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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	otsA
Gene Synonym(s)	ECK1895, b1896, JW5312, pexA^[1], pexA
Product Desc.	TREHALOSE6PSYN^[2]^[3] Trehalose phosphate synthase; cold- and heat- induced; required for viability at 4C; rpoS regulon^[4]
Product Synonyms(s)	trehalose-6-phosphate synthase^[1], B1896^[2]^[1], OtsA^[2]^[1] , ECK1895, JW5312, pexA, b1896
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): otsBA^[2], otsA^[2]
Regulation/Activity
Quick Links
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Notes

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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	otsA
Mnemonic	Osmoregulated trehalose synthesis
Synonyms	ECK1895, b1896, JW5312, pexA^[1], pexA
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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	42.64 minutes	MG1655: 1979636..1978212 <gbrowseImage> name=NC_000913:1978212..1979636 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 1959606..1958182 <gbrowseImage> name=NC_012967:1958182..1959606 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 1870695..1872119 <gbrowseImage> name=NC_012759:1870695..1872119 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1983749..1982325 <gbrowseImage> name=NC_007779:1982325..1983749 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 2070644..2069220 <gbrowseImage> name=NC_010473:2069220..2070644 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	1978215	Edman degradation	PMID:8045430
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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
ΔotsA (Keio:JW5312)	deletion	deletion			PMID:16738554	Shigen CGSC11315^[5]
otsA::Tn5KAN-2 (FB20502)	Insertion at nt 621 in Minus orientation				PMID:15262929	E. coli Genome Project:FB20502	contains pKD46
otsA::Tn5KAN-2 (FB20503)	Insertion at nt 621 in Minus orientation				PMID:15262929	E. coli Genome Project:FB20503	does not contain pKD46
ΔotsA::kan	deletion		Biolog:respiration	unable to respire a-Ketobutyrate	PMID:16095938
ΔotsA747::kan					PMID:16738554	CGSC:102208
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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
JW5312	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAGTCGTTTAGTCGTAGTATC Primer 2:CCtGCAAGCTTTGGAAAGGTAGC
7F11	Kohara Phage	Genobase	PMID:3038334
18A9	Kohara Phage	Genobase	PMID:3038334
eda-51::Tn10	Linked marker	CAG18486 = CGSC7392^[5]	est. P1 cotransduction: 11% ^[6]
uvrC279::Tn10	Linked marker	CAG12156 = CGSC7394^[5]	est. P1 cotransduction: 65% ^[6]
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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:EG11751	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11751	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001689	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946405	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1701	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006318	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	OtsA
Synonyms	trehalose-6-phosphate synthase^[1], B1896^[2]^[1], OtsA^[2]^[1] , ECK1895, JW5312, pexA, b1896
Product description	TREHALOSE6PSYN^[2]^[3] Trehalose phosphate synthase; cold- and heat- induced; required for viability at 4C; rpoS regulon^[4]
EC number (for enzymes)	2.4.1.15^[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:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001830	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003825	alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR012766	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003825	alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:2.4.1.15	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005992	trehalose biosynthetic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001830	P	Seeded from EcoCyc (v14.0)	complete
	GO:0005992	trehalose biosynthetic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR012766	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006950	response to stress	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0346	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016740	transferase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0808	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016757	transferase activity, transferring glycosyl groups	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0328	F	Seeded from EcoCyc (v14.0)	complete
	GO:0030955	potassium ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0630	F	Seeded from EcoCyc (v14.0)	complete
	GO:0006974	response to DNA damage stimulus	PMID:11967071	IEP: Inferred from Expression Pattern		P		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	References	Evidence
Protein	rplP	PMID:19402753	LCMS(ID Probability):99.6
Protein	uspG	PMID:19402753	LCMS(ID Probability):99.6
Protein	hupA	PMID:19402753	LCMS(ID Probability):99.6
Protein	rplB	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsP	PMID:19402753	LCMS(ID Probability):99.6
Protein	dps	PMID:19402753	LCMS(ID Probability):99.6
Protein	eno	PMID:19402753	LCMS(ID Probability):99.6
Protein	ptsH	PMID:19402753	LCMS(ID Probability):99.4
Protein	thrC	PMID:19402753	LCMS(ID Probability):99.4
Protein	kdgK	PMID:19402753	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
cytoplasm			From EcoCyc^[3]
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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 MSRLVVVSNR IAPPDEHAAS AGGLAVGILG ALKAAGGLWF GWSGETGNED QPLKKVKKGN ITWASFNLSE QDLDEYYNQF SNAVLWPAFH YRLDLVQFQR PAWDGYLRVN ALLADKLLPL LQDDDIIWIH DYHLLPFAHE LRKRGVNNRI GFFLHIPFPT PEIFNALPTY DTLLEQLCDY DLLGFQTEND RLAFLDCLSN LTRVTTRSAK SHTAWGKAFR TEVYPIGIEP KEIAKQAAGP LPPKLAQLKA ELKNVQNIFS VERLDYSKGL PERFLAYEAL LEKYPQHHGK IRYTQIAPTS RGDVQAYQDI RHQLENEAGR INGKYGQLGW TPLYYLNQHF DRKLLMKIFR YSDVGLVTPL RDGMNLVAKE YVAAQDPANP GVLVLSQFAG AANELTSALI VNPYDRDEVA AALDRALTMS LAERISRHAE MLDVIVKNDI NHWQECFISD LKQIVPRSAE SQQRDKVATF PKLA
Length	474
Mol. Wt	53.612 kDa
pI	6.8 (calculated)
Extinction coefficient	77,810 - 78,185 (calc based on 19 Y, 9 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.

