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discounted EARLY registration ends Dec 31, 2014
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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
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for maintenance.
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Escherichia coli K-12 substr. MG1655 Polypeptide: predicted lipoprotein



Gene: ybfN Accession Numbers: G6371 (EcoCyc), b0682, ECK0670

Regulation Summary Diagram: ?

Summary:
No information about this protein was found by a literature search conducted on April 10, 2008.

Gene Citations: [Rasmussen09]

Locations: periplasmic space, inner membrane

Map Position: [709,013 -> 709,339] (15.28 centisomes)
Length: 327 bp / 108 aa

Molecular Weight of Polypeptide: 11.999 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0002325 , EchoBASE:EB3424 , EcoGene:EG13660 , EcoliWiki:b0682 , OU-Microarray:b0682 , PortEco:ybfN , Protein Model Portal:P75734 , RefSeq:NP_415208 , RegulonDB:G6371 , String:511145.b0682 , UniProt:P75734

Relationship Links: InterPro:IN-FAMILY:IPR025727 , Pfam:IN-FAMILY:PF13982 , Prosite:IN-FAMILY:PS51257

Genetic Regulation Schematic: ?

GO Terms:

Cellular Component: GO:0005886 - plasma membrane Inferred by computational analysis [UniProtGOA11, UniProtGOA11a]
GO:0016020 - membrane Inferred by computational analysis [UniProtGOA11a]
GO:0030288 - outer membrane-bounded periplasmic space Inferred by computational analysis [DiazMejia09]

Gene Class: ORFs Conserved-Hypothetical-ORFs

Essentiality data for ybfN 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]

Credits:
Last-Curated ? 10-Apr-2008 by Keseler I , SRI International


Sequence Features

Feature Class Location Citations Comment
Signal-Sequence 1 -> 16
[UniProt10a]
UniProt: Non-Experimental Qualifier: potential;
Lipid-Binding-Site 17
[UniProt12b]
UniProt: N-palmitoyl cysteine; Non-Experimental Qualifier: potential.
Chain 17 -> 108
[UniProt09]
UniProt: Uncharacterized lipoprotein ybfN;


Gene Local Context (not to scale): ?

Transcription Units:

Notes:

History:
Peter D. Karp on Thu Jan 16, 2003:
Predicted gene function revised as a result of E. coli genome reannotation by Serres et al. [Serres01 ].
Markus Krummenacker on Tue Oct 14, 1997:
Gene object created from Blattner lab Genbank (v. M52) entry.


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

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

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

Rasmussen09: Rasmussen AA, Johansen J, Nielsen JS, Overgaard M, Kallipolitis B, Valentin-Hansen P (2009). "A conserved small RNA promotes silencing of the outer membrane protein YbfM." Mol Microbiol 72(3):566-77. PMID: 19400782

Serres01: Serres MH, Gopal S, Nahum LA, Liang P, Gaasterland T, Riley M (2001). "A functional update of the Escherichia coli K-12 genome." Genome Biol 2(9);RESEARCH0035. PMID: 11574054

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

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

UniProt12b: UniProt Consortium (2012). "UniProt version 2012-09 released on 2012-09-12 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."

Other References Related to Gene Regulation

Oberto10: Oberto J (2010). "FITBAR: a web tool for the robust prediction of prokaryotic regulons." BMC Bioinformatics 11;554. PMID: 21070640

Plumbridge14: Plumbridge J, Bossi L, Oberto J, Wade JT, Figueroa-Bossi N (2014). "Interplay of transcriptional and small RNA-dependent control mechanisms regulates chitosugar uptake in Escherichia coli and Salmonella." Mol Microbiol. PMID: 24593230


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 Sun Dec 21, 2014, BIOCYC14B.