dsbA:On One Page

From EcoliWiki
Jump to: navigation, search

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

Quickview

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

<protect>

Standard Name

dsbA

Gene Synonym(s)

ECK3852, b3860, JW3832, iarA, ppfA, dsf[1], dsf

Product Desc.

Thiol:disulfide interchange protein, periplasmic; alkali-inducible[2]

Product Synonyms(s)

periplasmic protein disulfide isomerase I[1], B3860[3][1], Dsf[3][1], PpfA[3][1], IarA[3][1], DsbA[3][1] , dsf, ECK3852, iarA, JW3832, ppfA, b3860

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): dsbA[3], rdoA-dsbA[3], yihE-dsbA

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

edit table

</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

[back to top]


DsbA has a role in cytochrome C synthesis.[2]



Gene

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css> <protect>

Nomenclature

[back to top]


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

Standard name

dsbA

Mnemonic

Disulfide bond

Synonyms

ECK3852, b3860, JW3832, iarA, ppfA, dsf[1], dsf

edit table

</protect>

Notes

Location(s) and DNA Sequence

[back to top]


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

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

87.11 minutes 

MG1655: 4041441..4042067
<gbrowseImage> name=NC_000913:4041441..4042067 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 4021715..4022341
<gbrowseImage> name=NC_012967:4021715..4022341 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3931110..3931736
<gbrowseImage> name=NC_012759:3931110..3931736 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3593263..3592637
<gbrowseImage> name=NC_007779:3592637..3593263 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 4140361..4140987
<gbrowseImage> name=NC_010473:4140361..4140987 source=DH10B preset=GeneLocation </gbrowseImage>

edit table

</protect>

Notes

Sequence Features

[back to top]


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

Feature Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

4041498

Edman degradation

PMID:8494885
PMID:9298646


edit table

<protect></protect>

Notes

Alleles and Phenotypes

[back to top]


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

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

dsbA(del) (Keio:JW3832)

deletion

deletion

PMID:16738554

Shigen
CGSC8323[4]

dsbA1::kan

PMID:8917542

CGSC:65859

dsbA723(del)::kan

PMID:16738554

CGSC:100648

dsbA723(del)::FRT

deletion

Mutagenesis Rate

Decrease in Stress Induced Mutagenesis (SIM) rate.

PMID:23224554

Parent Strain: SMR4562 Experimental Strain: SMR12309

There was 90 percent decrease in SIM. See Table S3.

dsbA101::Tn10

insertion

Disulfide Bond Formation

Defective Disulfide Bond formation

PMID:8168498

The mutation caused a defect in Disulfide Bond formation. See figure 2 for experimental results.

edit table

<protect></protect>

Notes

Genetic Interactions

[back to top]


<protect>

Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
edit table

</protect>

Notes

Genetic Resources

[back to top]


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

Resource Resource Type Source Notes/Reference

JW3832

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAAAAGATTTGGCTGGCGCT

Primer 2:CCTTTTTTCTCGGACAGATATTT

8D12

Kohara Phage

Genobase

PMID:3038334

10H11

Kohara Phage

Genobase

PMID:3038334

9B11

Kohara Phage

Genobase

PMID:3038334

fad-751::Tn10

Linked marker

CAG18496 = CGSC7465[4]

est. P1 cotransduction: 61% [5]
Synonyms:fadAB101::Tn10

zih-35::Tn10

Linked marker

CAG18495 = CGSC7467[4]

est. P1 cotransduction: 43% [5]

edit table

<protect></protect>

Notes

Accessions in Other Databases

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:EG11297

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11297

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001270

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948353

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1274

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012606

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]



Product(s)

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Nomenclature

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

Standard name

DsbA

Synonyms

periplasmic protein disulfide isomerase I[1], B3860[3][1], Dsf[3][1], PpfA[3][1], IarA[3][1], DsbA[3][1] , dsf, ECK3852, iarA, JW3832, ppfA, b3860

Product description

Thiol:disulfide interchange protein, periplasmic; alkali-inducible[2]

EC number (for enzymes)
edit table

<protect></protect>

Notes

Function

[back to top]


<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

GO:0005515

protein binding

PMID:16606699

IPI: Inferred from Physical Interaction

UniProtKB:P0A7V0

F

Seeded from EcoCyc (v14.0)

complete

GO:0003756

protein disulfide isomerase activity

PMID:1934062

IDA: Inferred from Direct Assay

F

act to reduce insulin disulfide bonds in vitro

complete

GO:0005515

protein binding

PMID:17110337

IPI: Inferred from Physical Interaction

UniProtKB:P0A6M2

F

Seeded from EcoCyc (v14.0)

complete

GO:0006457

protein folding

PMID:1934062

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc (v14.0)

complete

GO:0015035

protein disulfide oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001853

F

Seeded from EcoCyc (v14.0)

complete

GO:0015035

protein disulfide oxidoreductase activity

PMID:1934062

IDA: Inferred from Direct Assay

F

Seeded from EcoCyc (v14.0)

complete

GO:0030288

outer membrane-bounded periplasmic space

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001853

C

Seeded from EcoCyc (v14.0)

complete

GO:0030288

outer membrane-bounded periplasmic space

PMID:1934062

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0015035

protein disulfide oxidoreductase activity

PMID:7487336

IMP: Inferred from Mutant Phenotype

F

complete

GO:0071236

cellular response to antibiotic

PMID:7628442

IMP: Inferred from Mutant Phenotype

P

complete

GO:0045454

cell redox homeostasis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017936

P

Seeded from EcoCyc (v14.0)

complete

GO:0045454

cell redox homeostasis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017937

