ycgF:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

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

Standard name

YcgF

Synonyms

predicted FAD-binding phosphodiesterase[1], B1163[2][1], YcgF[2][1], Blrp[2][1] , ECK1150, JW1150, b1163

Product description

predicted FAD-binding phosphodiesterase[2][3]

Putative cyclic-di-GMP phosphodiesterase, function unknown; cold shock gene, binds FAD[4]

EC number (for enzymes)


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Notes

Function

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

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
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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 Type Partner Notes References Evidence

Protein

aceE

PMID:15690043[5]

Experiment(s):EBI-881743, EBI-889250

Protein

lpdA

PMID:15690043[5]

Experiment(s):EBI-881743, EBI-889250

Protein

dnaB

PMID:16606699[6]

Experiment(s):EBI-1139025

Protein

lon

PMID:16606699[6]

Experiment(s):EBI-1139025

Protein

dnaE

PMID:16606699[6]

Experiment(s):EBI-1139025

Protein

rtcB

PMID:16606699[6]

Experiment(s):EBI-1139025

Protein

sucB

PMID:16606699[6]

Experiment(s):EBI-1139025

Protein

rsuA

PMID:16606699[6]

Experiment(s):EBI-1139025

Protein

aceF

PMID:15690043[5]

Experiment(s):EBI-889250

Protein

groL

PMID:15690043[5]

Experiment(s):EBI-889250

Protein

rplL

PMID:15690043[5]

Experiment(s):EBI-889250

Protein

grcA

PMID:15690043[5]

Experiment(s):EBI-889250

Protein

groS

PMID:19402753[7]

LCMS(ID Probability):99.5

Protein

yfiD

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

groL

PMID:19402753[7]

LCMS(ID Probability):99.6

Protein

rplL

PMID:19402753[7]

LCMS(ID Probability):99.6

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Notes

Localization

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

Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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

Name
Sequence

at EcoCyc 

MLTTLIYRSH IRDDEPVKKI EEMVSIANRR NMQSDVTGIL LFNGSHFFQL LEGPEEQVKM
IYRAICQDPR HYNIVELLCD YAPARRFGKA GMELFDLRLH ERDDVLQAVF DKGTSKFQLT
YDDRALQFFR TFVLATEQST YFEIPAEDSW LFIADGSDKE LDSCALSPTI NDHFAFHPIV
DPLSRRIIAF EAIVQKNEDS PSAIAVGQRK DGEIYTADLK SKALAFTMAH ALELGDKMIS
INLLPMTLVN EPDAVSFLLN EIKANALVPE QIIVEFTESE VISRFDEFAE AIKSLKAAGI
SVAIDHFGAG FAGLLLLSRF QPDRIKISQE LITNVHKSGP RQAIIQAIIK CCTSLEIQVS
AMGVATPEEW MWLESAGIEM FQGDLFAKAK LNGIPSIAWP EKK
Length

403

Mol. Wt

45.296 kDa

pI

4.9 (calculated)

Extinction coefficient

32,430 - 33,055 (calc based on 7 Y, 4 W, and 5 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.

Type Residues Description Notes References

Domain

2..94

PF04940 Sensors of blue-light using FAD

PMID:19920124[8]

Domain

164..389

PF00563 EAL domain

PMID:19920124[8]

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

Structures

<beststructure> gene=ycgF taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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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 type Source Notes/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.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16129126

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947592

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P75990

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947592

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:

Escherichia coli str. K-12 substr. MG1655

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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 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 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 5.3 5.4 5.5 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  6. ↑ 6.0 6.1 6.2 6.3 6.4 6.5 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ 7.0 7.1 7.2 7.3 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  8. ↑ 8.0 8.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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