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On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	prc
Gene Synonym(s)	ECK1829, b1830, JW1819, tsp^[1], tsp
Product Desc.	tail-specific protease^[2]^[3] Periplasmic carboxy-terminal protease with specificity for non-polar C-termini^[4]
Product Synonyms(s)	carboxy-terminal protease for penicillin-binding protein 3^[1], B1830^[2]^[1], Tsp^[2]^[1], Prc^[2]^[1], c-terminal processing peptidase^[2]^[1], protease re^[2]^[1] , ECK1829, JW1819, tsp, b1830
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): prc^[2]
Regulation/Activity
Quick Links
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</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

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Penicillin-binding protein PBP3 is a typical Prc substrate. Prc contains a PDZ domain involved in substrate recognition. Binds TrxA (Kumar, 2004).^[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	prc
Mnemonic	PBP protease, C terminal
Synonyms	ECK1829, b1830, JW1819, tsp^[1], tsp
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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	41.18 minutes	MG1655: 1912840..1910792 <gbrowseImage> name=NC_000913:1910792..1912840 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 1893393..1891345 <gbrowseImage> name=NC_012967:1891345..1893393 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 1802851..1804899 <gbrowseImage> name=NC_012759:1802851..1804899 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1916530..1914482 <gbrowseImage> name=NC_007779:1914482..1916530 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 2003411..2001363 <gbrowseImage> name=NC_010473:2001363..2003411 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	1910795	Edman degradation	PMID:1729701
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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
prc(del) (Keio:JW1819)	deletion	deletion			PMID:16738554	Shigen CGSC9520^[5]
prc::Tn5KAN-2 (FB20464)	Insertion at nt 405 in Plus orientation				PMID:15262929	E. coli Genome Project:FB20464	contains pKD46
prcK477R		K477R		Loss of activity. Perturbs protein structure			seeded from UniProt:P23865
prcK477A,H		K477A,H		Loss of activity. No apparent effect on protein structure			seeded from UniProt:P23865
prcG397A		G397A		Loss of activity. Perturbs protein structure			seeded from UniProt:P23865
prcG398A		G398A		Loss of activity. Perturbs protein structure			seeded from UniProt:P23865
prcS452A		S452A		Loss of activity			seeded from UniProt:P23865
prcS452C		S452C		Reduces activity by over 90%			seeded from UniProt:P23865
prcE455A		E455A		Loss of activity. Perturbs protein structure			seeded from UniProt:P23865
prcD463A		D463A		Loss of activity			seeded from UniProt:P23865
prcD463N		D463N		Reduces activity by 90%			seeded from UniProt:P23865
prcT474A		T474A		Loss of activity. Perturbs protein structure			seeded from UniProt:P23865
prc-755(del)::kan					PMID:16738554	CGSC:102450
prc755(del)::FRT			Mutagenesis rate	Decreased stress-induced mutagenesis (SIM) phenotype.	PMID:23224554	Parental Strain: SMR4562 Experimental Strain: SMR12251	Mutation Rate was comparatively weak, to other strains, with decrease only happening in 33-67% of wild type population.
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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
JW1819	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAACATGTTTTTTAGGCTTAC Primer 2:CCtTTGACGGGAGCGGGTTGTTC
15D5	Kohara Phage	Genobase	PMID:3038334
19H3	Kohara Phage	Genobase	PMID:3038334
zea-225::Tn10	Linked marker	CAG18465 = CGSC7388^[5]	est. P1 cotransduction: 17% ^[6] Synonyms:zdj-225::Tn10
eda-51::Tn10	Linked marker	CAG18486 = CGSC7392^[5]	est. P1 cotransduction: 50% ^[6]
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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:EG10760	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10760	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000751	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946096	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0753	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006090	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	Prc
Synonyms	carboxy-terminal protease for penicillin-binding protein 3^[1], B1830^[2]^[1], Tsp^[2]^[1], Prc^[2]^[1], c-terminal processing peptidase^[2]^[1], protease re^[2]^[1] , ECK1829, JW1819, tsp, b1830
Product description	tail-specific protease^[2]^[3] Periplasmic carboxy-terminal protease with specificity for non-polar C-termini^[4]
EC number (for enzymes)	3.4.21.102^[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:0030288	outer membrane-bounded periplasmic space				C	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0006457	protein folding				P	Seeded from Riley et al 2006 ^[1].	Missing: evidence, reference