P

Seeded from EcoCyc (v14.0)

complete

edit table

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

acnA

PMID:15690043

Experiment(s):EBI-893379

Protein

kbaY

PMID:15690043

Experiment(s):EBI-893379

Protein

insE1

PMID:15690043

Experiment(s):EBI-893379

Protein

dctA

PMID:15690043

Experiment(s):EBI-893379

Protein

dsbC

PMID:15690043

Experiment(s):EBI-893379

Protein

fliA

PMID:15690043

Experiment(s):EBI-893379

Protein

hybC

PMID:15690043

Experiment(s):EBI-893379

Protein

katE

PMID:15690043

Experiment(s):EBI-893379

Protein

mltB

PMID:15690043

Experiment(s):EBI-893379

Protein

tap

PMID:15690043

Experiment(s):EBI-893379

Protein

ydhU

PMID:15690043

Experiment(s):EBI-893379

Protein

gfcC

PMID:15690043

Experiment(s):EBI-893379

Protein

ymfN

PMID:15690043

Experiment(s):EBI-893379

Protein

rpsB

PMID:16606699

Experiment(s):EBI-1146823

Protein

acnA

PMID:19402753

LCMS(ID Probability):99.0

Protein

hybC

PMID:19402753

LCMS(ID Probability):99.0

Protein

ydhU

PMID:19402753

LCMS(ID Probability):99.0

Protein

katE

PMID:19402753

LCMS(ID Probability):99.0

Protein

mltB

PMID:19402753

LCMS(ID Probability):99.0

Protein

gfcC

PMID:19402753

LCMS(ID Probability):99.0

Protein

kbaY

PMID:19402753

LCMS(ID Probability):99.0

Protein

fliA

PMID:19402753

LCMS(ID Probability):99.0

Protein

dsbC

PMID:19402753

LCMS(ID Probability):99.0

Protein

tap

PMID:19402753

LCMS(ID Probability):99.0

Protein

dctA

PMID:19402753

LCMS(ID Probability):99.0

edit table

</protect>

Notes

Localization

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

Compartment Description Evidence Reference/Source Notes

Periplasm

PMID:9298646

EchoLocation:dsbA

periplasm

From EcoCyc[6]


edit table

<protect></protect>

Notes

Structure and Physical Properties

[back to top]


<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 

MKKIWLALAG LVLAFSASAA QYEDGKQYTT LEKPVAGAPQ VLEFFSFFCP HCYQFEEVLH
ISDNVKKKLP EGVKMTKYHV NFMGGDLGKD LTQAWAVAMA LGVEDKVTVP LFEGVQKTQT
IRSASDIRDV FINAGIKGEE YDAAWNSFVV KSLVAQQEKA AADVQLRGVP AMFVNGKYQL
NPQGMDTSNM DVFVQQYADT VKYLSEKK
Length

208

Mol. Wt

23.103 kDa

pI

6.3 (calculated)

Extinction coefficient

28,420 - 28,670 (calc based on 8 Y, 3 W, and 2 C residues)

edit table


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

motif

1-19

UniProt Manual:Signal Peptides

UniProt:P0AEG4

Domain

40..198

PF01323 DSBA-like thioredoxin domain

PMID:19920124

edit table

<motif_map/>

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

Structures

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

Models

View models at:

edit table
</protect>

Structure figures

<protect>

</protect>

Notes

Gene Product Resources

[back to top]


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

Resource type Source Notes/Reference
edit table

<protect></protect>

Notes

Accessions in Other Databases

[back to top]


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

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16131701

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948353

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012606

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AEG4

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11297

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11297

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948353

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001270

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1274

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]




Expression

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

[back to top]


See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

E. coli K-12 MC4100

3.09E+03

molecules/cell

  • Medium: median data from rich and minimal media
  • Temperature (°C): 37
  • Doubling time (min): Growth Rate(min):
  • Growth phase: other:

emPAI

PMID:18304323

Protein

Ecoli K-12

8.972+/-0.071

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.186900958

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

11119

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

2628

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

5197

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

edit table

Notes

Transcription and Transcriptional Regulation

[back to top]


<protect>

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

Transcription unit(s)

dsbA

rdoA-dsbA

edit table
Figure courtesy of RegulonDB

</protect>

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

[back to top]


<protect><gbrowseImage> name=NC_000913:4041421..4041461 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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

</protect>

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

[back to top]


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

Allele Name Mutation Phenotype Reference
edit table


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

Type Reference Notes

microarray

GEO Profiles:b3860 (EcoliWiki Page)

NCBI GEO profiles for dsbA

microarray

GenExpDB:b3860 (EcoliWiki Page)

Summary of data for dsbA from multiple microarray studies

edit table


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

Resource Name Resource Type Description Source Notes
edit table

<protect></protect>

Notes

Accessions Related to dsbA Expression

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:EG11297

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1274

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3860

EcoGene

EcoGene:EG11297

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001270

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012606

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]



Evolution

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Homologs in Other Organisms

[back to top]


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

Organism Homologs (Statistics) Comments

Shigella flexneri

DSBA

From SHIGELLACYC

E. coli O157

DSBA

From ECOO157CYC

edit table


Do-It-Yourself Web Tools

<protect></protect>

Notes

Families

[back to top]


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

Database Accession Notes

Pfam (EcoliWiki Page)

PF01323 DSBA-like thioredoxin domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:52833

EcoCyc

EcoCyc:EG11297

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11297

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001270

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1274

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012606

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]



References

[back to top]


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 1.11 1.12 1.13 1.14 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. ↑ 3.00 3.01 3.02 3.03 3.04 3.05 3.06 3.07 3.08 3.09 3.10 3.11 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.0 4.1 4.2 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. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7

Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=dsbA:On_One_Page&oldid=222251"