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paaC:On One Page

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Standard Name

paaC

Gene Synonym(s)

ECK1387, b1390, JW1385, ydbP[1]

Product Desc.

putative subunit of phenylacetate-CoA oxygenase[2][3];

Component of putative phenylacetate-CoA oxygenase[3]

Phenylacetyl-CoA oxygenase, beta subunit; heteromultimeric diiron oxygenase component; phenylacetic acid degradation[4]

Product Synonyms(s)

predicted multicomponent oxygenase/reductase subunit for phenylacetic acid degradation[1], B1390[2][1], YdbP[2][1], PaaC[2][1]

Function from GO
Knock-Out Phenotype
Regulation/Expression

transcription unit(s): paaABCDEFGHIJK[2]

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(paaC)    Textpresso(paaC)

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Notes

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PaaABCDE is a multi-subunit oxygenase that hydroxylates phenylacetyl-CoA.[4]



Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

paaC

Mnemonic

Phenylacetic acid

Synonyms

ECK1387, b1390, JW1385, ydbP[1]

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Notes

Location(s) and DNA Sequence

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

31.32 minutes 

MG1655: 1453188..1453934
gbrowse_img.php?coord=1453188..1453934&genome=ecoli&name=MG1655&trackset=0&width=300&.png

W3110

 

W3110: 1456878..1457624
gbrowse_img.php?coord=1456878..1457624&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 1543783..1544529
gbrowse_img.php?coord=1543783..1544529&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 1345247..1345993
gbrowse_img.php?coord=1345247..1345993&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature typeLocationDescription
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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

ΔpaaC (Keio:JW1385)

deletion

deletion

PMID:16738554

Shigen
CGSC9225[5]

paaCN160D

N160D

(in strain: W)

Strain variation; seeded from UniProt:P76079

ΔpaaC754::kan

PMID:16738554

CGSC:102218


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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

ResourceResource TypeSourceNotes/Reference

JW1385

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAATCAGTTAACGGCTTACAC

Primer 2:CCCCATTGCTGACCGGGCAAGAC

zhj-3076::Tn10

Linked marker

CAG18640 = CGSC7453[5]

est. P1 cotransduction: 49% [6]

trg-2::Tn10

Linked marker

CAG12026 = CGSC7376[5]

est. P1 cotransduction: 18% [6]

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:G6711

EchoBASE (EcoliWiki Page)

EchoBASE:EB3500

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1390

EcoGene (EcoliWiki Page)

EcoGene:EG13737

ASAP (EcoliWikiPage)

ASAP:ABE-0004653


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Notes

Links

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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

PaaC

Synonyms

predicted multicomponent oxygenase/reductase subunit for phenylacetic acid degradation[1], B1390[2][1], YdbP[2][1], PaaC[2][1]

Product description

putative subunit of phenylacetate-CoA oxygenase[2][3];

Component of putative phenylacetate-CoA oxygenase[3]

Phenylacetyl-CoA oxygenase, beta subunit; heteromultimeric diiron oxygenase component; phenylacetic acid degradation[4]

EC number (for enzymes)


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Notes

Function

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Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0016491

oxidoreductase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009078

F

Seeded from EcoCyc [7]

complete

GO:0046914

transition metal ion binding

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009078

F

Seeded from EcoCyc [7]

complete

GO:0009063

amino acid catabolic process

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0016052

carbohydrate catabolic process

P

Seeded from EcoCyc 11.1[3].

required fields missing

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner TypePartnerNotesReferencesEvidence

Protein

Subunits of putative phenylacetate-CoA oxygenase

could be indirect


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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

CompartmentDescriptionEvidenceSourceNotes
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Notes

Structure and Physical Properties

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Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Sequence

at EcoCyc 

MNQLTAYTLR LGDNCLVLSQ RLGEWCGHAP ELEIDLALAN IGLDLLGQAR NFLSYAAELA
GEGDEDTLAF TRDERQFSNL LLVEQPNGNF ADTIARQYFI DAWHVALFTR LMESRDPQLA
AISAKAIKEA RYHLRFSRGW LERLGNGTDV SGQKMQQAIN KLWRFTAELF DADEIDIALS
EEGIAVDPRT LRAAWEAEVF AGINEATLNV PQEQAYRTGG KKGLHTEHLG PMLAEMQYLQ
RVLPGQQW
Length

248

Mol. Wt

27.877 kDa

pI

4.8 (calculated)

Extinction coefficient

41,940 - 42,190 (calc based on 6 Y, 6 W, and 2 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

TypeResiduesDescriptionNotesReferences
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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures
Models

View models at:

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Structure figures

Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource typeSourceNotes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:G6711-MONOMER

UniProt (EcoliWiki Page)

UniProt:P76079

PFAM (EcoliWiki Page)

PFAM:PF05138

RefSeq (EcoliWiki Page)

RefSeq:NP_415908


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Notes

Links

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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)
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Notes

Transcription and Transcriptional Regulation

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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

paaABCDEFGHIJK

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Figure courtesy of RegulonDB

Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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gbrowse_img.php?coord=1453168..1453208&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein&width=400&figure=Nterm&.png
This picture shows the sequence around the N-terminus.

Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele NameMutationPhenotypeReference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

TypeReferenceNotes

microarray

GEO Profiles:b1390 (EcoliWiki Page)

NCBI GEO profiles for paaC

microarray

GenExpDB:b1390 (EcoliWiki Page)

Summary of data for paaC from multiple microarray studies

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Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource NameResource TypeDescriptionSourceNotes
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Notes

Accessions Related to paaC Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:G6711

EchoBASE (EcoliWiki Page)

EchoBASE:EB3500

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b1390

EcoGene (EcoliWiki Page)

EcoGene:EG13737


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Notes

Links

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Evolution

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Homologs in Other Organisms

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Do-It-Yourself Web Tools

Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF05138


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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 2.8 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 3.3 3.4 3.5 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 CGSC: The Coli Genetics Stock Center
  6. ↑ 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
  7. ↑ 7.0 7.1 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70

Categories

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