	GO:0005515	protein binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001478	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-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:0006508	proteolysis	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004447	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006508	proteolysis	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005151	P	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:0008236	serine-type peptidase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR004447	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008236	serine-type peptidase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005151	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008236	serine-type peptidase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0720	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: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:0030163	protein catabolic process	PMID:8520476	IDA: Inferred from Direct Assay		P		complete
	GO:0006508	proteolysis	PMID:8520476	IDA: Inferred from Direct Assay		P		complete
	GO:0004175	endopeptidase activity	PMID:8520476	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
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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
Periplasm	PMID:1729701	EchoLocation:prc
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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 MNMFFRLTAL AGLLAIAGQT FAVEDITRAD QIPVLKEETQ HATVSERVTS RFTRSHYRQF DLDQAFSAKI FDRYLNLLDY SHNVLLASDV EQFAKKKTEL GDELRSGKLD VFYDLYNLAQ KRRFERYQYA LSVLEKPMDF TGNDTYNLDR SKAPWPKNEA ELNALWDSKV KFDELSLKLT GKTDKEIRET LTRRYKFAIR RLAQTNSEDV FSLAMTAFAR EIDPHTNYLS PRNTEQFNTE MSLSLEGIGA VLQMDDDYTV INSMVAGGPA AKSKAISVGD KIVGVGQTGK PMVDVIGWRL DDVVALIKGP KGSKVRLEIL PAGKGTKTRT VTLTRERIRL EDRAVKMSVK TVGKEKVGVL DIPGFYVGLT DDVKVQLQKL EKQNVSSVII DLRSNGGGAL TEAVSLSGLF IPAGPIVQVR DNNGKVREDS DTDGQVFYKG PLVVLVDRFS ASASEIFAAA MQDYGRALVV GEPTFGKGTV QQYRSLNRIY DQMLRPEWPA LGSVQYTIQK FYRVNGGSTQ RKGVTPDIIM PTGNEETETG EKFEDNALPW DSIDAATYVK SGDLTAFEPE LLKEHNARIA KDPEFQNIMK DIARFNAMKD KRNIVSLNYA VREKENNEDD ATRLARLNER FKREGKPELK KLDDLPKDYQ EPDPYLDETV NIALDLAKLE KARPAEQPAP VK
Length	682
Mol. Wt	76.665 kDa
pI	6.5 (calculated)
Extinction coefficient	60,280 (calc based on 22 Y, 5 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	1-22	UniProt Manual:Signal Peptides	UniProt:P23865
Domain	236..320	PF00595 PDZ domain (Also known as DHR or GLGF)		PMID:19920124
Domain	356..530	PF03572 Peptidase family S41		PMID:19920124
Domain	533..671	PF11818 C-terminal domain of tail specific protease (DUF3340)		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=prc 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:16129784	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946096	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006090	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P23865	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10760	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10760	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946096	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000751	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0753	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 MC4100	2.74E+02	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 MG1655	1482	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	718	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	1003	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)
prc
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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_000913:1912820..1912860 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:b1830 (EcoliWiki Page)	NCBI GEO profiles for prc
microarray	GenExpDB:b1830 (EcoliWiki Page)	Summary of data for prc 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
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Notes

Accessions Related to prc Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10760	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0753	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1830
EcoGene	EcoGene:EG10760	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000751	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006090	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	AT4G17740 (score: 1.000; bootstrap: 100%) AT3G57680 (score: 0.121) AT5G46390 (score: 0.066)	From Inparanoid:20070104
Oryza gramene	Q5ZA08 (score: 1.000; bootstrap: 100%) Q8S3I9 (score: 0.178) Q8S3I8 (score: 0.129) Q5SN67 (score: 0.114) Q40067 (score: 0.104)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000049086 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	PRC	From SHIGELLACYC
E. coli O157	PRC	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:50156
Superfamily (EcoliWiki Page)	SUPERFAMILY:52096
Pfam (EcoliWiki Page)	PF00595 PDZ domain (Also known as DHR or GLGF)
Pfam (EcoliWiki Page)	PF03572 Peptidase family S41
Pfam (EcoliWiki Page)	PF11818 C-terminal domain of tail specific protease (DUF3340)
EcoCyc	EcoCyc:EG10760	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10760	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000751	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0753	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0006090	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 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 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).

prc: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 prc Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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