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Gene |

Product(s) |

Expression|

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Standard Name	sppA
Gene Synonym(s)	ECK1764, b1766, JW1755^[1], JW1755
Product Desc.	SppA^[2]^[3]; Component of protease IV, a signal peptide peptidase^[3] Protease IV; signal peptide peptidase^[4]
Product Synonyms(s)	protease IV (signal peptide peptidase)^[1], B1766^[2]^[1], protease IV^[2]^[1], signal peptide peptidase^[2]^[1] , ECK1764, JW1755, b1766
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): sppA^[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	sppA
Mnemonic	Signal peptide peptidase
Synonyms	ECK1764, b1766, JW1755^[1], JW1755
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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	39.81 minutes	MG1655: 1846861..1848717 <gbrowseImage> name=NC_000913:1846861..1848717 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 1826065..1827921 <gbrowseImage> name=NC_012967:1826065..1827921 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 1738920..1740776 <gbrowseImage> name=NC_012759:1738920..1740776 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1850551..1852407 <gbrowseImage> name=NC_007779:1850551..1852407 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 1937432..1939288 <gbrowseImage> name=NC_010473:1937432..1939288 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
ΔsppA (Keio:JW1755)	deletion	deletion		PMID:16738554	Shigen CGSC8288^[5]
sppAE252H		E252H	(in strain: ECOR 16)			Strain variation; seeded from UniProt:P08395
sppAE252K		E252K	(in strain: ECOR 49)			Strain variation; seeded from UniProt:P08395
sppAE252Q		E252Q	(in strain: ECOR 38, ECOR 39, ECOR 40, ECOR 50, ECOR 65 and ECOR 68)			Strain variation; seeded from UniProt:P08395
sppAA294T		A294T	(in strain: ECOR 38, ECOR 39, ECOR 40, ECOR 49, ECOR 50 and ECOR 65)			Strain variation; seeded from UniProt:P08395
sppAV151I		V151I	(in strain: ECOR 49 and ECOR 50)			Strain variation; seeded from UniProt:P08395
sppAG186S		G186S	(in strain: ECOR 16)			Strain variation; seeded from UniProt:P08395
ΔsppA736::kan				PMID:16738554	CGSC:93038
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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
JW1755	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCCGAACCCTTTGGCGATTTAT Primer 2:CCACGCATGTTGGCGCAGGTCAG
12H7	Kohara Phage	Genobase	PMID:3038334
zdj-276::Tn10	Linked marker	CAG18464 = CGSC7387^[5]	est. P1 cotransduction: 61% ^[6] Synonyms:zdi-276::Tn10
zea-225::Tn10	Linked marker	CAG18465 = CGSC7388^[5]	est. P1 cotransduction: 43% ^[6] Synonyms:zdj-225::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:EG10968	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10968	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000957	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946281	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0961	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005880	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	SppA
Synonyms	protease IV (signal peptide peptidase)^[1], B1766^[2]^[1], protease IV^[2]^[1], signal peptide peptidase^[2]^[1] , ECK1764, JW1755, b1766
Product description	SppA^[2]^[3]; Component of protease IV, a signal peptide peptidase^[3] Protease IV; signal peptide peptidase^[4]
EC number (for enzymes)	3.4.-.-^[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:0031225	anchored to membrane				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0005886	plasma membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0997	C	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:0006465	signal peptide processing	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004634	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006508	proteolysis	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002142	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006508	proteolysis	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004635	P	Seeded from EcoCyc (v14.0)	complete
	GO:0008233	peptidase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002142	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008233	peptidase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004634	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008233	peptidase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004635	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008233	peptidase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0645	F	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:0006465	signal peptide processing	PMID:3294796	IMP: Inferred from Mutant Phenotype		P		complete
	GO:0016020	membrane	PMID:16858726	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004634	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0812	C	Seeded from EcoCyc (v14.0)	complete
	GO:0016021	integral to membrane	GO_REF:0000023	IEA: Inferred from Electronic Annotation	SP_SL:SL-9909	C	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
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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 protease IV, a signal peptide peptidase	could be indirect
Protein	groL		PMID:16606699	Experiment(s):EBI-1140733
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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
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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 MRTLWRFIAG FFKWTWRLLN FVREMVLNLF FIFLVLVGVG IWMQVSGGDS KETASRGALL LDISGVIVDK PDSSQRFSKL SRQLLGASSD RLQENSLFDI VNTIRQAKDD RNITGIVMDL KNFAGGDQPS MQYIGKALKE FRDSGKPVYA VGENYSQGQY YLASFANKIW LSPQGVVDLH GFATNGLYYK SLLDKLKVST HVFRVGTYKS AVEPFIRDDM SPAAREADSR WIGELWQNYL NTVAANRQIP AEQVFPGAQG LLEGLTKTGG DTAKYALENK LVDALASSAE IEKALTKEFG WSKTDKNYRA ISYYDYALKT PADTGDSIGV VFANGAIMDG EETQGNVGGD TTAAQIRDAR LDPKVKAIVL RVNSPGGSVT ASEVIRAELA AARAAGKPVV VSMGGMAASG GYWISTPANY IVANPSTLTG SIGIFGVITT VENSLDSIGV HTDGVSTSPL ADVSITRALP PEAQLMMQLS IENGYKRFIT LVADARHSTP EQIDKIAQGH VWTGQDAKAN GLVDSLGDFD DAVAKAAELA KVKQWHLEYY VDEPTFFDKV MDNMSGSVRA MLPDAFQAML PAPLASVAST VKSESDKLAA FNDPQNRYAF CLTCANMR
Length	618
Mol. Wt	67.22 kDa
pI	5.9 (calculated)
Extinction coefficient	90,300 - 90,550 (calc based on 20 Y, 11 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	References
Domain	140..296	PF01343 Peptidase family S49	PMID:19920124
Domain	391..543	PF01343 Peptidase family S49	PMID:19920124
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<motif_map/>

Structure
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Structures

<beststructure> gene=sppA taxon=562,83333 </beststructure>

Models

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Structure figures

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Notes

Gene Product Resources

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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:16129720	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946281	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005880	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P08395	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10968	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10968	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946281	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000957	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0961	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	547	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	170	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	256	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)
sppA
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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_000913:1846841..1846881 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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:b1766 (EcoliWiki Page)	NCBI GEO profiles for sppA
microarray	GenExpDB:b1766 (EcoliWiki Page)	Summary of data for sppA 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 (1846624..1846907) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ12; Well:D10^[7]
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Notes

Accessions Related to sppA Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10968	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0961	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1766
EcoGene	EcoGene:EG10968	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000957	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005880	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
Arabidopsis thaliana	AT1G73990 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0205381 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q6Z329 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	SPPA	From SHIGELLACYC
E. coli O157	SPPA	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:52096
Superfamily (EcoliWiki Page)	SUPERFAMILY:52096
Panther (EcoliWiki Page)	PTHR10381:SF2
Pfam (EcoliWiki Page)	PF01343 Peptidase family S49
Pfam (EcoliWiki Page)	PF01343 Peptidase family S49
EcoCyc	EcoCyc:EG10968	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10968	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000957	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0961	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0005880	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 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 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

sppA: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 sppA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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