Escherichia coli K-12 substr. MG1655 Polypeptide: FAD assembly factor

Gene: sdhE Accession Numbers: G7510 (EcoCyc), b2897, ECK2892

Synonyms: ygfY, cptB, antitoxin of the CptA-CptB toxin-antitoxin system

Regulation Summary Diagram: ?

Regulation summary diagram for sdhE

SdhE is involved in utilization of succinate as a carbon and energy source [McNeil12]. In Serratia sp. strain ATCC 39006, it acts as an FAD assembly factor for SdhA [McNeil13].

CptA is thought to be a membrane-associated toxin that interacts with MreB and FtsZ, inhibiting their polymerization in vitro. SdhE (CptB) may act as the cognate antitoxin; the mechanism of its antitoxin activity is so far unknown [Masuda12].

Crystal structures of SdhE have been solved at 1.2 and 2 Å resolution. The crystals show dimeric packing, but the protein exists primarily as a monomer in solution [Lim05].

Overexpression of CptA causes growth arrest; simultaneous overexpression of SdhE neutralizes the effect of CptA overexpression [Masuda12].

An sdhE deletion mutant is defective in the utilization of succinate as the sole source of carbon and energy due to severely reduced succinate dehydrogenase activity [McNeil12].

CptA-SdhE was first identified as a potential toxin-antitoxin pair by [Brown03].

CptB: "cytoskeleton polymerization inhibiting toxin" [Masuda12]

SdhE: "succinate dehydrogenase protein E" [McNeil12]

Review: [McNeil13a]

Locations: cytosol

Map Position: [3,038,826 <- 3,039,092] (65.5 centisomes, 236°)
Length: 267 bp / 88 aa

Molecular Weight of Polypeptide: 10.547 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0009507 , EchoBASE:EB2885 , EcoGene:EG13075 , EcoliWiki:b2897 , OU-Microarray:b2897 , PortEco:ygfY , Protein Model Portal:P64559 , RefSeq:NP_417373 , RegulonDB:G7510 , SMR:P64559 , String:511145.b2897 , UniProt:P64559

Relationship Links: InterPro:IN-FAMILY:IPR005631 , PDB:Structure:1X6I , PDB:Structure:1X6J , Pfam:IN-FAMILY:PF03937

GO Terms:

Biological Process: GO:0006105 - succinate metabolic process Inferred from experiment [McNeil12]
GO:0044092 - negative regulation of molecular function Inferred from experiment [Masuda12]
GO:0017013 - protein flavinylation Inferred by computational analysis [McNeil13]
Cellular Component: GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]

MultiFun Terms: cell processes

Essentiality data for sdhE knockouts: ?

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]

Last-Curated ? 10-Oct-2013 by Keseler I , SRI International

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Unit:

Transcription-unit diagram


Peter D. Karp on Thu Jan 16, 2003:
Predicted gene function revised as a result of E. coli genome reannotation by Serres et al. [Serres01 ].
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

Brown03: Brown JM, Shaw KJ (2003). "A novel family of Escherichia coli toxin-antitoxin gene pairs." J Bacteriol 185(22);6600-8. PMID: 14594833

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

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

Lim05: Lim K, Doseeva V, Demirkan ES, Pullalarevu S, Krajewski W, Galkin A, Howard A, Herzberg O (2005). "Crystal structure of the YgfY from Escherichia coli, a protein that may be involved in transcriptional regulation." Proteins 58(3);759-63. PMID: 15593094

Masuda12: Masuda H, Tan Q, Awano N, Yamaguchi Y, Inouye M (2012). "A novel membrane-bound toxin for cell division, CptA (YgfX), inhibits polymerization of cytoskeleton proteins, FtsZ and MreB, in Escherichia coli." FEMS Microbiol Lett 328(2);174-81. PMID: 22239607

McNeil12: McNeil MB, Clulow JS, Wilf NM, Salmond GP, Fineran PC (2012). "SdhE is a conserved protein required for flavinylation of succinate dehydrogenase in bacteria." J Biol Chem 287(22);18418-28. PMID: 22474332

McNeil13: McNeil MB, Fineran PC (2013). "The conserved RGxxE motif of the bacterial FAD assembly factor SdhE is required for succinate dehydrogenase flavinylation and activity." Biochemistry 52(43);7628-40. PMID: 24070374

McNeil13a: McNeil MB, Fineran PC (2013). "Prokaryotic assembly factors for the attachment of flavin to complex II." Biochim Biophys Acta 1827(5);637-47. PMID: 22985599

Serres01: Serres MH, Gopal S, Nahum LA, Liang P, Gaasterland T, Riley M (2001). "A functional update of the Escherichia coli K-12 genome." Genome Biol 2(9);RESEARCH0035. PMID: 11574054

Other References Related to Gene Regulation

MendozaVargas09: Mendoza-Vargas A, Olvera L, Olvera M, Grande R, Vega-Alvarado L, Taboada B, Jimenez-Jacinto V, Salgado H, Juarez K, Contreras-Moreira B, Huerta AM, Collado-Vides J, Morett E (2009). "Genome-wide identification of transcription start sites, promoters and transcription factor binding sites in E. coli." PLoS One 4(10);e7526. PMID: 19838305

Report Errors or Provide Feedback
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 Wed Jul 29, 2015, biocyc12.