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On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

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Standard Name	pqqL
Gene Synonym(s)	ECK1488, b1494, JW1489, pqqE, pqqM, yddC^[1], yddC
Product Desc.	putative zinc peptidase^[2]^[3] Putative secreted zinc protease, function unknown; induced by AI-2 pheromone^[4]
Product Synonyms(s)	predicted peptidase^[1], B1494^[2]^[1], PqqE^[2]^[1], PqqM^[2]^[1], YddC^[2]^[1], PqqL^[2]^[1] , ECK1488, JW1489, pqqE, pqqM, yddC, b1494
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): pqqL^[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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First 26 aa are predicted to be a type I signal peptide. pqqL and yhiJ are paralogs.^[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	pqqL
Mnemonic	Pyrroloquinoline quinone
Synonyms	ECK1488, b1494, JW1489, pqqE, pqqM, yddC^[1], yddC
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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	33.85 minutes	MG1655: 1573226..1570431 <gbrowseImage> name=NC_000913:1570431..1573226 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 1549153..1546358 <gbrowseImage> name=NC_012967:1546358..1549153 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 1462490..1465285 <gbrowseImage> name=NC_012759:1462490..1465285 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 1576916..1574121 <gbrowseImage> name=NC_007779:1574121..1576916 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 1663821..1661026 <gbrowseImage> name=NC_010473:1661026..1663821 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)	Reference	Availability
ΔpqqL (Keio:JW1489)	deletion	deletion	PMID:16738554	Shigen CGSC9293^[5]
ΔpqqL787::kan			PMID:16738554	CGSC:102448
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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
JW1489	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGAGATAATTATGAGAAACCT Primer 2:CCTTTTGGCAATAATACTCCGGT
22E3	Kohara Phage	Genobase	PMID:3038334
zdd-235::Tn10	Linked marker	CAG18461 = CGSC7378^[5]	est. P1 cotransduction: 25% ^[6] Synonyms:zdc-235::Tn10
zdi-925::Tn10	Linked marker	CAG12151 = CGSC7385^[5]	est. P1 cotransduction: % ^[6] Synonyms:zdh-925::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:EG11744	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11744	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001683	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946059	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1695	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0004979	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	PqqL
Synonyms	predicted peptidase^[1], B1494^[2]^[1], PqqE^[2]^[1], PqqM^[2]^[1], YddC^[2]^[1], PqqL^[2]^[1] , ECK1488, JW1489, pqqE, pqqM, yddC, b1494
Product description	putative zinc peptidase^[2]^[3] Putative secreted zinc protease, function unknown; induced by AI-2 pheromone^[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:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011237	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003824	catalytic activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011249	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004222	metalloendopeptidase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001431	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004222	metalloendopeptidase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR007863	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004222	metalloendopeptidase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011765	F	Seeded from EcoCyc (v14.0)	complete
	GO:0006508	proteolysis	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001431	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006508	proteolysis	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR007863	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006508	proteolysis	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011765	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:0008237	metallopeptidase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0482	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008270	zinc ion binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR007863	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008270	zinc ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0862	F	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:0046872	metal ion binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011237	F	Seeded from EcoCyc (v14.0)	complete
	GO:0046872	metal ion binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011249	F	Seeded from EcoCyc (v14.0)	complete
	GO:0046872	metal ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0479	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	dnaK	PMID:16606699	Experiment(s):EBI-1139979
Protein	glnG	PMID:16606699	Experiment(s):EBI-1139979
Protein	ilvA	PMID:16606699	Experiment(s):EBI-1139979
Protein	lysS	PMID:16606699	Experiment(s):EBI-1139979
Protein	rpmB	PMID:19402753	LCMS(ID Probability):99.6
Protein	hupB	PMID:19402753	LCMS(ID Probability):99.6
Protein	dksA	PMID:19402753	LCMS(ID Probability):99.6 MALDI(Z-score):28.524747
Protein	rplA	PMID:19402753	LCMS(ID Probability):99.6
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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 MEIIMRNLCF LLTLVATLLL PGRLIAAALP QDEKLITGQL DNGLRYMIYP HAHPKDQVNL WLQIHTGSLQ EEDNELGVAH FVEHMMFNGT KTWPGNKVIE TFESMGLRFG RDVNAYTSYD ETVYQVSLPT TQKQNLQQVM AIFSEWSNAA TFEKLEVDAE RGVITEEWRA HQDAKWRTSQ ARRPFLLANT RNLDREPIGL MDTVATVTPA QLRQFYQRWY QPNNMTFIVV GDIDSKEALA LIKDNLSKLP ANKAAENRVW PTKAENHLRF NIINDKENRV NGIALYYRLP MVQVNDEQSF IEQAEWSMLV QLFNQRLQER IQSGELKTIS GGTARSVKIA PDYQSLFFRV NARDDNMQDA ANALMAELAT IDQHGFSAEE LDDVKSTRLT WLKNAVDQQA ERDLRMLTSR LASSSLNNTP FLSPEETYQL SKRLWQQITV QSLAEKWQQL RKNQDAFWEQ MVNNEVAAKK ALSPAAILAL EKEYANKKLA AYVFPGRNLS LTVDADPQAE ISSKETLAEN LTSLTLSNGA RVILAKSAGE EQKLQIIAVS NKGDLSFPAQ QKSLIALANK AVSGSGVGEL SSSSLKRWSA ENSVTMSSKV SGMNTLLSVS ARTNNPEPGF QLINQRITHS TINDNIWASL QNAQIQALKT LDQRPAEKFA QQMYETRYAD DRTKLLQENQ IAQFTAADAL AADRQLFSSP ADITFVIVGN VAEDKLVALI TRYLGSIKHS DSPLAAGKPL TRATDNASVT VKEQNEPVAQ VSQWKRYDSR TPVNLPTRMA LDAFNVALAK DLRVNIREQA SGAYSVSSRL SVDPQAKDIS HLLAFTCQPE RHDELLTLAN EVMVKRLAKG ISEQELNEYQ QNVQRSLDIQ QRSVQQLANT IVNSLIQYDD PAAWTEQEQL LKQMTVENVN TAVKQYLSHP VNTYTGVLLP K
Length	931
Mol. Wt	104.657 kDa
pI	6.3 (calculated)
Extinction coefficient	120,780 - 121,030 (calc based on 22 Y, 16 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	206..388	PF05193 Peptidase M16 inactive domain	PMID:19920124
Domain	686..863	PF05193 Peptidase M16 inactive domain	PMID:19920124
Domain	46..204	PF00675 Insulinase (Peptidase family M16)	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=pqqL taxon=562,83333 </beststructure>

