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Expression|

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Standard Name	panE
Gene Synonym(s)	ECK0419, b0425, JW0415, apbA^[1], apbA
Product Desc.	2-DEHYDROPANTOATE- Ketopantoate reductase, NADPH-dependent; also indirectly involved in the alternative pathway for pyrimidine biosynthesis^[2]
Product Synonyms(s)	2-dehydropantoate reductase, NADPH-specific^[1], B0425^[3]^[1], PanE^[3]^[1], ketopantoate reductase^[3]^[1], 2-dehydropantoate 2-reductase^[3]^[1], (R)-pantoate:NADP+ 2-oxidoreductase^[3]^[1], ApbA^[3]^[1] , apbA, ECK0419, JW0415, b0425
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): yajL^[3]
Regulation/Activity
Quick Links
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Notes

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Sequence verified by mass spectrometry (obs=33870), Met is not clipped. False positive lipoprotein prediction, unprocessed, verified by mass spectrometry.^[2]

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	panE
Mnemonic	Pantothenate
Synonyms	ECK0419, b0425, JW0415, apbA^[1], apbA
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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	9.54 minutes	MG1655: 443739..442828 <gbrowseImage> name=NC_000913:442828..443739 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 412026..412937 <gbrowseImage> name=NC_012967:412026..412937 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 345587..346498 <gbrowseImage> name=NC_012759:345587..346498 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 443739..442828 <gbrowseImage> name=NC_007779:442828..443739 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 383070..382159 <gbrowseImage> name=NC_010473:382159..383070 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: Description	Reference	Availability	Comments
ΔpanE (Keio:JW0415)	deletion	deletion		PMID:16738554	Shigen CGSC8581^[4]
panEE256A		E256A	Increases KM for ketopantoate 1100- fold. Decreases Vmax 40-fold. Loss of activity; when associated with A-176			seeded from UniProt:P0A9J4
panEN98A		N98A	Increases KM for ketopantoate 140- fold. Strongly decreases catalytic activity			seeded from UniProt:P0A9J4
panEK176A		K176A	Increases KM for ketopantoate 1400- fold. Decreases Vmax 230-fold. Loss of activity; when associated with A-256			seeded from UniProt:P0A9J4
panES244A		S244A	Increases KM for ketopantoate 230- fold			seeded from UniProt:P0A9J4
panER31A		R31A	Increases KM for NADP 4-fold			seeded from UniProt:P0A9J4
panEK72A		K72A	Increases KM for NADP 10-fold			seeded from UniProt:P0A9J4
ΔpanE782::kan				PMID:16738554	CGSC:102252
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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
JW0415	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAAAATTACCGTATTGGGATG Primer 2:CCCCAGGGGCGAGGCAAACCAGT
19F6	Kohara Phage	Genobase	PMID:3038334
2H5	Kohara Phage	Genobase	PMID:3038334
tsx-247::Tn10	Linked marker	CAG12148 = CGSC7337^[4]	est. P1 cotransduction: 68% ^[5]
zaj-3054::Tn10	Linked marker	CAG12017 = CGSC7339^[4]	est. P1 cotransduction: 56% ^[5] Synonyms:zba-3054::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:G6239	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13271	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002850	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945065	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3056	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001474	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	PanE
Synonyms	2-dehydropantoate reductase, NADPH-specific^[1], B0425^[3]^[1], PanE^[3]^[1], ketopantoate reductase^[3]^[1], 2-dehydropantoate 2-reductase^[3]^[1], (R)-pantoate:NADP+ 2-oxidoreductase^[3]^[1], ApbA^[3]^[1] , apbA, ECK0419, JW0415, b0425
Product description	2-DEHYDROPANTOATE- Ketopantoate reductase, NADPH-dependent; also indirectly involved in the alternative pathway for pyrimidine biosynthesis^[2]
EC number (for enzymes)	1.1.1.169^[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:0009279	cell outer membrane				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0005737	cytoplasm	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003710	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:0008677	2-dehydropantoate 2-reductase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:1.1.1.169	F	Seeded from EcoCyc (v14.0)	complete
	GO:0050661	NADP or NADPH binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013752	F	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003710	P	Seeded from EcoCyc (v14.0)	complete
	GO:0055114	oxidation reduction	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR013752	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	References	Evidence
Protein	pepD	PMID:16606699	Experiment(s):EBI-1136564
Protein	groL	PMID:16606699	Experiment(s):EBI-1136564
Protein	nadE	PMID:16606699	Experiment(s):EBI-1136564
Protein	sdhA	PMID:16606699	Experiment(s):EBI-1136564
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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		PMID:15174130, PMID:10736170	EchoLocation:panE
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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 MKITVLGCGA LGQLWLTALC KQGHEVQGWL RVPQPYCSVN LVETDGSIFN ESLTANDPDF LATSDLLLVT LKAWQVSDAV KSLASTLPVT TPILLIHNGM GTIEELQNIQ QPLLMGTTTH AARRDGNVII HVANGITHIG PARQQDGDYS YLADILQTVL PDVAWHNNIR AELWRKLAVN CVINPLTAIW NCPNGELRHH PQEIMQICEE VAAVIEREGH HTSAEDLRDY VMQVIDATAE NISSMLQDIR ALRHTEIDYI NGFLLRRARA HGIAVPENTR LFEMVKRKES EYERIGTGLP RPW
Length	303
Mol. Wt	33.87 kDa
pI	5.9 (calculated)
Extinction coefficient	47,440 - 48,190 (calc based on 6 Y, 7 W, and 6 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	References
Domain	3..144	PF02558 Ketopantoate reductase PanE/ApbA	PMID:19920124
Domain	168..289	PF08546 Ketopantoate reductase PanE/ApbA C terminal	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=panE 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:16128410	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945065	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001474	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A9J4	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G6239	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13271	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945065	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002850	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3056	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	Reference(s)
Protein	E. coli K-12 MG1655	589	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	205	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	383	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)
yajL
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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_000913:443719..443759 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:b0425 (EcoliWiki Page)	NCBI GEO profiles for panE
microarray	GenExpDB:b0425 (EcoliWiki Page)	Summary of data for panE 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 (443649..443946) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ09; Well:H6^[6]
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Notes

Accessions Related to panE Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:G6239	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3056	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0425
EcoGene	EcoGene:EG13271	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002850	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001474	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
Saccharomyces cerevisiae	YHR063C (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPBPB2B29c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	APBA	From SHIGELLACYC
E. coli O157	APBA	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)	PF02558 Ketopantoate reductase PanE/ApbA
Superfamily (EcoliWiki Page)	SUPERFAMILY:48179
Superfamily (EcoliWiki Page)	SUPERFAMILY:51735
Panther (EcoliWiki Page)	PTHR21708:SF21
Pfam (EcoliWiki Page)	PF08546 Ketopantoate reductase PanE/ApbA C terminal
EcoCyc	EcoCyc:G6239	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG13271	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002850	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB3056	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001474	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 ^1.11 ^1.12 ^1.13 ^1.14 ^1.15 ^1.16 ^1.17 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^3.00 ^3.01 ^3.02 ^3.03 ^3.04 ^3.05 ^3.06 ^3.07 ^3.08 ^3.09 ^3.10 ^3.11 ^3.12 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 CGSC: The Coli Genetics Stock Center
↑ ^5.0 ^5.1 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).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

panE: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 panE Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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