Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
Metabolic Modeling Tutorial
discounted EARLY registration ends Dec 31, 2014
BioCyc websites down
12/28 - 12/31
for maintenance.
twitter

Escherichia coli K-12 substr. MG1655 Polypeptide: 2,3-diketo-L-gulonate:Na+ symporter - membrane subunit



Gene: yiaN Accession Numbers: EG12282 (EcoCyc), b3578, ECK3567

Regulation Summary Diagram: ?

Component of: 2,3-diketo-L-gulonate:Na+ symporter (extended summary available)

Summary:
Based on sequence similarity, YiaN is a membrane-spanning component of the YiaMNO Binding protein-dependent Secondary (TRAP) Transporter [Kelly01a].

Gene Citations: [Ibanez00, Yew02, Ibanez00a]

Locations: inner membrane

Map Position: [3,742,827 -> 3,744,104] (80.67 centisomes)
Length: 1278 bp / 425 aa

Molecular Weight of Polypeptide: 45.368 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0011692 , EchoBASE:EB2190 , EcoGene:EG12282 , EcoliWiki:b3578 , OU-Microarray:b3578 , PortEco:yiaN , Protein Model Portal:P37675 , RefSeq:YP_026232 , RegulonDB:EG12282 , SMR:P37675 , String:511145.b3578 , UniProt:P37675

Relationship Links: InterPro:IN-FAMILY:IPR004681 , InterPro:IN-FAMILY:IPR010656 , Pfam:IN-FAMILY:PF06808

Gene-Reaction Schematic: ?

Genetic Regulation Schematic: ?

GO Terms:

Biological Process: GO:0034219 - carbohydrate transmembrane transport Inferred from experiment [Thomas06]
GO:0006810 - transport Inferred by computational analysis [UniProtGOA11a]
Molecular Function: GO:0022891 - substrate-specific transmembrane transporter activity Inferred from experiment [Thomas06]
Cellular Component: GO:0005886 - plasma membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11, UniProtGOA11a, DiazMejia09, Daley05, Plantinga04]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11a]
GO:0016021 - integral component of membrane Inferred by computational analysis [UniProtGOA11a, GOA01]

MultiFun Terms: cell structure membrane
transport Electrochemical potential driven transporters Porters (Uni-, Sym- and Antiporters)

Essentiality data for yiaN 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]
Yes [Feist07, Comment 3]

Subunit of: 2,3-diketo-L-gulonate:Na+ symporter

Synonyms: YiaMNO binding protein-dependent secondary (TRAP) transporter

Subunit composition of 2,3-diketo-L-gulonate:Na+ symporter = [YiaO][YiaN][YiaM]
         2,3-diketo-L-gulonate:Na+ symporter - periplasmic binding protein = YiaO (summary available)
         2,3-diketo-L-gulonate:Na+ symporter - membrane subunit = YiaN (summary available)
         2,3-diketo-L-gulonate:Na+ symporter - membrane subunit = YiaM (summary available)

Summary:
Based on sequence similarity, the yiaMNO genes encode the only tri-partite ATP-independent periplasmic (TRAP) transporter in Escherichia coli. The TRAP transporters share characteristics of both the ATP-binding cassette (ABC) and secondary families of transporters [Kelly01a]. Like the ABC transporters TRAP transporters use an extracytoplasmic solute-binding protein, but, rather than ATP hydrolysis, the driving force is provided by either proton-(pmf) and/or sodium ion motive force (smf) [Kelly01a]. Based on sequence similarity, YiaO is the periplasmic solute-binding protein and YiaM and YiaN are the large and small membrane-spanning proteins, respectively [Plantinga04].

The YiaMNO TRAP transporter is responsible for the uptake of 2,3-diketo-L-gulonate which is known to form spontaneously in aqueous solutions from oxidation of ascorbic acid and dehydroascorbic acid [Deutsch98, Deutsch97, Deutsch98a, Deutsch97a]. Binding experiments with purified YiaO revealed that YiaO binds 2,3-diketo-L-gulonate with high affinity but does not bind L- or D-xylulose [Thomas06]. These newer experiments refute the results of prior experiments which suggested L-xylulose might be the natural substrate of the transporter [Plantinga04].

Deletion of yiaMNO resulted in a delay of entry into stationary phase of cells grown in LB with glucose, or minimal medium with glucose or other compounds. These cultures obtained a higher stationary phase OD660 and higher c.f.u. numbers. Deletion of yiaMNO also resulted in an increased lag time in cultures with high NaCl concentrations, and a reduction in biofilm formation in minimal medium with glucose [Plantinga05].

Expression of the yiaKLMNO-lyxK-sgbHUE operon increased moderately in response to L-ascorbate [Ibanez00].


