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Escherichia coli K-12 substr. MG1655 Polypeptide: DinF MATE Transporter



Gene: dinF Accession Numbers: EG11491 (EcoCyc), b4044, ECK4036

Synonyms: DNA-damage-inducible protein F

Regulation Summary Diagram: ?

Summary:
The DinF protein is an uncharacterised member of the MATE family of multidrug efflux transporters [Brown99]. Expression of the dinF gene is DNA damage (UV or mitomycin C) inducible [Kenyon80]. The dinF gene is located downstream of the lexA gene, which encodes the global repressor of the SOS regulon. Based on sequence similarity, DinF may function as a proton-driven efflux system, possibly for nucleotides given its potential role in response to DNA damage.

Gene Citations: [Krueger83]

Locations: inner membrane

Map Position: [4,255,765 -> 4,257,144] (91.73 centisomes)
Length: 1380 bp / 459 aa

Molecular Weight of Polypeptide: 49.646 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0013243 , CGSC:854 , EchoBASE:EB1454 , EcoGene:EG11491 , EcoliWiki:b4044 , OU-Microarray:b4044 , PortEco:dinF , PR:PRO_000022448 , Protein Model Portal:P28303 , RefSeq:NP_418468 , RegulonDB:EG11491 , SMR:P28303 , String:511145.b4044 , UniProt:P28303

Relationship Links: InterPro:IN-FAMILY:IPR002528 , Pfam:IN-FAMILY:PF01554

In Paralogous Gene Group: 568 (2 members)

Genetic Regulation Schematic: ?

GO Terms:

Biological Process: GO:0006855 - drug transmembrane transport Inferred by computational analysis [GOA01]
Molecular Function: GO:0015238 - drug transmembrane transporter activity Inferred by computational analysis [GOA01]
GO:0015297 - antiporter activity Inferred by computational analysis [GOA01]
Cellular Component: GO:0005886 - plasma membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11a, UniProtGOA11, DiazMejia09, Daley05]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0016021 - integral component of membrane Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: cell processes protection radiation
cell processes SOS response
cell structure membrane
information transfer DNA related DNA repair
transport Electrochemical potential driven transporters Porters (Uni-, Sym- and Antiporters)

Essentiality data for dinF 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]

Sequence Features

Feature Class Location Citations Comment
Transmembrane-Region 2 -> 22
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 29 -> 49
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 63 -> 83
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 111 -> 131
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 154 -> 174
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 180 -> 200
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 207 -> 227
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 265 -> 285
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 289 -> 309
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 338 -> 358
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 373 -> 393
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 416 -> 436
[UniProt10a]
UniProt: Helical;; Non-Experimental Qualifier: potential;


Gene Local Context (not to scale): ?

Transcription Unit:

Notes:

History:
10/20/97 Gene b4044 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG11491; 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

Brown99: Brown MH, Paulsen IT, Skurray RA (1999). "The multidrug efflux protein NorM is a prototype of a new family of transporters." Mol Microbiol 1999;31(1);394-5. PMID: 9987140

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

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

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

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

Kenyon80: Kenyon CJ, Walker GC (1980). "DNA-damaging agents stimulate gene expression at specific loci in Escherichia coli." Proc Natl Acad Sci U S A 1980;77(5);2819-23. PMID: 6771759

Krueger83: Krueger JH, Elledge SJ, Walker GC (1983). "Isolation and characterization of Tn5 insertion mutations in the lexA gene of Escherichia coli." J Bacteriol 1983;153(3);1368-78. PMID: 6298183

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 manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries."

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

Other References Related to Gene Regulation

Brent81: Brent R, Ptashne M (1981). "Mechanism of action of the lexA gene product." Proc Natl Acad Sci U S A 1981;78(7);4204-8. PMID: 7027256

Lewis94: Lewis LK, Harlow GR, Gregg-Jolly LA, Mount DW (1994). "Identification of high affinity binding sites for LexA which define new DNA damage-inducible genes in Escherichia coli." J Mol Biol 241(4);507-23. PMID: 8057377

Little81: Little JW, Mount DW, Yanisch-Perron CR (1981). "Purified lexA protein is a repressor of the recA and lexA genes." Proc Natl Acad Sci U S A 1981;78(7);4199-203. PMID: 7027255

Miki81: Miki T, Ebina Y, Kishi F, Nakazawa A (1981). "Organization of the lexA gene of Escherichia coli and nucleotide sequence of the regulatory region." Nucleic Acids Res 1981;9(3);529-43. PMID: 6261224


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, biocyc11.