Type	Residues	Description	Notes	References
Initiator Methionine	1	Removed	UniProt:P31677
Domain	2..453	PF00982 Glycosyltransferase family 20		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=otsA 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:16129848	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946405	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006318	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P31677	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11751	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11751	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946405	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001689	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1701	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	Ecoli K-12	43.825+/-0.4	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.110955056	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	43	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	685	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	11^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)
otsBA
otsA
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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_000913:1979616..1979656 source=MG1655 flip=1 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

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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:b1896 (EcoliWiki Page)	NCBI GEO profiles for otsA
microarray	GenExpDB:b1896 (EcoliWiki Page)	Summary of data for otsA 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 otsA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11751	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1701	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1896
EcoGene	EcoGene:EG11751	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001689	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006318	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
Anopheles gambiae	ENSANGP00000021902 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Apis mellifera	ENSAPMP00000007255 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Arabidopsis thaliana	AT1G16980 (score: 1.000; bootstrap: 100%) AT1G17000 (score: 0.634) AT1G78580 (score: 0.599) AT4G27550 (score: 0.572) AT1G06410 (score: 0.133) AT1G23870 (score: 0.131) AT4G17770 (score: 0.123) AT1G70290 (score: 0.119) AT1G60140 (score: 0.117) AT1G68020 (score: 0.117) AT2G18700 (score: 0.105)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00032260 (score: 1.000; bootstrap: 100%) WBGene00025041 (score: 0.469)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00006603 (score: 1.000; bootstrap: 100%) WBGene00006602 (score: 0.479)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0231979 (score: 1.000; bootstrap: 100%) DDB0231987 (score: 0.186) DDB0231988 (score: 0.052)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0027560 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila pseudoobscura	GA17960-PA (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q6ERD9 (score: 1.000; bootstrap: 100%) Q75II7 (score: 1.000; bootstrap: 100%) Q5JNJ1 (score: 0.789) Q9AX07 (score: 0.664) Q8H7S6 (score: 0.658) Q6Z548 (score: 0.520) Q6KAF3 (score: 0.431) Q6ZCH3 (score: 0.413) Q69PA5 (score: 0.353) Q6ZCH2 (score: 0.272)	From Inparanoid:20070104
Saccharomyces cerevisiae	YBR126C (score: 1.000; bootstrap: 98%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPAC3283 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
E. coli O157	OTSA	From ECOO157CYC
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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)	PF00982 Glycosyltransferase family 20
Superfamily (EcoliWiki Page)	SUPERFAMILY:53756
EcoCyc	EcoCyc:EG11751	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11751	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001689	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1701	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006318	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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 ^5.2 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).

otsA: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 otsA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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