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Standard Name	glnB
Gene Synonym(s)	ECK2550, b2553, JW2537^[1], JW2537
Product Desc.	PII^[2]^[3], PII-UMP^[2]^[3], Component of PII^[2]^[3] PII regulatory protein for glutamine synthase; potent activator of NRII/GlnL/NtrB phosphatase and inhibitor of NRII autophosphorylation; activates adenylation of GlnA by GlnE^[4]
Product Synonyms(s)	regulatory protein P-II for glutamine synthetase^[1], B2553^[2]^[1],[protein PII]^[2], uridylyl-[protein PII]^[2]^[1] , ECK2550, JW2537, b2553
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): glnB^[2], OP00126
Regulation/Activity
Quick Links
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Notes

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GlnB is the archetypal PII protein; a ubiquitous family of small trimeric signal transduction proteins that facilitate regulation of bacterial nitrogen metabolism by controlling the activities of a variety of enzymes, transcription factors and membrane proteins. In nitrogen limitation GlnB 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. GlnB interacts with and regulates the activities of the histidine protein kinase NtrB, which controls phosphorylation of NtrC. It also regulates the activity of adenylyltransferase (GlnE) which in turn regulates the activity of glutamine synthetase (GlnA). glnK is a glnB paralog. [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	glnB
Mnemonic	Glutamine
Synonyms	ECK2550, b2553, JW2537^[1], JW2537
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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	57.87 minutes	MG1655: 2685430..2685092 <gbrowseImage> name=NC_000913:2685092..2685430 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2608107..2607769 <gbrowseImage> name=NC_012967:2607769..2608107 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2570897..2571235 <gbrowseImage> name=NC_012759:2570897..2571235 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 2686064..2685726 <gbrowseImage> name=NC_007779:2685726..2686064 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 2777195..2776857 <gbrowseImage> name=NC_010473:2776857..2777195 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	2685092	Edman degradation	PMID:8293810
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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	Comments
ΔglnB (Keio:JW2537)	deletion	deletion	PMID:16738554	Shigen CGSC10020^[5]
glnB::Tn5KAN-I-SceI (FB20849)	Insertion at nt 216 in Minus orientation		PMID:15262929	E. coli Genome Project:FB20849	contains pKD46
glnB::Tn5KAN-I-SceI (FB20850)	Insertion at nt 216 in Minus orientation		PMID:15262929	E. coli Genome Project:FB20850	does not contain pKD46
ΔglnB727::kan			PMID:16738554	CGSC:101156
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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
JW2537	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAAAAAGATTGATGCGATTAT Primer 2:CCAATTGCCGCGTCGTCCTCTTC
8E12	Kohara Phage	Genobase	PMID:3038334
6H2	Kohara Phage	Genobase	PMID:3038334
zfh-208::Tn10	Linked marker	CAG18481 = CGSC7417^[5]	est. P1 cotransduction: 45% ^[6] Synonyms:zff-208::Tn10
nadB51::Tn10	Linked marker	CAG18480 = CGSC7419^[5]	est. P1 cotransduction: 40% ^[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:EG10384	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10384	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000377	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947016	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0379	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008398	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	GlnB
Synonyms	regulatory protein P-II for glutamine synthetase^[1], B2553^[2]^[1],[protein PII]^[2], uridylyl-[protein PII]^[2]^[1] , ECK2550, JW2537, b2553
Product description	PII^[2]^[3], PII-UMP^[2]^[3], Component of PII^[2]^[3] PII regulatory protein for glutamine synthase; potent activator of NRII/GlnL/NtrB phosphatase and inhibitor of NRII autophosphorylation; activates adenylation of GlnA by GlnE^[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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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 PII	could be indirect
Protein	rpoB		PMID:15690043	Experiment(s):EBI-887634
Protein	tig		PMID:15690043	Experiment(s):EBI-887634
Protein	yjgD		PMID:15690043	Experiment(s):EBI-887025
Protein	rplB		PMID:16606699	Experiment(s):EBI-1143235
Protein	rpsB		PMID:16606699	Experiment(s):EBI-1143235
Protein	adk		PMID:16606699	Experiment(s):EBI-1143235
Protein	nadE		PMID:16606699	Experiment(s):EBI-1143235
Protein	ybiA		PMID:16606699	Experiment(s):EBI-1143235
Protein	rplA		PMID:16606699	Experiment(s):EBI-1143235
Protein	rraB		PMID:19402753	LCMS(ID Probability):99.6
Protein	tig		PMID:19402753	MALDI(Z-score):38.036888
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Notes

Localization

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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 MKKIDAIIKP FKLDDVREAL AEVGITGMTV TEVKGFGRQK GHTELYRGAE YMVDFLPKVK IEIVVPDDIV DTCVDTIIRT AQTGKIGDGK IFVFDVARVI RIRTGEEDDA AI
Length	112
Mol. Wt	12.425 kDa
pI	5.0 (calculated)
Extinction coefficient	2,980 - 3,105 (calc based on 2 Y, 0 W, and 1 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=glnB 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:16130478	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947016	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008398	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A9Z1	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10384	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10384	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947016	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000377	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0379	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	6.64E+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	Ecoli K-12	83.224+/-0.315	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.213017751	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	5206	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	2073	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	2872	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)
glnB
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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_000913:2685410..2685450 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:b2553 (EcoliWiki Page)	NCBI GEO profiles for glnB
microarray	GenExpDB:b2553 (EcoliWiki Page)	Summary of data for glnB 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 (2685329..2685518) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ01; Well:F1^[7]
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Notes

Accessions Related to glnB Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10384	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0379	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2553
EcoGene	EcoGene:EG10384	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000377	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008398	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	GLNB	From SHIGELLACYC
E. coli O157	GLNB	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:EG10384	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10384	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000377	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0379	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0008398	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 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 ^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

glnB:On One Page

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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 glnB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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