Escherichia coli K-12 substr. MG1655 Transporter: outer membrane pore protein N, non-specific

Gene: ompN Accession Numbers: G6700 (EcoCyc), b1377, ECK1372

Synonyms: ynaG

Regulation Summary Diagram: ?

Regulation summary diagram for ompN

Though under typical laboratory growth conditions OmpN is not highly expressed, when overexpressed it operates as a porin with single-channel conductance properties similar to those of OmpC [Prilipov98].

OmpN abundance is regulated by MicC small regulatory RNA.

Gene Citations: [Fabrega12]

Locations: outer membrane

Map Position: [1,433,784 <- 1,434,917] (30.9 centisomes, 111°)
Length: 1134 bp / 377 aa

Molecular Weight of Polypeptide: 41.22 kD (from nucleotide sequence), 39 kD (experimental) [Prilipov98 ]

Unification Links: ASAP:ABE-0004608 , DIP:DIP-10400N , EchoBASE:EB3157 , EcoGene:EG13375 , EcoliWiki:b1377 , ModBase:P77747 , OU-Microarray:b1377 , PortEco:ompN , PR:PRO_000023455 , Pride:P77747 , Protein Model Portal:P77747 , RefSeq:NP_415895 , RegulonDB:G6700 , SMR:P77747 , String:511145.b1377 , UniProt:P77747

Relationship Links: InterPro:IN-FAMILY:IPR001702 , InterPro:IN-FAMILY:IPR001897 , InterPro:IN-FAMILY:IPR023614 , Pfam:IN-FAMILY:PF00267 , Prints:IN-FAMILY:PR00182 , Prints:IN-FAMILY:PR00183

Gene-Reaction Schematic: ?

Gene-Reaction Schematic

Genetic Regulation Schematic: ?

Genetic regulation schematic for ompN

GO Terms:

Biological Process: GO:0034219 - carbohydrate transmembrane transport Inferred from experiment [Prilipov98]
GO:0006810 - transport Inferred by computational analysis [UniProtGOA11, GOA01]
GO:0006811 - ion transport Inferred by computational analysis [UniProtGOA11]
Molecular Function: GO:0015288 - porin activity Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA01, Prilipov98]
Cellular Component: GO:0016020 - membrane Inferred from experiment Inferred by computational analysis [UniProtGOA11, GOA01, Prilipov98]
GO:0009279 - cell outer membrane Inferred by computational analysis [UniProtGOA11a, UniProtGOA11, DiazMejia09]
GO:0016021 - integral component of membrane Inferred by computational analysis [UniProtGOA11]
GO:0046930 - pore complex Inferred by computational analysis [UniProtGOA11]

MultiFun Terms: transport Channel-type Transporters Beta barrel porins (The Outer Membrane Porin (OMP) Functional Superfamily)

Essentiality data for ompN 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]
Yes [Feist07, Comment 4]

Last-Curated ? 31-Jul-2006 by Shearer A , SRI International

Enzymatic reaction of: porin (outer membrane pore protein N, non-specific)

Transport reaction diagram for porin

Sequence Features

Protein sequence of outer membrane pore protein N, non-specific with features indicated

Feature Class Location Citations Comment
Signal-Sequence 1 -> 21
[Prilipov98, UniProt11]
Chain 22 -> 377
UniProt: Outer membrane protein N;

Gene Local Context (not to scale): ?

Gene local context diagram

Transcription Units:

Transcription-unit diagram

Transcription-unit diagram

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

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

Fabrega12: Fabrega A, Rosner JL, Martin RG, Sole M, Vila J (2012). "SoxS-dependent coregulation of ompN and ydbK in a multidrug-resistant Escherichia coli strain." FEMS Microbiol Lett 332(1);61-7. PMID: 22515487

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

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

Prilipov98: Prilipov A, Phale PS, Koebnik R, Widmer C, Rosenbusch JP (1998). "Identification and characterization of two quiescent porin genes, nmpC and ompN, in Escherichia coli BE." J Bacteriol 180(13);3388-92. PMID: 9642192

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

UniProt11: UniProt Consortium (2011). "UniProt version 2011-06 released on 2011-06-30 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

Nakayama13: Nakayama T, Yonekura S, Yonei S, Zhang-Akiyama QM (2013). "Escherichia coli pyruvate:flavodoxin oxidoreductase, YdbK - regulation of expression and biological roles in protection against oxidative stress." Genes Genet Syst 88(3);175-88. PMID: 24025246

Raghavan11: Raghavan R, Sage A, Ochman H (2011). "Genome-wide identification of transcription start sites yields a novel thermosensing RNA and new cyclic AMP receptor protein-regulated genes in Escherichia coli." J Bacteriol 193(11);2871-4. PMID: 21460078

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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 Thu Jul 30, 2015, BIOCYC13A.