glgA: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

glgA

Gene Synonym(s)

ECK3415, b3429, JW3392[1], JW3392

Product Desc.

GlgA[2][3];

Component of glycogen synthase[2][3]

Glycogen synthase[4]

Product Synonyms(s)

glycogen synthase[1], B3429[2][1], GlgA[2][1] , ECK3415, JW3392, b3429

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): glgCAP[2], glgC, glgCAY, OP00164

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

glgA

Mnemonic

Glycogen

Synonyms

ECK3415, b3429, JW3392[1], JW3392

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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

76.83 minutes 

MG1655: 3566056..3564623
<gbrowseImage> name=NC_000913:3564623..3566056 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3499487..3498054
<gbrowseImage> name=NC_012967:3498054..3499487 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3453117..3454550
<gbrowseImage> name=NC_012759:3453117..3454550 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 4072382..4073815
<gbrowseImage> name=NC_007779:4072382..4073815 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3663801..3662368
<gbrowseImage> name=NC_010473:3662368..3663801 source=DH10B 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

Coding Start (SO:0000323)

MG1655

3564623

Edman degradation

PMID:1644773


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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

ΔglgA (Keio:JW3392)

deletion

deletion

PMID:16738554

Shigen
CGSC10525[5]

glgA::Tn5KAN-I-SceI (FB21197)

Insertion at nt 648 in Minus orientation

PMID:15262929

E. coli Genome Project:FB21197

does not contain pKD46

glgA::Tn5KAN-I-SceI (FB21198)

Insertion at nt 648 in Minus orientation

PMID:15262929

E. coli Genome Project:FB21198

contains pKD46

glgA1

CGSC:11078

ΔglgA762::kan

PMID:16738554

CGSC:101138


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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

JW3392

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCAGGTTTTACATGTATGTTC

Primer 2:CCTTTCAAGCGATAGTAAAGCTC

16A5

Kohara Phage

Genobase

PMID:3038334

E5B4

Kohara Phage

Genobase

PMID:3038334

glgP721::Tn10

Linked marker

CAG18638 = CGSC7451[5]

est. P1 cotransduction: 96% [6]
Synonyms:zhg-3086::Tn10, zhh-21::Tn10

zhg-50::Tn10

Linked marker

CAG18450 = CGSC7450[5]

est. P1 cotransduction: 36% [6]
Synonyms:zhf-50::Tn10, zhf-5::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:EG10377

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10377

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000370

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947932

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0372

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011200

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

GlgA

Synonyms

glycogen synthase[1], B3429[2][1], GlgA[2][1] , ECK3415, JW3392, b3429

Product description

GlgA[2][3];

Component of glycogen synthase[2][3]

Glycogen synthase[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:0000271

polysaccharide biosynthetic process

P

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0005978

glycogen biosynthetic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00484

P

Seeded from EcoCyc (v14.0)

complete

GO:0005978

glycogen biosynthetic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0320

P

Seeded from EcoCyc (v14.0)

complete

GO:0009011

starch synthase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00484

F

Seeded from EcoCyc (v14.0)

complete

GO:0009011

starch synthase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011835

F

Seeded from EcoCyc (v14.0)

complete

GO:0009011

starch synthase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.4.1.21

F

Seeded from EcoCyc (v14.0)

complete

GO:0006974

response to DNA damage stimulus

PMID:11967071

IEP: Inferred from Expression Pattern

P

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 glycogen synthase

could be indirect

Protein

groL

PMID:16606699

Experiment(s):EBI-1145872
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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 

MQVLHVCSEM FPLLKTGGLA DVIGALPAAQ IADGVDARVL LPAFPDIRRG VTDAQVVSRR
DTFAGHITLL FGHYNGVGIY LIDAPHLYDR PGSPYHDTNL FAYTDNVLRF ALLGWVGAEM
ASGLDPFWRP DVVHAHDWHA GLAPAYLAAR GRPAKSVFTV HNLAYQGMFY AHHMNDIQLP
WSFFNIHGLE FNGQISFLKA GLYYADHITA VSPTYAREIT EPQFAYGMEG LLQQRHREGR
LSGVLNGVDE KIWSPETDLL LASRYTRDTL EDKAENKRQL QIAMGLKVDD KVPLFAVVSR
LTSQKGLDLV LEALPGLLEQ GGQLALLGAG DPVLQEGFLA AAAEYPGQVG VQIGYHEAFS
HRIMGGADVI LVPSRFEPCG LTQLYGLKYG TLPLVRRTGG LADTVSDCSL ENLADGVASG
FVFEDSNAWS LLRAIRRAFV LWSRPSLWRF VQRQAMAMDF SWQVAAKSYR ELYYRLK
Length

477

Mol. Wt

52.823 kDa

pI

6.6 (calculated)

Extinction coefficient

79,300 - 79,675 (calc based on 20 Y, 9 W, and 3 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

