glyQ:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

glyQ

Gene Synonym(s)

ECK3548, b3560, JW3531, glySalpha, glySa, cfcA, glyS(A)[1], glyS

Product Desc.

glycyl-tRNA synthetase, α subunit[2][3];

Component of glycyl-tRNA synthetase[2][3]

Glycine--tRNA ligase, alpha-subunit[4]

Product Synonyms(s)

glycine tRNA synthetase, alpha subunit[1], B3560[2][1], CfcA[2][1], GlyQ[2][1], GlyS(A)[2][1] , cfcA, ECK3548, glyS, JW3531, b3560

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): glyQS[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

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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

glyQ

Mnemonic

Glycine

Synonyms

ECK3548, b3560, JW3531, glySalpha, glySa, cfcA, glyS(A)[1], glyS

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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

80.23 minutes 

MG1655: 3723341..3722430
<gbrowseImage> name=NC_000913:3722430..3723341 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3655776..3654865
<gbrowseImage> name=NC_012967:3654865..3655776 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3610756..3611667
<gbrowseImage> name=NC_012759:3610756..3611667 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3915097..3916008
<gbrowseImage> name=NC_007779:3915097..3916008 source=W3110 preset=GeneLocation </gbrowseImage>

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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

Strain DH10B

E48A

Nonsynonomous mutation

PMID:18245285

ASAP

This is a SNP in E. coli K-12 Strain DH10B

glyQ::Tn5KAN-I-SceI (FB21285)

Insertion at nt 254 in Plus orientation

PMID:15262929

E. coli Genome Project:FB21285

contains pKD46

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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

JW3531

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCAAAAGTTTGATACCAGGAC

Primer 2:CCtTTATCTTTGTTGCACATCGG

6F2

Kohara Phage

Genobase

PMID:3038334

zhg-50::Tn10

Linked marker

CAG18450 = CGSC7450[5]

est. P1 cotransduction: % [6]
Synonyms:zhf-50::Tn10, zhf-5::Tn10

zic-4901::Tn10

Linked marker

CAG18492 = CGSC7457[5]

est. P1 cotransduction: % [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:EG10409

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10409

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000402

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948079

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0404

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011626

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

GlyQ

Synonyms

glycine tRNA synthetase, alpha subunit[1], B3560[2][1], CfcA[2][1], GlyQ[2][1], GlyS(A)[2][1] , cfcA, ECK3548, glyS, JW3531, b3560

Product description

glycyl-tRNA synthetase, α subunit[2][3];

Component of glycyl-tRNA synthetase[2][3]

Glycine--tRNA ligase, alpha-subunit[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:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002310

F

Seeded from EcoCyc (v14.0)

complete

GO:0006418

tRNA aminoacylation for protein translation

P

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006194

F

Seeded from EcoCyc (v14.0)

complete

GO:0000166

nucleotide binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0547

F

Seeded from EcoCyc (v14.0)

complete

GO:0004812

aminoacyl-tRNA ligase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0030

F

Seeded from EcoCyc (v14.0)

complete

GO:0004820

glycine-tRNA ligase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00254

F

Seeded from EcoCyc (v14.0)

complete

GO:0004820

glycine-tRNA ligase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002310

F

Seeded from EcoCyc (v14.0)

complete

GO:0004820

glycine-tRNA ligase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006194

F

Seeded from EcoCyc (v14.0)

complete

GO:0004820

glycine-tRNA ligase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:6.1.1.14

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00254

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002310

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006194

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0067

F

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00254

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002310

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006194

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0086

C

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002310

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006194

P

Seeded from EcoCyc (v14.0)

complete

GO:0006412

translation

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0648

P

Seeded from EcoCyc (v14.0)

complete

GO:0006426

glycyl-tRNA aminoacylation

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00254

P

Seeded from EcoCyc (v14.0)

complete

GO:0006426

glycyl-tRNA aminoacylation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002310

