Escherichia coli K-12 substr. MG1655 Polypeptide: integral membrane protein of SoxR-reducing complex

Gene: rsxA Accession Numbers: G6871 (EcoCyc), b1627, ECK1623

Synonyms: ydgL

Regulation Summary Diagram: ?

Regulation summary diagram for rsxA

The rsxABCDGE gene cluster and the rseC gene together encode a SoxR reducing system that acts to turn off SoxR-mediated induction of the SoxS transcription factor in the absence of oxidizing agents [Koo03]. Deletion of any gene within the rsxABCDGE gene cluster causes constitutive activation of soxS transcription [Koo03].

The proteins encoded by the rsxABCDGE gene cluster are predicted to form a membrane-associated complex [Koo03]. RsxA and RsxE are predicted to span the membrane greater than six times [Koo03]. Sequence analysis indicates that RsxA and RsxE are homologous, oppositely oriented proteins which form an antiparallel heterodimer or higher oligomer within the inner membrane [Rapp06].

The rsxABCDGE gene cluster has similarity to the Rhodobacter capsulatus rnfABCDGE gene cluster, which plays a role in nitrogenase reduction [Koo03].

rsxA insertion mutants were identified in a genetic screen for genes that are important for survival of exposure to ionizing radiation (IR). An rsxA deletion mutant has a moderate decrease in IR survival [Byrne14].

Rsx: "reducer of SoxR" [Koo03]

Gene Citations: [Gifford00]

Locations: inner membrane

Map Position: [1,703,791 -> 1,704,372] (36.72 centisomes, 132°)
Length: 582 bp / 193 aa

Molecular Weight of Polypeptide: 20.897 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0005450 , EchoBASE:EB3692 , EcoGene:EG13933 , EcoliWiki:b1627 , OU-Microarray:b1627 , PortEco:rsxA , PR:PRO_000023790 , Protein Model Portal:P0A766 , RefSeq:NP_416144 , RegulonDB:G6871 , String:511145.b1627 , UniProt:P0A766

Relationship Links: InterPro:IN-FAMILY:IPR003667 , InterPro:IN-FAMILY:IPR011293 , Pfam:IN-FAMILY:PF02508

In Paralogous Gene Group: 319 (2 members)

GO Terms:

Biological Process: GO:0022900 - electron transport chain Inferred by computational analysis [GOA01a]
GO:0055114 - oxidation-reduction process Inferred by computational analysis [UniProtGOA11a, GOA06]
Cellular Component: GO:0005886 - plasma membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11, UniProtGOA11a, GOA06, DiazMejia09, Daley05]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11a, GOA01a]
GO:0016021 - integral component of membrane Inferred by computational analysis [UniProtGOA11a]

MultiFun Terms: cell processes adaptations other (mechanical, nutritional, oxidative stress)
cell structure membrane
regulation type of regulation posttranscriptional

Essentiality data for rsxA 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

Protein sequence of integral membrane protein of SoxR-reducing complex with features indicated

Feature Class Location Citations Comment
Transmembrane-Region 5 -> 25
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 39 -> 59
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 63 -> 83
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 102 -> 122
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 134 -> 154
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 171 -> 191
UniProt: Helical;; Non-Experimental Qualifier: potential;

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Units:

Transcription-unit diagram

Transcription-unit diagram


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

Byrne14: Byrne RT, Chen SH, Wood EA, Cabot EL, Cox MM (2014). "Escherichia coli genes and pathways involved in surviving extreme exposure to ionizing radiation." J Bacteriol 196(20);3534-45. PMID: 25049088

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

Gifford00: Gifford CM, Wallace SS (2000). "The genes encoding endonuclease VIII and endonuclease III in Escherichia coli are transcribed as the terminal genes in operons." Nucleic Acids Res 28(3);762-9. PMID: 10637328

GOA01a: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

GOA06: GOA, SIB (2006). "Electronic Gene Ontology annotations created by transferring manual GO annotations between orthologous microbial proteins."

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

Koo03: Koo MS, Lee JH, Rah SY, Yeo WS, Lee JW, Lee KL, Koh YS, Kang SO, Roe JH (2003). "A reducing system of the superoxide sensor SoxR in Escherichia coli." EMBO J 22(11);2614-22. PMID: 12773378

Rapp06: Rapp M, Granseth E, Seppala S, von Heijne G (2006). "Identification and evolution of dual-topology membrane proteins." Nat Struct Mol Biol 13(2);112-6. PMID: 16429150

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."

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Please cite the following article in publications resulting from the use of EcoCyc: Nucleic Acids Research 41:D605-12 2013
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