dmsA:On One Page

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

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Standard Name

dmsA

Gene Synonym(s)

ECK0885, b0894, JW5118[1], JW5118

Product Desc.

dimethyl sulfoxide reductase, chain A[2][3];

Component of dimethyl sulfoxide reductase[2][3]

DMSO reductase subunit A, anaerobic, periplasmic[4]

Product Synonyms(s)

dimethyl sulfoxide reductase, anaerobic, subunit A[1], B0894[2][1], DmsA[2][1] , ECK0885, JW5118, b0894

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): dmsABC[2], OP00026, dms

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

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

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Notes

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Verified Tat substrate: DmsA has a Tat/Sec (Class II) 45 aa signal peptide (Tullman-Ercek, 2007). Bound DmsB is co-exported.[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

dmsA

Mnemonic

DMSO reductase

Synonyms

ECK0885, b0894, JW5118[1], JW5118

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Notes

Location(s) and DNA Sequence

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<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

20.26 minutes 

MG1655: 940182..942626
<gbrowseImage> name=NC_000913:940182..942626 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 958052..960496
<gbrowseImage> name=NC_012967:958052..960496 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 843150..845594
<gbrowseImage> name=NC_012759:843150..845594 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 941381..943825
<gbrowseImage> name=NC_007779:941381..943825 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 994110..996554
<gbrowseImage> name=NC_010473:994110..996554 source=DH10B preset=GeneLocation </gbrowseImage>

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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 Type Strain Genomic Location Evidence Reference Notes

Coding Start (SO:0000323)

MG1655

940317

Edman degradation

PMID:3062312


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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.

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

dmsAR17D

R17D

Not targeted to the membrane, does not support anaerobic growth

seeded from UniProt:P18775

ΔdmsA (Keio:JW5118)

deletion

deletion

PMID:16738554

Shigen
CGSC11186[5]

ΔdmsA789::kan

PMID:16738554

CGSC:100622


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Notes

Genetic Interactions

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

Genetic Resources

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

Resource Resource Type Source Notes/Reference

JW5118

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAAACGAAAATCCCTGATGC

Primer 2:CCaACCTTTTCAACCTGAACAAG

E6H3

Kohara Phage

Genobase

PMID:3038334

zbh-29::Tn10

Linked marker

CAG18493 = CGSC7353[5]

est. P1 cotransduction: % [6]
Synonyms:zbi-29::Tn10

zca-1230::Tn10

Linked marker

CAG18478 = CGSC7356[5]

est. P1 cotransduction: 81% [6]
Synonyms:zbj-1230::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.

Database Accession Notes

EcoCyc

EcoCyc:EG10232

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10232

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000226

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:945508

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0228

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003044

Escherichia coli str. K-12 substr. MG1655

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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

DmsA

Synonyms

dimethyl sulfoxide reductase, anaerobic, subunit A[1], B0894[2][1], DmsA[2][1] , ECK0885, JW5118, b0894

Product description

dimethyl sulfoxide reductase, chain A[2][3];

Component of dimethyl sulfoxide reductase[2][3]

DMSO reductase subunit A, anaerobic, periplasmic[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

GO:0030288

outer membrane-bounded periplasmic space

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0005506

iron ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0408

F

Seeded from EcoCyc (v14.0)

complete

GO:0005506

iron ion binding

PMID:1653010

IMP: Inferred from Mutant Phenotype

F

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0006810

transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:3062312

P

Seeded from EcoCyc (v14.0)

complete

GO:0009055

electron carrier activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006655

F

Seeded from EcoCyc (v14.0)

complete

GO:0009055

electron carrier activity

PMID:8125918

IMP: Inferred from Mutant Phenotype

F

Seeded from EcoCyc (v14.0)

complete

GO:0009061

anaerobic respiration

PMID:2544558

IEP: Inferred from Expression Pattern

P

Seeded from EcoCyc (v14.0)

complete

GO:0009389

dimethyl sulfoxide reductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011888

F

Seeded from EcoCyc (v14.0)

complete

GO:0009390

dimethyl sulfoxide reductase complex

PMID:3280546

IDA: Inferred from Direct Assay

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006655

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006656

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006657

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006963

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

F

Seeded from EcoCyc (v14.0)

complete

GO:0030151

molybdenum ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006657

F

Seeded from EcoCyc (v14.0)

complete

GO:0030151

molybdenum ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011888

F

Seeded from EcoCyc (v14.0)

complete

GO:0030151

molybdenum ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0500

F

Seeded from EcoCyc (v14.0)

complete

GO:0030151

molybdenum ion binding

PMID:1653010

IMP: Inferred from Mutant Phenotype

F

Seeded from EcoCyc (v14.0)

complete

GO:0051539

4 iron, 4 sulfur cluster binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011888

F

Seeded from EcoCyc (v14.0)

complete

GO:0051539

4 iron, 4 sulfur cluster binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0004

F

Seeded from EcoCyc (v14.0)

complete

GO:0051539

4 iron, 4 sulfur cluster binding

PMID:1653010

IMP: Inferred from Mutant Phenotype

F

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011888

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

P

Seeded from EcoCyc (v14.0)

complete

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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

Subunits of dimethyl sulfoxide reductase

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.