283..448

PF00534 Glycosyl transferases group 1

PMID:19920124

Domain

2..234

PF08323 Starch synthase catalytic domain

PMID:19920124

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

Structures

<beststructure> gene=glgA 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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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:16131303

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947932

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011200

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A6U8

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10377

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10377

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947932

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000370

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0372

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

1.60E+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

168

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

622

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

224

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)

glgCAP

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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_000913:3566036..3566076 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:b3429 (EcoliWiki Page)

NCBI GEO profiles for glgA

microarray

GenExpDB:b3429 (EcoliWiki Page)

Summary of data for glgA 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 glgA Expression

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Database Accession Notes

EcoCyc

EcoCyc:EG10377

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0372

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3429

EcoGene

EcoGene:EG10377

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000370

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011200

Escherichia coli str. K-12 substr. MG1655

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Evolution

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Homologs in Other Organisms

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Organism Homologs (Statistics) Comments

Anopheles gambiae

  • ENSANGP00000000622 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT5G24300 (score: 1.000; bootstrap: 69%)
  • AT3G01180 (score: 0.226)
  • AT1G32900 (score: 0.070)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0231973 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • Q43654 (score: 1.000; bootstrap: 66%)
  • Q9SQH0 (score: 0.995)
  • Q9LEC0 (score: 0.994)
  • Q9SQG9 (score: 0.993)
  • Q9M5A3 (score: 0.967)
  • Q5WA90 (score: 0.786)
  • Q7Y044 (score: 0.784)
  • O49064 (score: 0.782)
  • Q40739 (score: 0.689)
  • Q9SBL2 (score: 0.676)
  • Q7XE48 (score: 0.187)
  • O48899 (score: 0.186)
  • O48900 (score: 0.182)
  • Q6Z2T8 (score: 0.182)
  • Q6RG16 (score: 0.180)
  • Q5DWW9 (score: 0.180)
  • Q9LEE2 (score: 0.170)
  • Q8H1Y8 (score: 0.169)
  • Q9LEE3 (score: 0.167)
  • Q9SPM9 (score: 0.167)
  • Q8H1Y7 (score: 0.166)
  • Q8H1Y9 (score: 0.165)
  • Q9M466 (score: 0.163)
  • O24398 (score: 0.163)
  • Q94LY7 (score: 0.063)
  • Q71F57 (score: 0.063)
  • Q8L699 (score: 0.063)
  • P19395 (score: 0.063)
  • Q42968 (score: 0.062)
  • Q9S7U4 (score: 0.062)
  • Q8GZD6 (score: 0.062)
  • Q8S9C4 (score: 0.061)
  • Q5NKR6 (score: 0.061)
  • Q6L798 (score: 0.061)
  • Q5NKS5 (score: 0.061)
  • Q43134 (score: 0.061)
  • Q9SLS6 (score: 0.060)
  • Q9SXK3 (score: 0.058)
  • Q9FUU6 (score: 0.058)
  • Q8LNZ0 (score: 0.058)
  • P04713 (score: 0.058)
  • Q9SLS9 (score: 0.058)
  • Q5NKP6 (score: 0.057)
  • Q760G1 (score: 0.056)
  • Q6L799 (score: 0.056)
  • P09842 (score: 0.056)
  • Q9S7N5 (score: 0.055)
  • Q84QW7 (score: 0.055)
  • Q7G050 (score: 0.055)
  • Q9SLS7 (score: 0.055)
  • Q5NKR2 (score: 0.055)
  • Q8W2G8 (score: 0.054)
  • Q9SQ51 (score: 0.054)
  • Q43012 (score: 0.054)
  • Q9SQ52 (score: 0.053)
  • Q9SLS8 (score: 0.053)
  • Q6L797 (score: 0.053)
  • Q9SXK4 (score: 0.052)
  • Q9SYU0 (score: 0.051)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAC15271 (score: 1.000; bootstrap: 100%)
  • SPCC12811 (score: 0.487)
  • SPBC16D105 (score: 0.475)
  • SPBC32H83c (score: 0.342)
  • SPCC634 (score: 0.211)

From Inparanoid:20070104

Shigella flexneri

GLGA

From SHIGELLACYC

E. coli O157

GLGA

From ECOO157CYC

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Do-It-Yourself Web Tools

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Notes

Families

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Database Accession Notes

Pfam (EcoliWiki Page)

PF00534 Glycosyl transferases group 1

Panther (EcoliWiki Page)

PTHR12526:SF188

Superfamily (EcoliWiki Page)

SUPERFAMILY:53756

Pfam (EcoliWiki Page)

PF08323 Starch synthase catalytic domain

EcoCyc

EcoCyc:EG10377

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10377

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000370

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0372

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0011200

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. ↑ 1.0 1.1 1.2 1.3 1.4 1.5 1.6 1.7 1.8 1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 2.5 2.6 2.7 2.8 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 5.2 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).

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