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Gene |

Product(s) |

Expression|

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Standard Name	pldA
Gene Synonym(s)	ECK3815, b3821, JW3794^[1], JW3794
Product Desc.	MONOMER0-341^[2]^[3] Outer-membrane phospholipase A^[4]
Product Synonyms(s)	outer membrane phospholipase A^[1], B3821^[2]^[1], PldA^[2]^[1], OMPLA^[2]^[1], Outer Membrane Phospholipase A precursor^[2]^[1] , ECK3815, JW3794, b3821
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): pldA^[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	pldA
Mnemonic	Phospholipase, detergent resistant
Synonyms	ECK3815, b3821, JW3794^[1], JW3794
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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	86.28 minutes	MG1655: 4002885..4003754 <gbrowseImage> name=NC_000913:4002885..4003754 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3969297..3970166 <gbrowseImage> name=NC_012967:3969297..3970166 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3892554..3893423 <gbrowseImage> name=NC_012759:3892554..3893423 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3631819..3630950 <gbrowseImage> name=NC_007779:3630950..3631819 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 4101805..4102674 <gbrowseImage> name=NC_010473:4101805..4102674 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	4002945	Edman degradation	PMID:6397464
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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
ΔpldA (Keio:JW3794)	deletion	deletion			PMID:16738554	Shigen CGSC10755^[5]
pldAS172F		S172F		Inactive protein			seeded from UniProt:P0A921
pldA1						CGSC:5000
pldA20(del-ins)::kan						CGSC:43525
ΔpldA766::kan					PMID:16738554	CGSC:102378
pldA in strain S17			Resistant to	Mutant deficient in both detergent-resistant phospholipase A and detergent-sensitive phospholipase A are resistant to Actinomycin D in the presence of EDTA.	PMID:104974	Strain: S17
pldA in strain NL101			Resistant to	Resistant to actinomycin D in the presence of EDTA	PMID:104974	Strain: NL101
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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
JW3794	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCCGGACTCTGCAGGGCTGGTT Primer 2:CCAAACAAATCGTTTAGCATAAC
7G3	Kohara Phage	Genobase	PMID:3038334
ilvD500::Tn10	Linked marker	CAG18431 = CGSC7462^[5]	est. P1 cotransduction: 10% ^[6] Synonyms:ilv500::Tn10
metEo-3079::Tn10	Linked marker	CAG18491 = CGSC7464^[5]	est. P1 cotransduction: 82% ^[6] Synonyms:metE3079::Tn10 nnnThe Tn10 in CAG13491 is inserted in the metE regulatory region, but causes a Met- phenotype.
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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:EG10738	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10738	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000729	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948307	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0731	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012479	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	PldA
Synonyms	outer membrane phospholipase A^[1], B3821^[2]^[1], PldA^[2]^[1], OMPLA^[2]^[1], Outer Membrane Phospholipase A precursor^[2]^[1] , ECK3815, JW3794, b3821
Product description	MONOMER0-341^[2]^[3] Outer-membrane phospholipase A^[4]
EC number (for enzymes)	3.1.1.32^[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:0004620	phospholipase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003187	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004623	phospholipase A2 activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:3.1.1.4	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004623	phospholipase A2 activity	PMID:11371166	TAS: Traceable Author Statement		F	Seeded from EcoCyc (v14.0)	complete
	GO:0005509	calcium ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0106	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005509	calcium ion binding	PMID:11371166	IDA: Inferred from Direct Assay		F	Seeded from EcoCyc (v14.0)	complete
	GO:0005886	plasma membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-1003	C	Seeded from EcoCyc (v14.0)	complete
	GO:0006629	lipid metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003187	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008970	phospholipase A1 activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:3.1.1.32	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008970	phospholipase A1 activity	PMID:11371166	TAS: Traceable Author Statement		F	Seeded from EcoCyc (v14.0)	complete
	GO:0009279	cell outer membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0998	C	Seeded from EcoCyc (v14.0)	complete
	GO:0009279	cell outer membrane	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0040	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR003187	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016020	membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0472	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016042	lipid catabolic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0442	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016787	hydrolase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0378	F	Seeded from EcoCyc (v14.0)	complete
	GO:0031230	intrinsic to cell outer membrane	PMID:11371166	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc (v14.0)	complete
	GO:0042803	protein homodimerization activity	PMID:11371166	IDA: Inferred from Direct Assay		F	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	xapR	PMID:16606699	Experiment(s):EBI-1146735
Protein	rimK	PMID:16606699	Experiment(s):EBI-1146735
Protein	dnaC	PMID:16606699	Experiment(s):EBI-1146735
Protein	map	PMID:16606699	Experiment(s):EBI-1146735
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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	PMID:6397464	EchoLocation:pldA
outer membrane		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 MRTLQGWLLP VFMLPMAVYA QEATVKEVHD APAVRGSIIA NMLQEHDNPF TLYPYDTNYL IYTQTSDLNK EAIASYDWAE NARKDEVKFQ LSLAFPLWRG ILGPNSVLGA SYTQKSWWQL SNSEESSPFR ETNYEPQLFL GFATDYRFAG WTLRDVEMGY NHDSNGRSDP TSRSWNRLYT RLMAENGNWL VEVKPWYVVG NTDDNPDITK YMGYYQLKIG YHLGDAVLSA KGQYNWNTGY GGAELGLSYP ITKHVRLYTQ VYSGYGESLI DYNFNQTRVG VGVMLNDLF
Length	289
Mol. Wt	33.163 kDa
pI	5.1 (calculated)
Extinction coefficient	89,270 (calc based on 23 Y, 10 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
motif	1-20	UniProt Manual:Signal Peptides	UniProt:P0A921
Domain	33..286	PF02253 Phospholipase A1		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=pldA 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:16131671	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948307	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012479	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A921	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10738	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10738	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948307	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000729	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0731	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	2.796+/-0.079	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.039700806	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	1175	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	273	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	485	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)
pldA
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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_000913:4002865..4002905 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

</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:b3821 (EcoliWiki Page)	NCBI GEO profiles for pldA
microarray	GenExpDB:b3821 (EcoliWiki Page)	Summary of data for pldA 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 (4002231..4002499) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ06; Well:G12^[7]
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Notes

Accessions Related to pldA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10738	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0731	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3821
EcoGene	EcoGene:EG10738	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000729	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012479	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	PLDA	From SHIGELLACYC
E. coli O157	PLDA	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:56931
Pfam (EcoliWiki Page)	PF02253 Phospholipase A1
EcoCyc	EcoCyc:EG10738	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10738	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000729	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0731	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012479	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 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).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

pldA: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 pldA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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