Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
twitter

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: ?

Summary:
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)
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]

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


Gene Local Context (not to scale): ?

Transcription Unit:

Notes:

History:
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.


References

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 18.5 on Wed Nov 26, 2014, biocyc13.