Escherichia coli K-12 substr. MG1655 Polypeptide: conserved protein

Gene: rtn Accession Numbers: G7148 (EcoCyc), b2176, ECK2170

Regulation Summary Diagram: ?

Regulation summary diagram for rtn

Rtn has a C-terminal EAL domain with a conserved consensus active site [Sommerfeldt09]. Rtn has two predicted transmembrane domains; based on a high-throughput study, the carboxy-terminus of Rtn is located in the cytoplasm [Daley05].

rtn was originally misidentified as a gene of another organism, Proteus vulgaris [Hall97].

rtn is expressed during exponential growth in rich media at both 37 and 28°C [Sommerfeldt09].

Locations: inner membrane

Map Position: [2,268,748 -> 2,270,304] (48.9 centisomes, 176°)
Length: 1557 bp / 518 aa

Molecular Weight of Polypeptide: 58.588 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0007203 , DIP:DIP-10813N , EchoBASE:EB3830 , EcoGene:EG14077 , EcoliWiki:b2176 , OU-Microarray:b2176 , PortEco:rtn , PR:PRO_000023894 , Pride:P76446 , Protein Model Portal:P76446 , RefSeq:NP_416681 , RegulonDB:G7148 , SMR:P76446 , String:511145.b2176 , UniProt:P76446

Relationship Links: InterPro:IN-FAMILY:IPR001633 , InterPro:IN-FAMILY:IPR024744 , Pfam:IN-FAMILY:PF00563 , Pfam:IN-FAMILY:PF12792 , Prosite:IN-FAMILY:PS50883 , Smart:IN-FAMILY:SM00052

In Paralogous Gene Group: 97 (15 members)

GO Terms:

Cellular Component: GO:0005886 - plasma membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11, UniProtGOA11a, DiazMejia09, Daley05]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11a]
GO:0016021 - integral component of membrane Inferred by computational analysis [UniProtGOA11a]

Gene Class: ORFs Conserved-ORFs

Essentiality data for rtn 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]

Curated 15-Feb-2006 by Shearer A , SRI International
Last-Curated ? 12-Oct-2012 by Keseler I , SRI International

Sequence Features

Protein sequence of conserved protein with features indicated

Feature Class Location Citations Comment
Transmembrane-Region 16 -> 36
UniProt: Helical;; Non-Experimental Qualifier: potential;
Transmembrane-Region 236 -> 256
UniProt: Helical;; Non-Experimental Qualifier: potential;
Conserved-Region 261 -> 514
UniProt: EAL;
Sequence-Conflict 482 -> 518
[Kim94a, UniProt15]
UniProt: (in Ref. 4; no nucleotide entry).

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Unit:

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

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

Hall97: Hall BG (1997). "The rtn gene of Proteus vulgaris is actually from Escherichia coli." J Bacteriol 179(7);2433-4. PMID: 9079933

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

Kim94a: Kim C.S., Lee D.W., Chae K.-S., Hwang U.W. (1994). "Structural analysis of an rtn gene isolated from Proteus vulgaris." Mol. Cells, Volume 4, page(s) 387-391.

Sommerfeldt09: Sommerfeldt N, Possling A, Becker G, Pesavento C, Tschowri N, Hengge R (2009). "Gene expression patterns and differential input into curli fimbriae regulation of all GGDEF/EAL domain proteins in Escherichia coli." Microbiology 155(Pt 4);1318-31. PMID: 19332833

UniProt09: UniProt Consortium (2009). "UniProt version 15.8 released on 2009-10-01 00:00:00." Database.

UniProt10: UniProt Consortium (2010). "UniProt version 2010-07 released on 2010-06-15 00:00:00." Database.

UniProt15: UniProt Consortium (2015). "UniProt version 2015-01 released on 2015-01-16 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."

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 Oct 7, 2015, biocyc12.