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cdsA:On One Page

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Standard Name

cdsA

Gene Synonym(s)

ECK0174, b0175, JW5810, cds[1]

Product Desc.

CDP-diglyceride synthase, integral membrane protein with eight transmembrane helices; also known as phosphatidate cytidylyltransferase[2]

Product Synonyms(s)

CDP-diglyceride synthase[1], B0175[3][1], Cds[3][1], CdsA[3][1]

Function from GO
Knock-Out Phenotype
Regulation/Expression

transcription unit(s):

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(cdsA)    Textpresso(cdsA)

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Notes

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CdsA binds RNaseE. CdsA forms degradosome.[2]



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

cdsA

Mnemonic

CDP diglyceride synthase

Synonyms

ECK0174, b0175, JW5810, cds[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

4.22 minutes 

MG1655: 195677..196534
gbrowse_img.php?coord=195677..196534&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 198519..199376
gbrowse_img.php?coord=198519..199376&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 195677..196534
gbrowse_img.php?coord=195677..196534&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 169781..170638
gbrowse_img.php?coord=169781..170638&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 195676..196533
gbrowse_img.php?coord=195676..196533&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

cdsA8

PMID:6273438

CGSC:9051


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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

JW5810

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCTGAAGTATCGCCTGATATC

Primer 2:CCAAGCGTCCTGAATACCAGTAA

zad-220::Tn10

Linked marker

CAG12025 = CGSC7326[4]

est. P1 cotransduction: 12% [5]

yafC502::Tn10

Linked marker

CAG18436 = CGSC7328[4]

est. P1 cotransduction: 23% [5]
Synonyms:zae-502::Tn10

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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:EG10139

EchoBASE (EcoliWiki Page)

EchoBASE:EB0137

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0175

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0212

EcoGene (EcoliWiki Page)

EcoGene:EG10139

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:CDSA

CGSC (EcoliWiki Page)

CGSC:930

ASAP (EcoliWikiPage)

ASAP:ABE-0000600


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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

CdsA

Synonyms

CDP-diglyceride synthase[1], B0175[3][1], Cds[3][1], CdsA[3][1]

Product description

CDP-diglyceride synthase, integral membrane protein with eight transmembrane helices; also known as phosphatidate cytidylyltransferase[2]

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:0004605

phosphatidate cytidylyltransferase activity

GO_REF:0000002
GO_REF:0000003

IEA: Inferred from Electronic Annotation

InterPro:IPR000374
EC:2.7.7.41

F

Seeded from EcoCyc 12.5 [6]

complete

GO:0008654

phospholipid biosynthetic process

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR000374
SP_KW:KW-0594

P

Seeded from EcoCyc 12.5 [6]

complete

GO:0016020

membrane

GO_REF:0000002
GO_REF:0000004
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR000374
SP_KW:KW-0397
SP_KW:KW-0472

C

Seeded from EcoCyc 12.5 [6]

complete

GO:0016021

integral to membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc [7]

complete

GO:0016740

transferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc [7]

complete

GO:0016779

nucleotidyltransferase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0548

F

Seeded from EcoCyc [7]

complete

GO:0005886

plasma membrane

GO_REF:0000004
GO_REF:0000004
GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997
SP_KW:KW-1003
SP_SL:SL-0037

C

Seeded from EcoCyc [7]

complete

GO:0016772

transferase activity, transferring phosphorus-containing groups

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000374

F

Seeded from EcoCyc [7]

complete

GO:0006654

phosphatidic acid biosynthetic process

P

Seeded from EcoCyc 11.1[8].

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
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Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes

plasma membrane

C-terminus localized to the periplasm with 7 predicted transmembrane domains

Daley et al. (2005) [9]

plasma membrane

From EcoCyc[8]


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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 

MLAAWEWGQL SGFTTRSQRV WLAVLCGLLL ALMLFLLPEY HRNIHQPLVE ISLWASLGWW
IVALLLVLFY PGSAAIWRNS KTLRLIFGVL TIVPFFWGML ALRAWHYDEN HYSGAIWLLY
VMILVWGADS GAYMFGKLFG KHKLAPKVSP GKTWQGFIGG LATAAVISWG YGMWANLDVA
PVTLLICSIV AALASVLGDL TESMFKREAG IKDSGHLIPG HGGILDRIDS LTAAVPVFAC
LLLLVFRTL
Length

249

Mol. Wt

27.571 kDa

pI

9.1 (calculated)

Extinction coefficient

87,430 - 87,805 (calc based on 7 Y, 14 W, and 3 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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tmhmm.php?gene=cdsA&show=pic&.jpg
Click the image to view raw output from TMHMM.

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:CDPDIGLYSYN-MONOMER

UniProt (EcoliWiki Page)

UniProt:P0ABG1

PFAM (EcoliWiki Page)

PFAM:PF01148

RefSeq (EcoliWiki Page)

RefSeq:NP_414717


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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)
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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=195657..195697&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:b0175 (EcoliWiki Page)

NCBI GEO profiles for cdsA

microarray

GenExpDB:b0175 (EcoliWiki Page)

Summary of data for cdsA 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 cdsA Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG10139

EchoBASE (EcoliWiki Page)

EchoBASE:EB0137

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0175

EcoGene (EcoliWiki Page)

EcoGene:EG10139


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Notes

Links

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Evolution

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Homologs in Other Organisms

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

OrganismHomologs (Statistics)Comments

Anopheles gambiae

  • ENSANGP00000001957 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT3G60620 (score: 1.000; bootstrap: 100%)
  • AT2G45150 (score: 0.669)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00037248 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00016384 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0190518 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0010350 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA20725-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • Q6Z2M3 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YBR029C (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPBC13A23 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000006032 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

CDSA

From SHIGELLACYC

E. coli O157

CDSA

From ECOO157CYC

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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:PF01148


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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. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  3. ↑ 3.0 3.1 3.2 3.3 3.4 3.5 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 CGSC: The Coli Genetics Stock Center
  5. ↑ 5.0 5.1 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).
  6. ↑ 6.0 6.1 6.2 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  7. ↑ 7.0 7.1 7.2 7.3 7.4 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ 8.0 8.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  9. ↑ Daley DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308: 1321-3 PubMed EcoliWiki page

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