Models

View models at:

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</protect>

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:16129453	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946059	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0004979	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P31828	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11744	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11744	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946059	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001683	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1695	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	7.63E+01	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	Ecoli K-12	0.851+/-0.033	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.003398927	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	48	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	30	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	24	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)
pqqL
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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_000913:1573206..1573246 source=MG1655 flip=1 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:b1494 (EcoliWiki Page)	NCBI GEO profiles for pqqL
microarray	GenExpDB:b1494 (EcoliWiki Page)	Summary of data for pqqL 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 pqqL Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11744	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1695	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b1494
EcoGene	EcoGene:EG11744	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001683	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0004979	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	AT5G56730 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q5JKR1 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000007469 (score: 1.000; bootstrap: 100%) ENSXETP00000049969 (score: 0.102)	From Inparanoid:20070104
E. coli O157	PQQL	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
Pfam (EcoliWiki Page)	PF05193 Peptidase M16 inactive domain
Pfam (EcoliWiki Page)	PF05193 Peptidase M16 inactive domain
Panther (EcoliWiki Page)	PTHR11851:SF63
Superfamily (EcoliWiki Page)	SUPERFAMILY:63411
Superfamily (EcoliWiki Page)	SUPERFAMILY:63411
Superfamily (EcoliWiki Page)	SUPERFAMILY:63411
Superfamily (EcoliWiki Page)	SUPERFAMILY:63411
Pfam (EcoliWiki Page)	PF00675 Insulinase (Peptidase family M16)
EcoCyc	EcoCyc:EG11744	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11744	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001683	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1695	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0004979	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 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).

pqqL: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 pqqL Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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