Escherichia coli K-12 substr. MG1655 Polypeptide: ring 1,2-phenylacetyl-CoA epoxidase, structural subunit

Gene: paaC Accession Numbers: G6711 (EcoCyc), b1390, ECK1387

Synonyms: ydbP

Regulation Summary Diagram

Regulation summary diagram for paaC

Component of: ring 1,2-phenylacetyl-CoA epoxidase (summary available)

PaaC is the structural β subunit of the catalytic core of the enzyme [Grishin11].

PaaC: "phenylacetic acid degradation" [Ferrandez98]

Locations: cytosol

Map Position: [1,453,188 -> 1,453,934] (31.32 centisomes, 113°)
Length: 747 bp / 248 aa

Molecular Weight of Polypeptide: 27.877 kD (from nucleotide sequence)

Unification Links: ASAP:ABE-0004653, EchoBASE:EB3500, EcoGene:EG13737, EcoliWiki:b1390, ModBase:P76079, OU-Microarray:b1390, PortEco:paaC, PR:PRO_000023477, Pride:P76079, Protein Model Portal:P76079, RefSeq:NP_415908, RegulonDB:G6711, SMR:P76079, String:511145.b1390, UniProt:P76079

Relationship Links: InterPro:IN-FAMILY:IPR007814, InterPro:IN-FAMILY:IPR009078, InterPro:IN-FAMILY:IPR011882, InterPro:IN-FAMILY:IPR012347, PDB:Structure:1OTK, PDB:Structure:3PVR, PDB:Structure:3PVT, PDB:Structure:3PVY, PDB:Structure:3PW1, PDB:Structure:3PW8, PDB:Structure:3PWQ, PDB:Structure:4II4, Pfam:IN-FAMILY:PF05138

Gene-Reaction Schematic

Gene-Reaction Schematic

Genetic Regulation Schematic

Genetic regulation schematic for paaC

GO Terms:
Biological Process:
Inferred from experimentInferred by computational analysisGO:0010124 - phenylacetate catabolic process [UniProtGOA12, GOA01a, Ferrandez98]
Molecular Function:
Inferred from experimentGO:0005515 - protein binding [Rajagopala14]
Cellular Component:
Inferred from experimentInferred by computational analysisGO:0005829 - cytosol [DiazMejia09, Zhang07]

MultiFun Terms: metabolismcarbon utilizationcarbon compounds

Essentiality data for paaC knockouts:

Growth Medium Growth? T (°C) O2 pH Osm/L Growth Observations
LB LennoxYes 37 Aerobic 7   Yes [Baba06, Comment 1]
M9 medium with 1% glycerolYes 37 Aerobic 7.2 0.35 Yes [Joyce06, Comment 2]
MOPS medium with 0.4% glucoseYes 37 Aerobic 7.2 0.22 Yes [Baba06, Comment 1]

Subunit of: ring 1,2-phenylacetyl-CoA epoxidase

Subunit composition of ring 1,2-phenylacetyl-CoA epoxidase = [PaaE][PaaA][PaaC][PaaB]
         ring 1,2-phenylacetyl-CoA epoxidase, reductase subunit = PaaE (summary available)
         ring 1,2-phenylacetyl-CoA epoxidase, monooxygenase subunit = PaaA (summary available)
         ring 1,2-phenylacetyl-CoA epoxidase, structural subunit = PaaC (summary available)
         ring 1,2-phenylacetyl-CoA epoxidase subunit = PaaB (summary available)

The ring 1,2-phenylacetyl-CoA epoxidase, comprised of the PaaA, PaaB, PaaC, and PaaE polypeptides, catalyzes the second step in the aerobic degradation of phenylacetate [Grishin11].

Stable subcomplexes composed of PaaABC, PaaAC and PaaBC can be purified, but only the combination of the PaaABC complex together with PaaE has full activity [Grishin11]. Crystal structures of the PaaAC subcomplex alone and together with a variety of ligands have been solved [Grishin10, Grishin11].

GO Terms:
Biological Process:
Inferred from experimentGO:0010124 - phenylacetate catabolic process [Grishin11]
Molecular Function:
Inferred from experimentGO:0016709 - oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen [Grishin11]

Last-Curated 25-Jan-2011 by Keseler I, SRI International

Enzymatic reaction of: ring 1,2-phenylacetyl-CoA epoxidase

Inferred from experimentInferred by computational analysis

Synonyms: phenylacetyl-CoA monooxygenase

EC Number:

phenylacetyl-CoA + NADPH + oxygen + H+ → 2-(1,2-epoxy-1,2-dihydrophenyl)acetyl-CoA + NADP+ + H2O

The direction shown, i.e. which substrates are on the left and right sides, is in accordance with the direction in which it was curated.

The reaction is physiologically favored in the direction shown.

