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Expression|

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Standard Name	oppA
Gene Synonym(s)	ECK1237, b1243, JW1235^[1], JW1235
Product Desc.	OppA-oligopeptide ABC transporter substrate-binding^[2]^[3]; Component of oligopeptide ABC transporter^[2]^[3] Oligopeptide transport, periplasmic oligopeptide binding protein^[4]
Product Synonyms(s)	oligopeptide transporter subunit^[1], periplasmic-binding component of ABC superfamily^[1], B1243^[2]^[1], OppA^[2]^[1] , ECK1237, JW1235, b1243
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): oppABCDF^[2], OP00313, oppABCD
Regulation/Activity
Quick Links
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Notes

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Polyamine modulon. After four hours of Zn(II) stress, OppA protein levels decreased (Easton, 2006).^[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	oppA
Mnemonic	Oligopeptide permease
Synonyms	ECK1237, b1243, JW1235^[1], JW1235
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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	28 minutes	MG1655: 1299206..1300837 <gbrowseImage> name=NC_000913:1299206..1300837 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 1298776..1300407 <gbrowseImage> name=NC_012967:1298776..1300407 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 1188704..1190335 <gbrowseImage> name=NC_012759:1188704..1190335 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1302896..1304527 <gbrowseImage> name=NC_007779:1302896..1304527 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump

