Pichoff98].

Locations: cytosol

Map Position: [213,678 <- 213,932] (4.61 centisomes, 17°)
Length: 255 bp / 84 aa

Molecular Weight of Polypeptide: 9.48 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0000641 , EchoBASE:EB3012 , EcoGene:EG13221 , EcoliWiki:b0189 , Mint:MINT-8200743 , OU-Microarray:b0189 , PortEco:rof , PR:PRO_000023804 , Pride:P0AFW8 , Protein Model Portal:P0AFW8 , RefSeq:NP_414731 , RegulonDB:G6097 , SMR:P0AFW8 , String:511145.b0189 , Swiss-Model:P0AFW8 , UniProt:P0AFW8

Relationship Links: InterPro:IN-FAMILY:IPR009778 , InterPro:IN-FAMILY:IPR023534 , PDB:Structure:1SG5 , Pfam:IN-FAMILY:PF07073

Genetic Regulation Schematic: ?

Genetic regulation schematic for rof

GO Terms:

Biological Process: GO:0031554 - regulation of DNA-templated transcription, termination Inferred from experiment [Gutierrez07]
Molecular Function: GO:0005515 - protein binding Inferred from experiment [Rabhi11, Arifuzzaman06]
Cellular Component: GO:0005737 - cytoplasm
GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]

MultiFun Terms: information transfer RNA related Transcription related
regulation type of regulation transcriptional level

Essentiality data for rof knockouts: ?

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB enriched Yes 37 Aerobic 6.95   Yes [Gerdes03, Comment 1]
LB Lennox Yes 37 Aerobic 7   Yes [Baba06, Comment 2]
M9 medium with 1% glycerol Yes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 3]
MOPS medium with 0.4% glucose Yes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 2]

Last-Curated ? 14-Dec-2007 by Keseler I , SRI International

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Units:

Transcription-unit diagram

Transcription-unit diagram


Peter D. Karp on Wed Jan 18, 2006:
Gene right-end position adjusted based on analysis performed in the 2005 E. coli annotation update [Riley06a ].
Markus Krummenacker on Tue Oct 14, 1997:
Gene object created from Blattner lab Genbank (v. M52) entry.


Arifuzzaman06: Arifuzzaman M, Maeda M, Itoh A, Nishikata K, Takita C, Saito R, Ara T, Nakahigashi K, Huang HC, Hirai A, Tsuzuki K, Nakamura S, Altaf-Ul-Amin M, Oshima T, Baba T, Yamamoto N, Kawamura T, Ioka-Nakamichi T, Kitagawa M, Tomita M, Kanaya S, Wada C, Mori H (2006). "Large-scale identification of protein-protein interaction of Escherichia coli K-12." Genome Res 16(5);686-91. PMID: 16606699

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

DiazMejia09: Diaz-Mejia JJ, Babu M, Emili A (2009). "Computational and experimental approaches to chart the Escherichia coli cell-envelope-associated proteome and interactome." FEMS Microbiol Rev 33(1);66-97. PMID: 19054114

Gerdes03: Gerdes SY, Scholle MD, Campbell JW, Balazsi G, Ravasz E, Daugherty MD, Somera AL, Kyrpides NC, Anderson I, Gelfand MS, Bhattacharya A, Kapatral V, D'Souza M, Baev MV, Grechkin Y, Mseeh F, Fonstein MY, Overbeek R, Barabasi AL, Oltvai ZN, Osterman AL (2003). "Experimental determination and system level analysis of essential genes in Escherichia coli MG1655." J Bacteriol 185(19);5673-84. PMID: 13129938

Gutierrez07: Gutierrez P, Kozlov G, Gabrielli L, Elias D, Osborne MJ, Gallouzi IE, Gehring K (2007). "Solution structure of YaeO, a Rho-specific inhibitor of transcription termination." J Biol Chem 282(32);23348-53. PMID: 17565995

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

Kawamura05: Kawamura N, Kurokawa K, Ito T, Hamamoto H, Koyama H, Kaito C, Sekimizu K (2005). "Participation of Rho-dependent transcription termination in oxidative stress sensitivity caused by an rpoB mutation." Genes Cells 10(5);477-87. PMID: 15836776

Pichoff98: Pichoff S, Alibaud L, Guedant A, Castanie MP, Bouche JP (1998). "An Escherichia coli gene (yaeO) suppresses temperature-sensitive mutations in essential genes by modulating Rho-dependent transcription termination." Mol Microbiol 29(3);859-69. PMID: 9723924

Rabhi11: Rabhi M, Espeli O, Schwartz A, Cayrol B, Rahmouni AR, Arluison V, Boudvillain M (2011). "The Sm-like RNA chaperone Hfq mediates transcription antitermination at Rho-dependent terminators." EMBO J 30(14);2805-16. PMID: 21673658

Riley06a: Riley M, Abe T, Arnaud MB, Berlyn MK, Blattner FR, Chaudhuri RR, Glasner JD, Horiuchi T, Keseler IM, Kosuge T, Mori H, Perna NT, Plunkett G, Rudd KE, Serres MH, Thomas GH, Thomson NR, Wishart D, Wanner BL (2006). "Escherichia coli K-12: a cooperatively developed annotation snapshot--2005." Nucleic Acids Res 34(1);1-9. PMID: 16397293

Other References Related to Gene Regulation

Raghavan11a: Raghavan R, Sage A, Ochman H (2011). "Genome-wide identification of transcription start sites yields a novel thermosensing RNA and new cyclic AMP receptor protein-regulated genes in Escherichia coli." J Bacteriol 193(11);2871-4. PMID: 21460078

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Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
Page generated by SRI International Pathway Tools version 19.0 on Mon Oct 5, 2015, biocyc14.