In Pathways: superpathway of phenylethylamine degradation, phenylacetate degradation I (aerobic)

Cofactors or Prosthetic Groups: a [2Fe-2S] iron-sulfur cluster [Grishin11], FAD [Grishin11]

Sequence Features

Protein sequence of ring 1,2-phenylacetyl-CoA epoxidase, structural subunit with features indicated

Feature Class Location Citations Comment
Pfam PF05138 2 -> 248
Inferred by computational analysis[Finn14]
PaaA_PaaC : Phenylacetic acid catabolic protein
Protein-Segment 76 -> 79
Inferred by computational analysis[UniProt15]
UniProt: Substrate binding; Sequence Annotation Type: region of interest.
Extrinsic-Sequence-Variant 160
Author statement[UniProt15]
UniProt: In strain: W..
Protein-Segment 177 -> 179
Inferred by computational analysis[UniProt15]
UniProt: Substrate binding; Sequence Annotation Type: region of interest.

Gene Local Context (not to scale -- see Genome Browser for correct scale)

Gene local context diagram

Transcription Units

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

Ferrandez98: Ferrandez A, Minambres B, Garcia B, Olivera ER, Luengo JM, Garcia JL, Diaz E (1998). "Catabolism of phenylacetic acid in Escherichia coli. Characterization of a new aerobic hybrid pathway." J Biol Chem 1998;273(40);25974-86. PMID: 9748275

Finn14: Finn RD, Bateman A, Clements J, Coggill P, Eberhardt RY, Eddy SR, Heger A, Hetherington K, Holm L, Mistry J, Sonnhammer EL, Tate J, Punta M (2014). "Pfam: the protein families database." Nucleic Acids Res 42(Database issue);D222-30. PMID: 24288371

GOA01a: GOA, DDB, FB, MGI, ZFIN (2001). "Gene Ontology annotation through association of InterPro records with GO terms."

Grishin10: Grishin AM, Ajamian E, Zhang L, Cygler M (2010). "Crystallization and preliminary X-ray analysis of PaaAC, the main component of the hydroxylase of the Escherichia coli phenylacetyl-coenzyme A oxygenase complex." Acta Crystallogr Sect F Struct Biol Cryst Commun 66(Pt 9);1045-9. PMID: 20823522

Grishin11: Grishin AM, Ajamian E, Tao L, Zhang L, Menard R, Cygler M (2011). "Structural and functional studies of the Escherichia coli phenylacetyl-CoA monooxygenase complex." J Biol Chem 286(12);10735-43. PMID: 21247899

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

Park06a: Park YJ, Yoo CB, Choi SY, Lee HB (2006). "Purifications and characterizations of a ferredoxin and its related 2-oxoacid:ferredoxin oxidoreductase from the hyperthermophilic archaeon, Sulfolobus solfataricus P1." J Biochem Mol Biol 39(1);46-54. PMID: 16466637

Rajagopala14: Rajagopala SV, Sikorski P, Kumar A, Mosca R, Vlasblom J, Arnold R, Franca-Koh J, Pakala SB, Phanse S, Ceol A, Hauser R, Siszler G, Wuchty S, Emili A, Babu M, Aloy P, Pieper R, Uetz P (2014). "The binary protein-protein interaction landscape of Escherichia coli." Nat Biotechnol 32(3);285-90. PMID: 24561554

Teufel10: Teufel R, Mascaraque V, Ismail W, Voss M, Perera J, Eisenreich W, Haehnel W, Fuchs G (2010). "Bacterial phenylalanine and phenylacetate catabolic pathway revealed." Proc Natl Acad Sci U S A 107(32):14390-5. PMID: 20660314

UniProt15: UniProt Consortium (2015). "UniProt version 2015-08 released on 2015-07-22." Database.

UniProtGOA12: UniProt-GOA (2012). "Gene Ontology annotation based on UniPathway vocabulary mapping."

Zhang07: Zhang N, Chen R, Young N, Wishart D, Winter P, Weiner JH, Li L (2007). "Comparison of SDS- and methanol-assisted protein solubilization and digestion methods for Escherichia coli membrane proteome analysis by 2-D LC-MS/MS." Proteomics 7(4);484-93. PMID: 17309111

Other References Related to Gene Regulation

Beisel12: Beisel CL, Updegrove TB, Janson BJ, Storz G (2012). "Multiple factors dictate target selection by Hfq-binding small RNAs." EMBO J 31(8);1961-74. PMID: 22388518

Ferrandez00: Ferrandez A, Garcia JL, Diaz E (2000). "Transcriptional regulation of the divergent paa catabolic operons for phenylacetic acid degradation in Escherichia coli." J Biol Chem 275(16);12214-22. PMID: 10766858

Kim04b: Kim HS, Kang TS, Hyun JS, Kang HS (2004). "Regulation of penicillin G acylase gene expression in Escherichia coli by repressor PaaX and the cAMP-cAMP receptor protein complex." J Biol Chem 279(32);33253-62. PMID: 15159386

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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 19.5 on Mon Nov 30, 2015, BIOCYC13B.