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Standard Name	glnK
Gene Synonym(s)	ECK0444, b0450, JW0440, ybaI^[1], ybaI
Product Desc.	[GlnK]^[2]^[3] , uridylyl-[GlnK]^[2]^[3] Component of nitrogen regulatory protein GlnK^[2]^[3] Potent activator of NRII(GlnL/NtrB) phosphatase; trimeric; regulated through NRI/NRII two-component regulatory system; binds to membrane when inhibiting AmtB^[4]
Product Synonyms(s)	nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB^[1], B0450^[2]^[1], YbaI^[2]^[1],unmodified protein PII 2^[2], modified protein PII 2^[2]^[1],[protein PII2]^[2], uridylyl-[protein PII2]^[2]^[1],PII2^[2], uridylyl-[PII2]^[2]^[1], , ECK0444, JW0440, ybaI, b0450
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): glnK-amtB^[2]
Regulation/Activity
Quick Links
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Notes

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glnK is a glnB paralog. Like GlnB, the GlnK protein is a member of the trimeric PII signal transduction protein family. In nitrogen limitation it is subject to post-translational modification by uridylylation (mediated by GlnD) of Tyr51 in the T-loop of each subunit. This modification is reversed in N-sufficient conditions. In ammonium sufficient conditions non-uridylylated GlnK forms a 1:1 complex with the ammonia channel protein AmtB and prevents ammonium uptake through AmtB. Complex formation is reversed by ammonium starvation. [Comment provided by EcoTeam member Mike Merrick, 11.16.06]^[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	glnK
Mnemonic	Glutamine
Synonyms	ECK0444, b0450, JW0440, ybaI^[1], ybaI
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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	10.17 minutes	MG1655: 471822..472160 <gbrowseImage> name=NC_000913:471822..472160 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 444665..445003 <gbrowseImage> name=NC_012967:444665..445003 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 374581..374919 <gbrowseImage> name=NC_012759:374581..374919 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 471822..472160 <gbrowseImage> name=NC_007779:471822..472160 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 411153..411491 <gbrowseImage> name=NC_010473:411153..411491 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: Type	Phenotype: Description	Reference	Availability	Comments
glnK(del) (Keio:JW0440)	deletion	deletion			PMID:16738554	Shigen CGSC8601^[5]
glnK::Tn5KAN-2 (FB20180)	Insertion at nt 248 in Plus orientation				PMID:15262929	E. coli Genome Project:FB20180	does not contain pKD46
glnK736(del)::kan					PMID:16738554	CGSC:101164
glnK736(del)::FRT	deletion		Mutagenesis Rate	Decrease in Stress Induced Mutagenesis (SIM)	PMID:23224554	Parent Strain: SMR4562 Experimental Strain: SMR12227	The mutation conferred a significant decrease in SIM with mutant frequency decreasing from 68 to 89 percent. See table S3 for full experimental results.
SMR4562 yiaG-yfp FRTcatFRT glnK736(del)::FRTKanFRT	Deletion & Insertion		Sigma ^S activity	Decrease in Simga^S activity	PMID:23224554	Parental Strain: SMR10582 Experimental Strain: SMR14281	See table S8 for full experimental results.
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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
JW0440	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAAGCTGGTGACCGTGATAAT Primer 2:CCCAGCGCCGCTTCGTCGGCTTC
7E2	Kohara Phage	Genobase	PMID:3038334
19B7	Kohara Phage	Genobase	PMID:3038334
zaj-3054::Tn10	Linked marker	CAG12017 = CGSC7339^[5]	est. P1 cotransduction: 65% ^[6] Synonyms:zba-3054::Tn10
gsk-3055::Tn10	Linked marker	CAG12154 = CGSC7341^[5]	est. P1 cotransduction: 32% ^[6] Synonyms:zbb-30-55::TnlO, zba-3055::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:EG12191	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12191	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002080	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945087	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2108	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001562	Escherichia coli str. K-12 substr. MG1655
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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	GlnK
Synonyms	nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB^[1], B0450^[2]^[1], YbaI^[2]^[1],unmodified protein PII 2^[2], modified protein PII 2^[2]^[1],[protein PII2]^[2], uridylyl-[protein PII2]^[2]^[1],PII2^[2], uridylyl-[PII2]^[2]^[1], , ECK0444, JW0440, ybaI, b0450
Product description	[GlnK]^[2]^[3] , uridylyl-[GlnK]^[2]^[3] Component of nitrogen regulatory protein GlnK^[2]^[3] Potent activator of NRII(GlnL/NtrB) phosphatase; trimeric; regulated through NRI/NRII two-component regulatory system; binds to membrane when inhibiting AmtB^[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
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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 nitrogen regulatory protein GlnK	could be indirect
Protein	lacZ		PMID:16606699	Experiment(s):EBI-1136726
Protein	mukB		PMID:16606699	Experiment(s):EBI-1136726
Protein	thrS		PMID:16606699	Experiment(s):EBI-1136726
Protein	dnaK		PMID:16606699	Experiment(s):EBI-1136726
Protein	yhgF		PMID:16606699	Experiment(s):EBI-1136726
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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
Cytoplasm		PMID:9720863, PMID:10231487, PMID:11847102, PMID:14668330	EchoLocation:glnK
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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 MKLVTVIIKP FKLEDVREAL SSIGIQGLTV TEVKGFGRQK GHAELYRGAE YSVNFLPKVK IDVAIADDQL DEVIDIVSKA AYTGKIGDGK IFVAELQRVI RIRTGEADEA AL
Length	112
Mol. Wt	12.259 kDa
pI	6.0 (calculated)
Extinction coefficient	4,470 (calc based on 3 Y, 0 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
Domain	4..105	PF00543 Nitrogen regulatory protein P-II		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=glnK 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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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:16128435	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945087	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001562	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0AC55	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG12191	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12191	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945087	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002080	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2108	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 MG1655	0^a	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
Protein	E. coli K-12 MG1655	223	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	0^a	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	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)
glnK-amtB
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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_000913:471802..471842 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

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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:b0450 (EcoliWiki Page)	NCBI GEO profiles for glnK
microarray	GenExpDB:b0450 (EcoliWiki Page)	Summary of data for glnK 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 (471553..471823) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ06; Well:F7^[7]
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Notes

Accessions Related to glnK Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG12191	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2108	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0450
EcoGene	EcoGene:EG12191	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002080	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001562	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	AT4G01900 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q6AUR2 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Shigella flexneri	GLNK	From SHIGELLACYC
E. coli O157	GLNK	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:54913
Pfam (EcoliWiki Page)	PF00543 Nitrogen regulatory protein P-II
EcoCyc	EcoCyc:EG12191	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12191	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002080	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2108	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0001562	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 ^2.13 ^2.14 ^2.15 ^2.16 ^2.17 ^2.18 ^2.19 ^2.20 ^2.21 ^2.22 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 ^3.5 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

glnK:On One Page

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Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

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Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

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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 glnK Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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