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On One Page

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Gene |

Product(s) |

Expression|

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Standard Name	dmsB
Gene Synonym(s)	ECK0886, b0895, JW0878^[1], JW0878
Product Desc.	dimethyl sulfoxide reductase, chain B^[2]^[3]; Component of dimethyl sulfoxide reductase^[2]^[3] DMSO reductase subunit B; apparent Fe-S binding subunit; anaerobic^[4]
Product Synonyms(s)	dimethyl sulfoxide reductase, anaerobic, subunit B^[1], B0895^[2]^[1], DmsB^[2]^[1] , ECK0886, JW0878, b0895
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): dmsABC^[2], OP00026, dms
Regulation/Activity
Quick Links
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Notes

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DmsB is co-exported bound to Tat substrate DmsA.^[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	dmsB
Mnemonic	DMSO reductase
Synonyms	ECK0886, b0895, JW0878^[1], JW0878
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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	20.32 minutes	MG1655: 942637..943254 <gbrowseImage> name=NC_000913:942637..943254 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 960507..961124 <gbrowseImage> name=NC_012967:960507..961124 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 845605..846222 <gbrowseImage> name=NC_012759:845605..846222 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 943836..944453 <gbrowseImage> name=NC_007779:943836..944453 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 996565..997182 <gbrowseImage> name=NC_010473:996565..997182 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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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	942640	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: Description	Reference	Availability	Comments
dmsBC102F,S,W,Y		C102F,S,W,Y	Loss of electron transfer from menaquinol to DMSO			seeded from UniProt:P18776
ΔdmsB (Keio:JW0878)	deletion	deletion		PMID:16738554	Shigen
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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
JW0878	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCACAACCCAGTATGGATTTTT Primer 2:CCCACCTCCTTCGGGTTTGCCAG
E6H3	Kohara Phage	Genobase	PMID:3038334
13E3	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: 88% ^[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:EG10233	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10233	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000227	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945507	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0229	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003046	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	DmsB
Synonyms	dimethyl sulfoxide reductase, anaerobic, subunit B^[1], B0895^[2]^[1], DmsB^[2]^[1] , ECK0886, JW0878, b0895
Product description	dimethyl sulfoxide reductase, chain B^[2]^[3]; Component of dimethyl sulfoxide reductase^[2]^[3] DMSO reductase subunit B; apparent Fe-S binding subunit; anaerobic^[4]
EC number (for enzymes)	1.8.99.-^[1]
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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:0005737	cytoplasm				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:0006810	transport	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0813	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009055	electron carrier activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001450	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009055	electron carrier activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR017900	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:0022900	electron transport chain	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0249	P	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
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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
Protein	cysH		PMID:16606699	Experiment(s):EBI-1138294
Protein	trpA		PMID:16606699	Experiment(s):EBI-1138294
Protein	nadE		PMID:16606699	Experiment(s):EBI-1138294
Protein	groS		PMID:19402753	LCMS(ID Probability):99.6
Protein	dmsA		PMID:19402753	LCMS(ID Probability):99.6 MALDI(Z-score):28.131395
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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
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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 MTTQYGFFID SSRCTGCKTC ELACKDYKDL TPEVSFRRIY EYAGGDWQED NGVWHQNVFA YYLSISCNHC EDPACTKVCP SGAMHKREDG FVVVDEDVCI GCRYCHMACP YGAPQYNETK GHMTKCDGCY DRVAEGKKPI CVESCPLRAL DFGPIDELRK KHGDLAAVAP LPRAHFTKPN IVIKPNANSR PTGDTTGYLA NPKEV
Length	205
Mol. Wt	22.868 kDa
pI	6.6 (calculated)
Extinction coefficient	27,390 - 29,390 (calc based on 11 Y, 2 W, and 16 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
Initiator Methionine	1	Removed	UniProt:P18776
Domain	92..115	PF00037 4Fe-4S 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=dmsB 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:16128862	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945507	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003046	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P18776	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10233	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10233	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945507	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000227	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0229	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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 MG1655	32	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	27	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	16^a	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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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_000913:942617..942657 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:b0895 (EcoliWiki Page)	NCBI GEO profiles for dmsB
microarray	GenExpDB:b0895 (EcoliWiki Page)	Summary of data for dmsB 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
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Notes

Accessions Related to dmsB Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10233	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0229	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0895
EcoGene	EcoGene:EG10233	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000227	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003046	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	DMSB	From SHIGELLACYC
E. coli O157	DMSB	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.

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF00037 4Fe-4S binding domain
Superfamily (EcoliWiki Page)	SUPERFAMILY:54862
EcoCyc	EcoCyc:EG10233	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10233	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000227	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0229	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0003046	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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

↑ ^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)
↑ ^2.0 ^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
↑ ^3.0 ^3.1 ^3.2 ^3.3 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 CGSC: The Coli Genetics Stock Center
↑ ^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).

dmsB:On One Page

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to dmsB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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