Enzymatic reaction of: 2,3-diketo-L-gulonate:Na+ symporter

Synonyms: transport of 2,3-diketo-L-gulonate


Sequence Features

Feature Class Location Citations Comment
Transmembrane-Region 3 -> 23
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 54 -> 74
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 93 -> 113
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 139 -> 159
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 170 -> 190
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 209 -> 229
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 235 -> 255
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 277 -> 297
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 314 -> 334
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 355 -> 375
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 399 -> 419
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;


Gene Local Context (not to scale): ?

Transcription Units:

Notes:

History:
10/20/97 Gene b3578 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG12282; confirmed by SwissProt match.


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

Daley05: Daley DO, Rapp M, Granseth E, Melen K, Drew D, von Heijne G (2005). "Global topology analysis of the Escherichia coli inner membrane proteome." Science 308(5726);1321-3. PMID: 15919996

Deutsch97: Deutsch JC (1997). "Ascorbic acid and dehydroascorbic acid interconversion without net oxidation or reduction." Anal Biochem 247(1);58-62. PMID: 9126371

Deutsch97a: Deutsch JC (1997). "Gas chromatographic/mass spectrometric measurement of ascorbic acid and analysis of ascorbic acid degradation in solution." Methods Enzymol 279;13-24. PMID: 9211252

Deutsch98: Deutsch JC (1998). "Ascorbic acid oxidation by hydrogen peroxide." Anal Biochem 255(1);1-7. PMID: 9448835

Deutsch98a: Deutsch JC (1998). "Spontaneous hydrolysis and dehydration of dehydroascorbic acid in aqueous solution." Anal Biochem 260(2);223-9. PMID: 9657882

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

Feist07: Feist AM, Henry CS, Reed JL, Krummenacker M, Joyce AR, Karp PD, Broadbelt LJ, Hatzimanikatis V, Palsson BO (2007). "A genome-scale metabolic reconstruction for Escherichia coli K-12 MG1655 that accounts for 1260 ORFs and thermodynamic information." Mol Syst Biol 3;121. PMID: 17593909

GOA01: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

Ibanez00: Ibanez E, Campos E, Baldoma L, Aguilar J, Badia J (2000). "Regulation of expression of the yiaKLMNOPQRS operon for carbohydrate utilization in Escherichia coli: involvement of the main transcriptional factors." J Bacteriol 182(16);4617-24. PMID: 10913096

Ibanez00a: Ibanez E, Gimenez R, Pedraza T, Baldoma L, Aguilar J, Badia J (2000). "Role of the yiaR and yiaS genes of Escherichia coli in metabolism of endogenously formed L-xylulose." J Bacteriol 2000;182(16);4625-7. PMID: 10913097

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

Kelly01a: Kelly DJ, Thomas GH (2001). "The tripartite ATP-independent periplasmic (TRAP) transporters of bacteria and archaea." FEMS Microbiol Rev 25(4);405-24. PMID: 11524131

Plantinga04: Plantinga TH, Van Der Does C, Badia J, Aguilar J, Konings WN, Driessen AJ (2004). "Functional characterization of the Escherichia coli K-12 yiaMNO transport protein genes." Mol Membr Biol 21(1);51-7. PMID: 14668138

Plantinga05: Plantinga TH, van der Does C, Tomkiewicz D, van Keulen G, Konings WN, Driessen AJ (2005). "Deletion of the yiaMNO transporter genes affects the growth characteristics of Escherichia coli K-12." Microbiology 151(Pt 5);1683-9. PMID: 15870475

Thomas06: Thomas GH, Southworth T, Leon-Kempis MR, Leech A, Kelly DJ (2006). "Novel ligands for the extracellular solute receptors of two bacterial TRAP transporters." Microbiology 152(Pt 1);187-98. PMID: 16385129

UniProt10a: UniProt Consortium (2010). "UniProt version 2010-07 released on 2010-06-15 00:00:00." Database.

UniProtGOA11: UniProt-GOA (2011). "Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries."

UniProtGOA11a: UniProt-GOA (2011). "Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."

Yew02: Yew WS, Gerlt JA (2002). "Utilization of L-ascorbate by Escherichia coli K-12: assignments of functions to products of the yjf-sga and yia-sgb operons." J Bacteriol 2002;184(1);302-6. PMID: 11741871

Other References Related to Gene Regulation

Campos08: Campos E, de la Riva L, Garces F, Gimenez R, Aguilar J, Baldoma L, Badia J (2008). "The yiaKLX1X2PQRS and ulaABCDEFG gene systems are required for the aerobic utilization of L-ascorbate in Klebsiella pneumoniae strain 13882 with L-ascorbate-6-phosphate as the inducer." J Bacteriol 190(20);6615-24. PMID: 18708499

Rhodius05: Rhodius VA, Suh WC, Nonaka G, West J, Gross CA (2005). "Conserved and variable functions of the sigmaE stress response in related genomes." PLoS Biol 4(1);e2. PMID: 16336047


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 Mon Dec 22, 2014, BIOCYC14B.