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Standard Name	pagP
Gene Synonym(s)	crcA, ECK0615, b0622, JW0617, ybeG^[1]^[2], ybeG
Product Desc.	PagP^[2]^[3]; Component of palmitoyl transferase for Lipid A^[3] Lipid A biosynthesis, outer membrane; transfers a palmitate residue from the sn-1 position of a phospholipid to the N-linked hydroxymyristate on the proximal unit of lipid A (or its precursors); confers resistance to cationic antimicrobial peptides^[4]
Product Synonyms(s)	palmitoyl transferase for Lipid A^[1], B0622^[2]^[1], YbeG^[2]^[1], CrcA^[2]^[1], PagP^[2]^[1] , crcA, ECK0615, JW0617, ybeG, b0622
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): pagP^[2], crcA
Regulation/Activity
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Notes

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Mg(2+) stimulon-PhoPQ regulon, EvgAS-PhoPQ cascade enhanced-expression subset. The phoP-activation phenotype (PagP) was initially characterized in Salmonella then confirmed in E. coli (Jia, 2004). SignalP-NN incorrectly predicts a 27 aa signal peptide, but the verified cleavage site after 25 aa is predicted as a second possible cleavage site by SignalP-NN and as the only cleavage site by the more recent SignalP-HMM predictor (see SignalP button below).^[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	pagP
Mnemonic	PhoP-activated gene
Synonyms	crcA, ECK0615, b0622, JW0617, ybeG^[1]^[2], ybeG
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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	14.13 minutes	MG1655: 655780..656340 <gbrowseImage> name=NC_000913:655780..656340 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
BW2952		NC_012759: 558540..559100 <gbrowseImage> name=NC_012759:558540..559100 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 656979..657539 <gbrowseImage> name=NC_007779:656979..657539 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	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	655855	Edman degradation	PMID:11013210
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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)	Reference	Availability
pagP280::Tn10 (aka crcA280::Tn10)	The Tn10 was shown by sequencing to be at nucleotide 655,952 (14.139 min.) of the MG1655 chromosome. ^[5]		Coli Genetics Stock Center
crcA280::Tn10		PMID:9829956	CGSC:12172
crcA3105::Tn10kan		PMID:2540407 PMID:9829956	CGSC:39389
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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

Plasmid clone

Shigen

PMID:16769691

Status:

Primer 1:

Primer 2:

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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:EG12180	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12180	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002073	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946360	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2097	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002139	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	CrcA
Synonyms	palmitoyl transferase for Lipid A^[1], B0622^[2]^[1], YbeG^[2]^[1], CrcA^[2]^[1], PagP^[2]^[1] , crcA, ECK0615, JW0617, ybeG, b0622
Product description	PagP^[2]^[3]; Component of palmitoyl transferase for Lipid A^[3] Lipid A biosynthesis, outer membrane; transfers a palmitate residue from the sn-1 position of a phospholipid to the N-linked hydroxymyristate on the proximal unit of lipid A (or its precursors); confers resistance to cationic antimicrobial peptides^[4]
EC number (for enzymes)	2.3.1.-^[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:0031230	intrinsic to cell outer membrane				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0009279	cell outer membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011250	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011250	C	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 palmitoyl transferase for Lipid A	could be indirect
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Evidence	Reference/Source
outer membrane
Outer Membrane	PMID:11013210	EchoLocation:crcA
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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 MNVSKYVAIF SFVFIQLISV GKVFANADEW MTTFRENIAQ TWQQPEHYDL YIPAITWHAR FAYDKEKTDR YNERPWGGGF GLSRWDEKGN WHGLYAMAFK DSWNKWEPIA GYGWESTWRP LADENFHLGL GFTAGVTARD NWNYIPLPVL LPLASVGYGP VTFQMTYIPG TYNNGNVYFA WMRFQF
Length	186
Mol. Wt	21.769 kDa
pI	6.5 (calculated)
Extinction coefficient	83,880 (calc based on 12 Y, 12 W, and 0 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	36..183	PF07017 Antimicrobial peptide resistance and lipid A acylation protein PagP		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=pagP 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:16128605	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946360	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002139	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P37001	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG12180	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12180	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946360	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002073	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2097	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	16^a	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
Protein	E. coli K-12 MG1655	6^a	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
Protein	E. coli K-12 MG1655	0^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)
pagP
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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_000913:655760..655800 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:b0622 (EcoliWiki Page)	NCBI GEO profiles for pagP
microarray	GenExpDB:b0622 (EcoliWiki Page)	Summary of data for pagP 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 (655101..655857) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ15; Well:E5^[6]
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Notes

Accessions Related to pagP Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG12180	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2097	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0622
EcoGene	EcoGene:EG12180	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002073	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002139	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	CRCA	From SHIGELLACYC
E. coli O157	CRCA	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
Superfamily (EcoliWiki Page)	SUPERFAMILY:56925
Pfam (EcoliWiki Page)	PF07017 Antimicrobial peptide resistance and lipid A acylation protein PagP
EcoCyc	EcoCyc:EG12180	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12180	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002073	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2097	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002139	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 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 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.
↑ Nichols, BP et al. (1998) Sequence analysis of Tn10 insertion sites in a collection of Escherichia coli strains used for genetic mapping and strain construction. J. Bacteriol. 180 6408-11 PubMed
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

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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 pagP Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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