DH10B		DH10B: 1340224..1341855 <gbrowseImage> name=NC_010473:1340224..1341855 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	1299284	Edman degradation	PMID:2187863 PMID:8740179 PMID:9298646 PMID:9600841 PMID:9740056 PMID:10972807
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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
Strain DH10B		N271Y		Nonsynonomous mutation	PMID:18245285	ASAP	This is a SNP in E. coli K-12 Strain DH10B
oppA(del) (Keio:JW1235)	deletion	deletion			PMID:16738554	Shigen CGSC9114^[5]
oppA::Tn5KAN-2 (FB20273)	Insertion at nt 950 in Plus orientation				PMID:15262929	E. coli Genome Project:FB20273	does not contain pKD46
oppA750(del)::kan					PMID:16738554	CGSC:102190
oppA			Resistant to	Resistant to Alanyl-2-aminopropionate	PMID:6389761
oppA in strain PA0112			Resistant to	Resistant to Alanyl-2-aminopropionate	PMID:6389761	Strain PA0112
oppA			Resistant to	Resistant to triornithine	PMID:6296055		Author Statement in page 833
oppA			Resistant to	Resistant to trlysine	PMID:6296055		Author Statement in page 833
oppA			Resistant to	Resistant to norleucyglycylglycine	PMID:6296055		Author Statement in page 833
oppA			Resistant to	Resistant to toxic peptide glycylglycyl-histidinol phosphate ester	PMID:6296055		Author Statement in page 833
oppA ^-			Resistant to	Resistant to Phaseolotixon	PMID:6991475	Strain: PM786,	Table 2. Other strains with same phenotype are described.
oppA ^-			Resistant to	Resistant to Triornithine	PMID:6991475	Strain: PM786	Table 2. Other strains with same phenotype are described.
oppA			Resistant to	Resistant to tripeptide	PMID:376531		table 1
oppA			Resistant to	Resistant to glycylglycyl-N-S-(phosphonoacetyl)-L-ornithine	PMID:376531
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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
JW1235	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCACCAACATCACCAAGAGAAG Primer 2:CCGTGCTTCACAATGTACATATT
3D5	Kohara Phage	Genobase	PMID:3038334
14C4	Kohara Phage	Genobase	PMID:3038334
fadR13::Tn10	Linked marker	CAG18497 = CGSC7365^[5]	est. P1 cotransduction: 3% ^[6]
oppC506::Tn10	Linked marker	CAG12169 = CGSC7369^[5]	est. P1 cotransduction: 86% ^[6] Synonyms:zch-506::Tn10, zci-506::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:EG10674	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10674	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000667	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945830	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0668	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0004172	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	OppA
Synonyms	oligopeptide transporter subunit^[1], periplasmic-binding component of ABC superfamily^[1], B1243^[2]^[1], OppA^[2]^[1] , ECK1237, JW1235, b1243
Product description	OppA-oligopeptide ABC transporter substrate-binding^[2]^[3]; Component of oligopeptide ABC transporter^[2]^[3] Oligopeptide transport, periplasmic oligopeptide binding protein^[4]
EC number (for enzymes)
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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:0005215	transporter activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000914	F	Seeded from EcoCyc (v14.0)	complete
	GO:0006857	oligopeptide transport	PMID:3897225	IDA: Inferred from Direct Assay		P		complete
	GO:0015031	protein transport	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0653	P	Seeded from EcoCyc (v14.0)	complete
	GO:0042597	periplasmic space	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0574	C	Seeded from EcoCyc (v14.0)	complete
	GO:0042597	periplasmic space	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-0200	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005515	protein binding	PMID:3536860	IDA: Inferred from Direct Assay		F		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 oligopeptide ABC transporter	could be indirect
Protein	guaA		PMID:16606699	Experiment(s):EBI-1139299
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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
periplasm		From EcoCyc^[3]
Periplasm	PMID:9298646	EchoLocation:oppA
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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 MTNITKRSLV AAGVLAALMA GNVALAADVP AGVTLAEKQT LVRNNGSEVQ SLDPHKIEGV PESNISRDLF EGLLVSDLDG HPAPGVAESW DNKDAKVWTF HLRKDAKWSD GTPVTAQDFV YSWQRSVDPN TASPYASYLQ YGHIAGIDEI LEGKKPITDL GVKAIDDHTL EVTLSEPVPY FYKLLVHPST SPVPKAAIEK FGEKWTQPGN IVTNGAYTLK DWVVNERIVL ERSPTYWNNA KTVINQVTYL PIASEVTDVN RYRSGEIDMT NNSMPIELFQ KLKKEIPDEV HVDPYLCTYY YEINNQKPPF NDVRVRTALK LGMDRDIIVN KVKAQGNMPA YGYTPPYTDG AKLTQPEWFG WSQEKRNEEA KKLLAEAGYT ADKPLTINLL YNTSDLHKKL AIAASSLWKK NIGVNVKLVN QEWKTFLDTR HQGTFDVARA GWCADYNEPT SFLNTMLSNS SMNTAHYKSP AFDSIMAETL KVTDEAQRTA LYTKAEQQLD KDSAIVPVYY YVNARLVKPW VGGYTGKDPL DNTYTRNMYI VKH
Length	543
Mol. Wt	60.899 kDa
pI	6.5 (calculated)
Extinction coefficient	113,220 - 113,470 (calc based on 28 Y, 13 W, and 2 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	1-26	UniProt Manual:Signal Peptides	UniProt:P23843
Domain	81..464	PF00496 Bacterial extracellular solute-binding proteins, family 5 Middle		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=oppA 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:16129204	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945830	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0004172	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P23843	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10674	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10674	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945830	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000667	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0668	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 MC4100	1.20E+04	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 EMG2	760	molecules/cell	Medium: MOPS glucose minimal Temperature (°C): 37 Doubling time (min): Growth phase: Exponential OD: OD600 = 0.2 to 0.25 other: aerated	Quantitative protein sequencing	Spot ID: M20	PMID: 9298646
Protein	E. coli K-12 EMG2	380	molecules/cell	Medium: MOPS glucose minimal Temperature (°C): 37 Doubling time (min): Growth phase: Exponential OD: OD600 = 0.2 to 0.25 other: aerated	Quantitative protein sequencing	Spot ID: M82	PMID: 9298646
Protein	E. coli K-12 MG1655	21419	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	6516	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	20686	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)
oppABCDF
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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_000913:1299186..1299226 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:b1243 (EcoliWiki Page)	NCBI GEO profiles for oppA
microarray	GenExpDB:b1243 (EcoliWiki Page)	Summary of data for oppA 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 (1298396..1299244) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ15; Well:B7^[7]
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Notes

Accessions Related to oppA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10674	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0668	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1243
EcoGene	EcoGene:EG10674	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000667	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0004172	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
Anopheles gambiae	ENSANGP00000028369 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Apis mellifera	ENSAPMP00000030908 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	OPPA	From SHIGELLACYC
E. coli O157	OPPA	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:53850
Pfam (EcoliWiki Page)	PF00496 Bacterial extracellular solute-binding proteins, family 5 Middle
EcoCyc	EcoCyc:EG10674	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10674	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000667	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0668	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0004172	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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 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 ^3.2 ^3.3 ^3.4 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.
↑ ^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

oppA: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 oppA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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