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Standard Name	lpxH
Gene Synonym(s)	ECK0517, b0524, JW0513, ybbF^[1], ybbF
Product Desc.	EG12666^[2]^[3] Lipid A biosynthesis, UDP-2,3-diacylglucosamine pyrophosphatase^[4]
Product Synonyms(s)	UDP-2,3-diacylglucosamine pyrophosphatase^[1], B0524^[2]^[1], YbbF^[2]^[1], LpxH^[2]^[1] , ECK0517, JW0513, ybbF, b0524
Function from GO	<GO_nr />
Knock-Out Phenotype	lethal (see PMID:12000771)
Regulation/Expression	transcription unit(s): lpxH^[2]
Regulation/Activity	LPS biosynthesis
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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	lpxH
Mnemonic	Lipid A expression/biosynthesis
Synonyms	ECK0517, b0524, JW0513, ybbF^[1], ybbF
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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	11.91 minutes	MG1655: 553163..552441 <gbrowseImage> name=NC_000913:552441..553163 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 525326..526048 <gbrowseImage> name=NC_012967:525326..526048 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 455201..455923 <gbrowseImage> name=NC_012759:455201..455923 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 553163..552441 <gbrowseImage> name=NC_007779:552441..553163 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 492495..491773 <gbrowseImage> name=NC_010473:491773..492495 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
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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
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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
JW0513	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGCGACACTCTTTATTGCAGA Primer 2:CCAAACGGAAAATGAATCAGCTC
6E7	Kohara Phage	Genobase	PMID:3038334
purK79::Tn10	Linked marker	CAG12171 = CGSC7342^[5]	est. P1 cotransduction: 99% ^[6] Synonyms:purE79::Tn10
dsbG601::Tn10	Linked marker	CAG12149 = CGSC7346^[5]	est. P1 cotransduction: % ^[6] Synonyms:zbd-601::Tn10, zbe-601::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:EG12666	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12666	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002352	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:949053	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2532	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001804	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	LpxH
Synonyms	UDP-2,3-diacylglucosamine pyrophosphatase^[1], B0524^[2]^[1], YbbF^[2]^[1], LpxH^[2]^[1] , ECK0517, JW0513, ybbF, b0524
Product description	EG12666^[2]^[3] Lipid A biosynthesis, UDP-2,3-diacylglucosamine pyrophosphatase^[4]
EC number (for enzymes)	3.6.1.-^[1] LPS biosynthesis
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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	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_00575	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR010138	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0963	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005737	cytoplasm	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0086	C	Seeded from EcoCyc (v14.0)	complete
	GO:0009245	lipid A biosynthetic process	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_00575	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009245	lipid A biosynthetic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR010138	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008758	UDP-2,3-diacylglucosamine hydrolase activity	PMID:12000771	IMP: Inferred from Mutant Phenotype		F		complete
	GO:0009245	lipid A biosynthetic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0441	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009245	lipid A biosynthetic process	PMID:12000771	IMP: Inferred from Mutant Phenotype		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	rplQ	PMID:16606699	Experiment(s):EBI-1137052
Protein	rtcB	PMID:16606699	Experiment(s):EBI-1137052
Protein	ydcS	PMID:16606699	Experiment(s):EBI-1137052
Protein	pheA	PMID:16606699	Experiment(s):EBI-1137052
Protein	dacC	PMID:16606699	Experiment(s):EBI-1137052
Protein	groL	PMID:16606699	Experiment(s):EBI-1137052
Protein	ihfA	PMID:16606699	Experiment(s):EBI-1137052
Protein	fliI	PMID:16606699	Experiment(s):EBI-1137052
Protein	hycF	PMID:16606699	Experiment(s):EBI-1137052
Protein	glpD	PMID:16606699	Experiment(s):EBI-1137052
Protein	hflB	PMID:16606699	Experiment(s):EBI-1137052
Protein	rplD	PMID:16606699	Experiment(s):EBI-1137052
Protein	crl	PMID:16606699	Experiment(s):EBI-1137052
Protein	yneG	PMID:16606699	Experiment(s):EBI-1137052
Protein	intS	PMID:16606699	Experiment(s):EBI-1137052
Protein	rrmA	PMID:16606699	Experiment(s):EBI-1137052
Protein	ygjQ	PMID:16606699	Experiment(s):EBI-1137052
Protein	dadA	PMID:16606699	Experiment(s):EBI-1137052
Protein	rpsS	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpsM	PMID:19402753	LCMS(ID Probability):99.6
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Notes

Localization

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Compartment	Description	Evidence	Reference/Source	Notes
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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 MATLFIADLH LCVEEPAITA GFLRFLAGEA RKADALYILG DLFEAWIGDD DPNPLHRKMA AAIKAVSDSG VPCYFIHGNR DFLLGKRFAR ESGMTLLPEE KVLELYGRRV LIMHGDTLCT DDAGYQAFRA KVHKPWLQTL FLALPLFVRK RIAARMRANS KEANSSKSLA IMDVNQNAVV SAMEKHQVQW LIHGHTHRPA VHELIANQQP AFRVVLGAWH TEGSMVKVTA DDVELIHFPF
Length	240
Mol. Wt	26.894 kDa
pI	7.7 (calculated)
Extinction coefficient	27,960 - 28,335 (calc based on 4 Y, 4 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
Domain	1..199	PF00149 Calcineurin-like phosphoesterase		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=lpxH 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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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:16128508	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:949053	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001804	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P43341	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG12666	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12666	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:949053	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002352	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2532	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	5.421+/-0.105	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
Protein	E. coli K-12 MG1655	214	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	68	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	123	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		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)
lpxH
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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_000913:553143..553183 source=MG1655 flip=1 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:b0524 (EcoliWiki Page)	NCBI GEO profiles for lpxH
microarray	GenExpDB:b0524 (EcoliWiki Page)	Summary of data for lpxH 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 lpxH Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG12666	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2532	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0524
EcoGene	EcoGene:EG12666	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002352	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001804	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
Apis mellifera	ENSAPMP00000023010 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000018343 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	YBBF	From SHIGELLACYC
E. coli O157	YBBF	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)	PF00149 Calcineurin-like phosphoesterase
Superfamily (EcoliWiki Page)	SUPERFAMILY:56300
EcoCyc	EcoCyc:EG12666	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12666	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002352	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2532	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001804	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.

↑ ^1.00 ^1.01 ^1.02 ^1.03 ^1.04 ^1.05 ^1.06 ^1.07 ^1.08 ^1.09 ^1.10 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 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).

lpxH: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 lpxH Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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