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Escherichia coli K-12 substr. MG1655 Polypeptide: predicted diguanylate cyclase



Gene: yegE Accession Numbers: EG12396 (EcoCyc), b2067, ECK2061

Regulation Summary Diagram: ?

Summary:
YegE is a GGDEF/EAL protein that is involved in regulation of the switch from flagellar motility to sessile behavior and curli expression [Pesavento08].

YegE has a MASE1 (Membrane-Associated SEnsor) domain, which includes eight putative membrane segments and is found in proteins associated with signal transduction [Nikolskaya03].

A mutation in yegE partially suppresses the motility defect of a yhjH mutant at 28°C [Pesavento08], suggesting that YegE is one of four diguanylate cyclases that adjust c-di-GMP concentration for motility control [Boehm10]. yegE mutants show reduced expression of curli, possibly due to an effect on transcription of csgD [Pesavento08]. A mutation in yegE was shown to affect csgB expression [Sommerfeldt09].

Expression of yegE increases during the transition to stationary phase and is dependent on σS [Pesavento08, Sommerfeldt09].

Locations: inner membrane

Map Position: [2,141,290 -> 2,144,607] (46.15 centisomes)
Length: 3318 bp / 1105 aa

Molecular Weight of Polypeptide: 123.89 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0006845 , EchoBASE:EB2297 , EcoGene:EG12396 , EcoliWiki:b2067 , ModBase:P38097 , OU-Microarray:b2067 , PortEco:yegE , Pride:P38097 , Protein Model Portal:P38097 , RefSeq:NP_416571 , RegulonDB:EG12396 , SMR:P38097 , String:511145.b2067 , UniProt:P38097

Relationship Links: InterPro:IN-FAMILY:IPR000014 , InterPro:IN-FAMILY:IPR000160 , InterPro:IN-FAMILY:IPR000700 , InterPro:IN-FAMILY:IPR001054 , InterPro:IN-FAMILY:IPR001610 , InterPro:IN-FAMILY:IPR001633 , InterPro:IN-FAMILY:IPR007895 , InterPro:IN-FAMILY:IPR013655 , InterPro:IN-FAMILY:IPR013656 , Pfam:IN-FAMILY:PF00563 , Pfam:IN-FAMILY:PF00990 , Pfam:IN-FAMILY:PF05231 , Pfam:IN-FAMILY:PF08447 , Pfam:IN-FAMILY:PF08448 , Pfam:IN-FAMILY:PF13426 , Prosite:IN-FAMILY:PS50112 , Prosite:IN-FAMILY:PS50113 , Prosite:IN-FAMILY:PS50883 , Prosite:IN-FAMILY:PS50887 , Smart:IN-FAMILY:SM00052 , Smart:IN-FAMILY:SM00086 , Smart:IN-FAMILY:SM00091 , Smart:IN-FAMILY:SM00267

In Paralogous Gene Group: 117 (13 members)

GO Terms:

Biological Process: GO:0008152 - metabolic process Inferred by computational analysis Inferred from experiment [Boehm10, UniProtGOA11a, GOA01]
GO:0000160 - phosphorelay signal transduction system Inferred by computational analysis [GOA01a]
GO:0007165 - signal transduction Inferred by computational analysis [GOA01a]
GO:0023014 - signal transduction by phosphorylation Inferred by computational analysis [GOA01a]
Molecular Function: GO:0052621 - diguanylate cyclase activity Inferred from experiment Inferred by computational analysis [GOA01, Boehm10]
GO:0000155 - phosphorelay sensor kinase activity Inferred by computational analysis [GOA01a]
GO:0000166 - nucleotide binding Inferred by computational analysis [UniProtGOA11a]
GO:0004871 - signal transducer activity Inferred by computational analysis [GOA01a]
GO:0005525 - GTP binding Inferred by computational analysis [UniProtGOA11a]
GO:0016740 - transferase activity Inferred by computational analysis [UniProtGOA11a]
GO:0046872 - metal ion binding Inferred by computational analysis [UniProtGOA11a]
Cellular Component: GO:0005886 - plasma membrane Inferred from experiment Inferred by computational analysis [DiazMejia09, Daley05]

MultiFun Terms: cell processes motility, chemotaxis, energytaxis (aerotaxis, redoxtaxis etc)

Essentiality data for yegE 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]

Credits:
Last-Curated ? 07-Apr-2010 by Keseler I , SRI International


Sequence Features

Feature Class Location Citations Comment
Conserved-Region 300 -> 370
[UniProt09]
UniProt: PAS 1;
Conserved-Region 374 -> 426
[UniProt09]
UniProt: PAC 1;
Conserved-Region 501 -> 552
[UniProt09]
UniProt: PAC 2;
Conserved-Region 553 -> 623
[UniProt09]
UniProt: PAS 2;
Conserved-Region 626 -> 680
[UniProt09]
UniProt: PAC 3;
Conserved-Region 712 -> 845
[UniProt09]
UniProt: GGDEF;
Metal-Binding-Site 720
[UniProt10a]
UniProt: Magnesium; Non-Experimental Qualifier: by similarity;
Amino-Acid-Site 725
[UniProt10a]
UniProt: Transition state stabilizer; Sequence Annotation Type: site; Non-Experimental Qualifier: potential;
Amino-Acid-Sites-That-Bind 728
[UniProt10a]
UniProt: Substrate; Non-Experimental Qualifier: by similarity;
Amino-Acid-Sites-That-Bind 737
[UniProt10a]
UniProt: Substrate; Non-Experimental Qualifier: by similarity;
Metal-Binding-Site 763
[UniProt10a]
UniProt: Magnesium; Non-Experimental Qualifier: by similarity;
Active-Site 763
[UniProt10a]
UniProt: Proton acceptor; Non-Experimental Qualifier: potential;
Conserved-Region 855 -> 1104
[UniProt09]
UniProt: EAL;
Sequence-Conflict 965 -> 966
[Nakabeppu84, UniProt10a]
Alternate sequence: EQ → NS; UniProt: (in Ref. 4; K02498);


Gene Local Context (not to scale): ?

Transcription Unit:

Notes:

History:
10/20/97 Gene b2067 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG12396; 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

Boehm10: Boehm A, Kaiser M, Li H, Spangler C, Kasper CA, Ackermann M, Kaever V, Sourjik V, Roth V, Jenal U (2010). "Second messenger-mediated adjustment of bacterial swimming velocity." Cell 141(1);107-16. PMID: 20303158

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, MGI (2001). "Gene Ontology annotation based on Enzyme Commission mapping." Genomics 74;121-128.

GOA01a: 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

Nakabeppu84: Nakabeppu Y, Miyata T, Kondo H, Iwanaga S, Sekiguchi M (1984). "Structure and expression of the alkA gene of Escherichia coli involved in adaptive response to alkylating agents." J Biol Chem 1984;259(22);13730-6. PMID: 6094528

Nikolskaya03: Nikolskaya AN, Mulkidjanian AY, Beech IB, Galperin MY (2003). "MASE1 and MASE2: two novel integral membrane sensory domains." J Mol Microbiol Biotechnol 5(1);11-6. PMID: 12673057

Pesavento08: Pesavento C, Becker G, Sommerfeldt N, Possling A, Tschowri N, Mehlis A, Hengge R (2008). "Inverse regulatory coordination of motility and curli-mediated adhesion in Escherichia coli." Genes Dev 22(17);2434-46. PMID: 18765794

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.

UniProt10a: UniProt Consortium (2010). "UniProt version 2010-11 released on 2010-11-02 00:00:00." Database.

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 18.5 on Sun Nov 23, 2014, BIOCYC13A.