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MetaCyc Enzyme: fructose-1,6-bisphosphatase

Gene: yggF Accession Numbers: EG11245 (MetaCyc), b2930, ECK2926

Synonyms: yggK

Species: Escherichia coli K-12 substr. MG1655

Subunit composition of fructose-1,6-bisphosphatase = [YggF]2
         fructose-1,6-bisphosphatase = YggF

Summary:
YggF is a type II fructose-1,6-bisphosphatase and shows 58% sequence identity to GlpX [Brown09].

Genomic SELEX screening predicted a number of novel target genes, including yggF, to be under the control of transcriptional activator cAMP-CRP. The data suggested that CRP has a major role in control of the switch between glycolysis and gluconeogenesis [Shimada11a]. Genomic SELEX screening is described in [Gold95].

Locations: cytosol

Map Position: [3,073,239 <- 3,074,204]

Molecular Weight of Polypeptide: 34.323 kD (from nucleotide sequence)

Molecular Weight of Multimer: 76.0 kD (experimental) [Brown09]

Unification Links: ASAP:ABE-0009615 , EchoBASE:EB1226 , EcoGene:EG11245 , EcoliWiki:b2930 , ModBase:P21437 , OU-Microarray:b2930 , PortEco:yggF , Protein Model Portal:P21437 , RefSeq:NP_417405 , RegulonDB:EG11245 , SMR:P21437 , String:511145.b2930 , Swiss-Model:P21437 , UniProt:P21437

Relationship Links: InterPro:IN-FAMILY:IPR004464 , Pfam:IN-FAMILY:PF03320

Gene-Reaction Schematic: ?

Gene-Reaction Schematic

GO Terms:

Biological Process: GO:0016311 - dephosphorylation Inferred from experiment Inferred by computational analysis [GOA01, GOA01a, Brown09]
GO:0005975 - carbohydrate metabolic process Inferred by computational analysis [UniProtGOA11a]
GO:0006071 - glycerol metabolic process Inferred by computational analysis [GOA01a]
GO:0006094 - gluconeogenesis Inferred by computational analysis [GOA01a]
Molecular Function: GO:0030145 - manganese ion binding Inferred from experiment [Brown09]
GO:0042132 - fructose 1,6-bisphosphate 1-phosphatase activity Inferred from experiment Inferred by computational analysis [GOA01, GOA01a, Brown09]
GO:0042803 - protein homodimerization activity Inferred from experiment [Brown09]
GO:0016787 - hydrolase activity Inferred by computational analysis [UniProtGOA11a]
GO:0046872 - metal ion binding Inferred by computational analysis [UniProtGOA11a]
Cellular Component: GO:0005829 - cytosol Inferred by computational analysis [DiazMejia09]

MultiFun Terms: metabolism central intermediary metabolism

Credits:
Created in EcoCyc 13-Mar-2009 by Keseler I , SRI International
Imported from EcoCyc 02-Jun-2015 by Paley S , SRI International


Enzymatic reaction of: fructose-1,6-bisphosphatase

EC Number: 3.1.3.11

fructose 1,6-bisphosphate + H2O <=> β-D-fructofuranose 6-phosphate + phosphate

The reaction direction shown, that is, A + B ↔ C + D versus C + D ↔ A + B, is in accordance with the direction in which it was curated.

The reaction is physiologically favored in the direction shown.

In Pathways: photosynthetic 3-hydroxybutanoate biosynthesis (engineered) , superpathway of hexitol degradation (bacteria) , superpathway of N-acetylneuraminate degradation , superpathway of glycolysis and Entner-Doudoroff , superpathway of glycolysis, pyruvate dehydrogenase, TCA, and glyoxylate bypass , gluconeogenesis I , glycolysis II (from fructose 6-phosphate) , glycolysis I (from glucose 6-phosphate)

Credits:
Imported from EcoCyc 02-Jun-2015 by Paley S , SRI International

Summary:
Substrate binding shows positive cooperativity, with a Hill coefficient of ~2.0 [Brown09].

The enzyme had low activity toward glucose 1,6-bisphosphate. Non-substrates included ribulose 1,5-bisphosphate, fructose 2,6-bisphosphate, and fructose 1-phosphate. Of several divalent ions tested, only Mn2+ served as cofactor [Brown09].