Compartment Description Evidence Reference/Source Notes

cytoplasm

Periplasm

PMID:3062312

EchoLocation:dmsA


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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 

MASSALTLPF SRIAHAVDSA IPTKSDEKVI WSACTVNCGS RCPLRMHVVD GEIKYVETDN
TGDDNYDGLH QVRACLRGRS MRRRVYNPDR LKYPMKRVGA RGEGKFERIS WEEAYDIIAT
NMQRLIKEYG NESIYLNYGT GTLGGTMTRS WPPGNTLVAR LMNCCGGYLN HYGDYSSAQI
AEGLNYTYGG WADGNSPSDI ENSKLVVLFG NNPGETRMSG GGVTYYLEQA RQKSNARMII
IDPRYTDTGA GREDEWIPIR PGTDAALVNG LAYVMITENL VDQAFLDKYC VGYDEKTLPA
SAPKNGHYKA YILGEGPDGV AKTPEWASQI TGVPADKIIK LAREIGSTKP AFISQGWGPQ
RHANGEIATR AISMLAILTG NVGINGGNSG AREGSYSLPF VRMPTLENPI QTSISMFMWT
DAIERGPEMT ALRDGVRGKD KLDVPIKMIW NYAGNCLINQ HSEINRTHEI LQDDKKCELI
VVIDCHMTSS AKYADILLPD CTASEQMDFA LDASCGNMSY VIFNDQVIKP RFECKTIYEM
TSELAKRLGV EQQFTEGRTQ EEWMRHLYAQ SREAIPELPT FEEFRKQGIF KKRDPQGHHV
AYKAFREDPQ ANPLTTPSGK IEIYSQALAD IAATWELPEG DVIDPLPIYT PGFESYQDPL
NKQYPLQLTG FHYKSRVHST YGNVDVLKAA CRQEMWINPL DAQKRGIHNG DKVRIFNDRG
EVHIEAKVTP RMMPGVVALG EGAWYDPDAK RVDKGGCINV LTTQRPSPLA KGNPSHTNLV
QVEKV
Length

785

Mol. Wt

87.45 kDa

pI

6.6 (calculated)

Extinction coefficient

123,650 - 125,525 (calc based on 35 Y, 13 W, and 15 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

motif

1-45

UniProt Manual:Signal Peptides

UniProt:P18775

Domain

56..116

PF04879 Molybdopterin oxidoreductase Fe4S4 domain

PMID:19920124

Domain

119..576

PF00384 Molybdopterin oxidoreductase

PMID:19920124

Domain

695..808

PF01568 Molydopterin dinucleotide binding domain

PMID:19920124

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<motif_map/>

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

Structures

<beststructure> gene=dmsA 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:90111183

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945508

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003044

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P18775

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10232

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10232

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945508

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000226

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0228

Escherichia coli str. K-12 substr. MG1655

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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

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

Protein

E. coli K-12 MC4100

8.66E+01

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

E. coli K-12 MG1655

28

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

21

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

12a

molecules/cell/generation

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

Ribosome Profiling

Low confidence in the sequencing data set.

PMID: 24766808

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Notes

Transcription and Transcriptional Regulation

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<protect>

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

Transcription unit(s)

dmsABC

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Figure courtesy of RegulonDB

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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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<protect><gbrowseImage> name=NC_000913:940162..940202 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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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

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

Allele Name Mutation Phenotype Reference
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b0894 (EcoliWiki Page)

NCBI GEO profiles for dmsA

microarray

GenExpDB:b0894 (EcoliWiki Page)

Summary of data for dmsA 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 Name Resource Type Description Source Notes

GFP Fusion

Intergenic region (939869..940323) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ03; Well:G2[7]

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Notes

Accessions Related to dmsA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10232

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0228

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0894

EcoGene

EcoGene:EG10232

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000226

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003044

Escherichia coli str. K-12 substr. MG1655

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Notes

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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.

Organism Homologs (Statistics) Comments

Shigella flexneri

DMSA

From SHIGELLACYC

E. coli O157

DMSA

From ECOO157CYC

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Do-It-Yourself Web Tools

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Notes

Families

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

Database Accession Notes

Pfam (EcoliWiki Page)

PF04879 Molybdopterin oxidoreductase Fe4S4 domain

Pfam (EcoliWiki Page)

PF00384 Molybdopterin oxidoreductase

Pfam (EcoliWiki Page)

PF01568 Molydopterin dinucleotide binding domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:50692

Panther (EcoliWiki Page)

PTHR11615:SF90

Superfamily (EcoliWiki Page)

SUPERFAMILY:53706

EcoCyc

EcoCyc:EG10232

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10232

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000226

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0228

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0003044

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 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 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. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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