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

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>

Standard Name	ispU
Gene Synonym(s)	ECK0173, b0174, JW0169, uppS, rth, yaeS^[1], yaeS
Product Desc.	subunit of undecaprenyl diphosphate synthase^[2]^[3]; Component of UPPSYN-CPLX^[2] Undecaprenyl pyrophosphate synthase; dimeric^[4]
Product Synonyms(s)	undecaprenyl pyrophosphate synthase^[1], B0174^[2]^[1], IspU^[2]^[1], Rth^[2]^[1], YaeS^[2]^[1], UppS^[2]^[1] , ECK0173, JW0169, rth, uppS, yaeS, b0174
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s):
Regulation/Activity
Quick Links
edit table

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

Notes

[back to top]

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	ispU
Mnemonic	Isoprenoid
Synonyms	ECK0173, b0174, JW0169, uppS, rth, yaeS^[1], yaeS
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	4.2 minutes	MG1655: 194903..195664 <gbrowseImage> name=NC_000913:194903..195664 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 197745..198506 <gbrowseImage> name=NC_012967:197745..198506 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 194902..195663 <gbrowseImage> name=NC_012759:194902..195663 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 194903..195664 <gbrowseImage> name=NC_007779:194903..195664 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 169007..169768 <gbrowseImage> name=NC_010473:169007..169768 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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	194903	Edman degradation	PMID:9882662
edit table

Notes

Alleles and Phenotypes

[back to top]

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

Allele	AA change(s)	Phenotype: Description	Comments
uppSD26A	D26A	Great decrease in activity	seeded from UniProt:P60472
uppSL137A	L137A	Formation predominantly of a C(70) polymer rather than the C(55) polymer	seeded from UniProt:P60472
uppSD190A	D190A	No effect	seeded from UniProt:P60472
uppSW75A,F	W75A,F	Decrease in activity; reduced affinity for decaprenyl diphosphate substrate analog	seeded from UniProt:P60472
uppSD223A	D223A	No effect	seeded from UniProt:P60472
uppSD218A	D218A	Slight decrease in activity	seeded from UniProt:P60472
uppSW221F	W221F	Decrease in affinity for IPP	seeded from UniProt:P60472
uppSE81A	E81A	Slight decrease in activity	seeded from UniProt:P60472
uppSW31F	W31F	Decrease in activity; reduced affinity for decaprenyl diphosphate substrate analog	seeded from UniProt:P60472
uppSW91F	W91F	Decrease in affinity for IPP	seeded from UniProt:P60472
uppSW149F	W149F	Decrease in affinity for IPP	seeded from UniProt:P60472
uppSA143V	A143V	No effect on polymer length	seeded from UniProt:P60472
uppSI62A	I62A	Formation predominantly of C(60) and C(65) polymers rather than the C(55) polymer	seeded from UniProt:P60472
uppSH103A	H103A	No effect	seeded from UniProt:P60472
uppSA69L	A69L	Produces shorter polymers	seeded from UniProt:P60472
uppSS71A	S71A	Decrease in activity	seeded from UniProt:P60472
uppSE73A	E73A	Slight decrease in activity	seeded from UniProt:P60472
uppSN74A	N74A	Decrease in activity	seeded from UniProt:P60472
uppSR77A	R77A	Decrease in activity	seeded from UniProt:P60472
uppSV105A	V105A	Formation predominantly of C(60), C(65) and C(70) polymers rather than the C(55) polymer	seeded from UniProt:P60472
uppSD150A	D150A	Great decrease in affinity for the substrate	seeded from UniProt:P60472
uppSE198A	E198A	No effect	seeded from UniProt:P60472
uppSW207F	W207F	Decrease in affinity for both IPP and decaprenyl diphosphate substrate analog	seeded from UniProt:P60472
uppSE213A	E213A	Great decrease in activity; reduced affinity for IPP	seeded from UniProt:P60472
edit table

Notes

Genetic Interactions

[back to top]

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
JW0169	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCATGTTGTCTGCTACTCAACC Primer 2:CCGGCTGTTTCATCACCGGGCTC
12D5	Kohara Phage	Genobase	PMID:3038334
E2B8	Kohara Phage	Genobase	PMID:3038334
zad-220::Tn10	Linked marker	CAG12025 = CGSC7326^[5]	est. P1 cotransduction: 12% ^[6]
yafC502::Tn10	Linked marker	CAG18436 = CGSC7328^[5]	est. P1 cotransduction: 22% ^[6] Synonyms:zae-502::Tn10
edit table

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:G6092	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13329	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002712	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:944874	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3113	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000595	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

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	IspU
Synonyms	undecaprenyl pyrophosphate synthase^[1], B0174^[2]^[1], IspU^[2]^[1], Rth^[2]^[1], YaeS^[2]^[1], UppS^[2]^[1] , ECK0173, JW0169, rth, uppS, yaeS, b0174
Product description	subunit of undecaprenyl diphosphate synthase^[2]^[3]; Component of UPPSYN-CPLX^[2] Undecaprenyl pyrophosphate synthase; dimeric^[4]
EC number (for enzymes)	2.5.1.31^[1]
edit table