Addition of 1 mM dithiothreitol increased the activity 40-50%, whereas 1 mM ATP reduced the activity by 40%. Addition of 1 mM AMP, ADP, PEP, and glycerol 3-phosphate had no significant effect on activity [Brown09].

Cofactors or Prosthetic Groups: Mn2+ [Brown09]

Activators (Unknown Mechanism): L-dithiothreitol [Brown09]

Inhibitors (Unknown Mechanism): ATP [Brown09] , potassium chloride [Brown09] , Li+ [Brown09] , phosphate [Brown09]

Kinetic Parameters:

Substrate
Km (μM)
kcat (sec-1)
kcat/Km (sec-1 μM-1)
Citations
fructose 1,6-bisphosphate
100.0
2.5
0.025
[Brown09, BRENDA14]

pH(opt): 7.5-8 [Brown09]


Sequence Features

Feature Class Location Citations Comment
Metal-Binding-Site 32
[UniProt11]
UniProt: Manganese 1; Non-Experimental Qualifier: by similarity.
Metal-Binding-Site 56
[UniProt11]
UniProt: Manganese 1; Non-Experimental Qualifier: by similarity.
Metal-Binding-Site 84
[UniProt11]
UniProt: Manganese 2; Non-Experimental Qualifier: by similarity.
Metal-Binding-Site 87
[UniProt11]
UniProt: Manganese 2; Non-Experimental Qualifier: by similarity.
Protein-Segment 87 -> 89
[UniProt11]
UniProt: Substrate binding; Sequence Annotation Type: region of interest; Non-Experimental Qualifier: by similarity.
Amino-Acid-Sites-That-Bind 118
[UniProt11]
UniProt: Substrate; Non-Experimental Qualifier: by similarity.
Protein-Segment 163 -> 165
[UniProt11]
UniProt: Substrate binding; Sequence Annotation Type: region of interest; Non-Experimental Qualifier: by similarity.
Sequence-Conflict 182 -> 186
[Alefounder89a, UniProt10]
UniProt: (in Ref. 3);
Protein-Segment 185 -> 187
[UniProt11]
UniProt: Substrate binding; Sequence Annotation Type: region of interest; Non-Experimental Qualifier: by similarity.
Amino-Acid-Sites-That-Bind 209
[UniProt11]
UniProt: Substrate; via amide nitrogen; Non-Experimental Qualifier: by similarity.
Metal-Binding-Site 212
[UniProt11]
UniProt: Manganese 2; Non-Experimental Qualifier: by similarity.

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 ].
10/20/97 Gene b2930 from Blattner lab Genbank (v. M52) entry merged into EcoCyc gene EG11245; confirmed by SwissProt match.


References

Alefounder89a: Alefounder PR, Perham RN (1989). "Identification, molecular cloning and sequence analysis of a gene cluster encoding the class II fructose 1,6-bisphosphate aldolase, 3-phosphoglycerate kinase and a putative second glyceraldehyde 3-phosphate dehydrogenase of Escherichia coli." Mol Microbiol 3(6);723-32. PMID: 2546007

BRENDA14: BRENDA team (2014). "Imported from BRENDA version existing on Aug 2014." http://www.brenda-enzymes.org.

Brown09: Brown G, Singer A, Lunin VV, Proudfoot M, Skarina T, Flick R, Kochinyan S, Sanishvili R, Joachimiak A, Edwards AM, Savchenko A, Yakunin AF (2009). "Structural and biochemical characterization of the type II fructose-1,6-bisphosphatase GlpX from Escherichia coli." J Biol Chem 284(6);3784-92. PMID: 19073594

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

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."

Gold95: Gold L, Polisky B, Uhlenbeck O, Yarus M (1995). "Diversity of oligonucleotide functions." Annu Rev Biochem 64;763-97. PMID: 7574500

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

Shimada11a: Shimada T, Fujita N, Yamamoto K, Ishihama A (2011). "Novel roles of cAMP receptor protein (CRP) in regulation of transport and metabolism of carbon sources." PLoS One 6(6);e20081. PMID: 21673794

UniProt10: UniProt Consortium (2010). "UniProt version 2010-11 released on 2010-11-02 00:00:00." Database.

UniProt11: UniProt Consortium (2011). "UniProt version 2011-06 released on 2011-06-30 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 MetaCyc: Caspi et al, Nucleic Acids Research 42:D459-D471 2014
Page generated by SRI International Pathway Tools version 19.0 on Mon Aug 3, 2015, biocyc11.