P

Seeded from EcoCyc (v14.0)

complete

GO:0006426

glycyl-tRNA aminoacylation

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006194

P

Seeded from EcoCyc (v14.0)

complete

GO:0016874

ligase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0436

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 glycyl-tRNA synthetase

could be indirect

Protein

dnaJ

PMID:15690043

Experiment(s):EBI-882248, EBI-889827

Protein

prc

PMID:15690043

Experiment(s):EBI-882248

Protein

rpsC

PMID:15690043

Experiment(s):EBI-882248

Protein

tufA

PMID:15690043

Experiment(s):EBI-882248

Protein

glpQ

PMID:16606699

Experiment(s):EBI-1146140

Protein

rplD

PMID:15690043

Experiment(s):EBI-889827

Protein

rplF

PMID:15690043

Experiment(s):EBI-889827

Protein

rplM

PMID:15690043

Experiment(s):EBI-889827

Protein

rplP

PMID:15690043

Experiment(s):EBI-889827

Protein

rplS

PMID:15690043

Experiment(s):EBI-889827

Protein

rplU

PMID:15690043

Experiment(s):EBI-889827

Protein

rplV

PMID:15690043

Experiment(s):EBI-889827

Protein

rpmB

PMID:15690043

Experiment(s):EBI-889827

Protein

rpsB

PMID:15690043

Experiment(s):EBI-889827

Protein

rpsE

PMID:15690043

Experiment(s):EBI-889827

Protein

rpsM

PMID:15690043

Experiment(s):EBI-889827

Protein

rpsP

PMID:15690043

Experiment(s):EBI-889827

Protein

rplU

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsP

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplP

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpmB

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplM

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplE

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplF

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplS

PMID:19402753

LCMS(ID Probability):99.6

Protein

nadE

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsM

PMID:19402753

LCMS(ID Probability):99.6

Protein

tufB

PMID:19402753

MALDI(Z-score):32.389344

Protein

dnaJ

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):13.722459

Protein

rplD

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 

MQKFDTRTFQ GLILTLQDYW ARQGCTIVQP LDMEVGAGTS HPMTCLRELG PEPMAAAYVQ
PSRRPTDGRY GENPNRLQHY YQFQVVIKPS PDNIQELYLG SLKELGMDPT IHDIRFVEDN
WENPTLGAWG LGWEVWLNGM EVTQFTYFQQ VGGLECKPVT GEITYGLERL AMYIQGVDSV
YDLVWSDGPL GKTTYGDVFH QNEVEQSTYN FEYADVDFLF TCFEQYEKEA QQLLALENPL
PLPAYERILK AAHSFNLLDA RKAISVTERQ RYILRIRTLT KAVAEAYYAS REALGFPMCN KDK
Length

303

Mol. Wt

34.774 kDa

pI

4.8 (calculated)

Extinction coefficient

59,820 - 60,445 (calc based on 18 Y, 6 W, and 5 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

9..298

PF02091 Glycyl-tRNA synthetase alpha subunit

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=glyQ 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:16131431

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948079

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011626

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P00960

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10409

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10409

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948079

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000402

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0404

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

3.19E+03

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

12365

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

1790

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

4884

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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<protect>

See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

glyQS

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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_000913:3723321..3723361 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

</protect>

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:b3560 (EcoliWiki Page)

NCBI GEO profiles for glyQ

microarray

GenExpDB:b3560 (EcoliWiki Page)

Summary of data for glyQ 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 (3722879..3723546) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ10; Well:F4[7]

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Notes

Accessions Related to glyQ Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10409

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0404

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3560

EcoGene

EcoGene:EG10409

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000402

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011626

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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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

Apis mellifera

  • ENSAPMP00000020462 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000009584 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Shigella flexneri

GLYQ

From SHIGELLACYC

E. coli O157

GLYQ

From ECOO157CYC

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Do-It-Yourself Web Tools

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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:55681

Pfam (EcoliWiki Page)

PF02091 Glycyl-tRNA synthetase alpha subunit

PFAM (EcoliWiki Page)

PFAM:PF02091

EcoCyc

EcoCyc:EG10409

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10409

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000402

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0404

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011626

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 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. ↑ 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. ↑ 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. ↑ 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. ↑ 5.0 5.1 CGSC: The Coli Genetics Stock Center
  6. ↑ 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).
  7. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

Categories

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