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:0007047	cellular cell wall organization	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0961	P	Seeded from EcoCyc (v14.0)	complete
	GO:0007049	cell cycle	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0131	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008360	regulation of cell shape	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0133	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008834	di-trans,poly-cis-decaprenylcistransferase activity	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01139	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008834	di-trans,poly-cis-decaprenylcistransferase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:2.5.1.31	F	Seeded from EcoCyc (v14.0)	complete
	GO:0009252	peptidoglycan biosynthetic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0573	P	Seeded from EcoCyc (v14.0)	complete
	GO:0051301	cell division	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0132	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	Subunits of UPPSYN-CPLX	could be indirect
Protein	dxr		PMID:16606699	Experiment(s):EBI-1135792
Protein	tnaA		PMID:16606699	Experiment(s):EBI-1135792
Protein	rpsD		PMID:16606699	Experiment(s):EBI-1135792
Protein	nfnB		PMID:16606699	Experiment(s):EBI-1135792
Protein	aspS		PMID:19402753	MALDI(Z-score):28.179124
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
cytoplasm			From EcoCyc^[3]
edit table

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 MMLSATQPLS EKLPAHGCRH VAIIMDGNGR WAKKQGKIRA FGHKAGAKSV RRAVSFAANN GIEALTLYAF SSENWNRPAQ EVSALMELFV WALDSEVKSL HRHNVRLRII GDTSRFNSRL QERIRKSEAL TAGNTGLTLN IAANYGGRWD IVQGVRQLAE KVQQGNLQPD QIDEEMLNQH VCMHELAPVD LVIRTGGEHR ISNFLLWQIA YAELYFTDVL WPDFDEQDFE GALNAFANRE RRFGGTEPGD ETA
Length	253
Mol. Wt	28.444 kDa
pI	7.0 (calculated)
Extinction coefficient	38,960 - 39,210 (calc based on 4 Y, 6 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
Domain	24..245	PF01255 Putative undecaprenyl diphosphate synthase		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=ispU taxon=562,83333 </beststructure>

Models

View models at:

edit table

</protect>

Structure figures

</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

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:16128167	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:944874	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000595	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P60472	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G6092	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13329	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:944874	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002712	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3113	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

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	Reference(s)
Protein	E. coli K-12 MC4100	3.68E+02	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	830	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	318	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	400	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]

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

Transcription unit(s)
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_000913:194883..194923 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:b0174 (EcoliWiki Page)	NCBI GEO profiles for ispU
microarray	GenExpDB:b0174 (EcoliWiki Page)	Summary of data for ispU 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

Notes

Accessions Related to ispU Expression

[back to top]

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

Database	Accession	Notes
EcoCyc	EcoCyc:G6092	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3113	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0174
EcoGene	EcoGene:EG13329	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002712	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000595	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

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
Anopheles gambiae	ENSANGP00000024653 (score: 1.000; bootstrap: 87%) ENSANGP00000023121 (score: 0.354)	From Inparanoid:20070104
Apis mellifera	ENSAPMP00000000570 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Arabidopsis thaliana	AT5G58770 (score: 1.000; bootstrap: 99%) AT5G58782 (score: 0.185) AT5G58780 (score: 0.168) AT5G58784 (score: 0.154) AT2G23410 (score: 0.127) AT2G23400 (score: 0.062)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000010328 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00028412 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00044025 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000018382 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Ciona intestinalis	ENSCINP00000009910 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Danio rerio	ZDB-GENE-040426-2236 (score: 1.000; bootstrap: 100%) ZDB-CDNA-040425-3183 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0183890 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0029980 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila pseudoobscura	GA10557-PA (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000000525 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Homo sapiens	ENSP00000353104 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000029514 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000017804 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Mus musculus	MGI:1914672 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000038886 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000020051 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Saccharomyces cerevisiae	YBR002C (score: 1.000; bootstrap: 100%) YMR101C (score: 0.092)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPAC4D74c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000171377 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00022730001 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000006031 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Shigella flexneri	YAES	From SHIGELLACYC
E. coli O157	YAES	From ECOO157CYC
edit table

Do-It-Yourself Web Tools

Notes

Families

[back to top]

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

Database	Accession	Notes
Panther (EcoliWiki Page)	PTHR10291:SF0
Superfamily (EcoliWiki Page)	SUPERFAMILY:64005
Pfam (EcoliWiki Page)	PF01255 Putative undecaprenyl diphosphate synthase
EcoCyc	EcoCyc:G6092	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13329	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002712	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3113	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000595	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

References

[back to top]

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

↑ ^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)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 ^2.11 ^2.12 ^2.13 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 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).

ispU:On One Page

Quickview

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 ispU Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

Categories

Navigation menu

Search