glpC:On One Page

From EcoliWiki
Jump to: navigation, search

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

Quickview

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

<protect>

Standard Name

glpC

Gene Synonym(s)

ECK2235, b2243, JW2237[1], JW2237

Product Desc.

GlpC[2][3];

Component of glycerol-3-phosphate-dehydrogenase, anaerobic[2][3]

sn-Glycerol-3-phosphate dehydrogenase (anaerobic) C subunit[4]

Product Synonyms(s)

sn-glycerol-3-phosphate dehydrogenase (anaerobic), small subunit[1], B2243[2][1], GlpC[2][1] , ECK2235, JW2237, b2243

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): glpABC[2], OP00037

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

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

edit table

</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

[back to top]


glpC was also identified as increasing organic solvent tolerance. HT_Cmplx44_Mem: GlpC+KdgK+YahK.[4]



Gene

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css> <protect>

Nomenclature

[back to top]


See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

glpC

Mnemonic

Glycerol phosphate

Synonyms

ECK2235, b2243, JW2237[1], JW2237

edit table

</protect>

Notes

Location(s) and DNA Sequence

[back to top]


<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

50.73 minutes 

MG1655: 2353543..2354733
<gbrowseImage> name=NC_000913:2353543..2354733 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2302229..2303419
<gbrowseImage> name=NC_012967:2302229..2303419 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2239348..2240538
<gbrowseImage> name=NC_012759:2239348..2240538 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2360191..2361381
<gbrowseImage> name=NC_007779:2360191..2361381 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2444531..2445721
<gbrowseImage> name=NC_010473:2444531..2445721 source=DH10B preset=GeneLocation </gbrowseImage>

edit table

</protect>

Notes

Sequence Features

[back to top]


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

2353543

Edman degradation

PMID:3286606


edit table

<protect></protect>

Notes

Alleles and Phenotypes

[back to top]


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

ΔglpC (Keio:JW2237)

deletion

deletion

PMID:16738554

Shigen
CGSC9803[5]

glpC::Tn5KAN-2 (FB20727)

Insertion at nt 860 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20727

does not contain pKD46

glpC::Tn5KAN-2 (FB20728)

Insertion at nt 860 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20728

contains pKD46

ΔglpC723::kan

PMID:16738554

CGSC:101180


edit table

<protect></protect>

Notes

Genetic Interactions

[back to top]


<protect>

Interactor Interaction Allele Score(s) Reference(s) Accessions Notes
edit table

</protect>

Notes

Genetic Resources

[back to top]


See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW2237

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAATGACACCAGCTTCGAAAA

Primer 2:CCAGCCAGCGCCTGGGCCAGTAG

2E8

Kohara Phage

Genobase

PMID:3038334

22C4

Kohara Phage

Genobase

PMID:3038334

4B4

Kohara Phage

Genobase

PMID:3038334

zfa-723::Tn10

Linked marker

CAG12178 gyrA+ = CGSC7526[5]

est. P1 cotransduction: 70% [6]
Synonyms:zei-723::Tn10, zfa-723::Tn10 nnnThe original CAG12178 was NalR. This is a NalS derivative constructed by S. McAteer (CGSC).

zfb-223::Tn10

Linked marker

CAG18484 = CGSC7406[5]

est. P1 cotransduction: 23% [6]
Synonyms:zej-223::Tn10

edit table

<protect></protect>

Notes

Accessions in Other Databases

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:EG10393

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10393

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000386

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946735

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0388

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007426

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]



Product(s)

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Nomenclature

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

Standard name

GlpC

Synonyms

sn-glycerol-3-phosphate dehydrogenase (anaerobic), small subunit[1], B2243[2][1], GlpC[2][1] , ECK2235, JW2237, b2243

Product description

GlpC[2][3];

Component of glycerol-3-phosphate-dehydrogenase, anaerobic[2][3]

sn-Glycerol-3-phosphate dehydrogenase (anaerobic) C subunit[4]

EC number (for enzymes)
edit table

<protect></protect>

Notes

Function

[back to top]


<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:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0005506

iron ion binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0408

F

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997

C

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0006810

transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc (v14.0)

complete

GO:0009055

electron carrier activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017900

F

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009051

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012285

F

Seeded from EcoCyc (v14.0)

complete

GO:0019898

extrinsic to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9903

C

Seeded from EcoCyc (v14.0)

complete

GO:0022900

electron transport chain

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0249

P

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

GO:0051536

iron-sulfur cluster binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009051

F

Seeded from EcoCyc (v14.0)

complete

GO:0051536

iron-sulfur cluster binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012285

F

Seeded from EcoCyc (v14.0)

complete

GO:0051536

iron-sulfur cluster binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017900

F

Seeded from EcoCyc (v14.0)

complete

GO:0051536

iron-sulfur cluster binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0411

F

Seeded from EcoCyc (v14.0)

complete

GO:0051539

4 iron, 4 sulfur cluster binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0004

F

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009051

P

Seeded from EcoCyc (v14.0)

complete

edit table

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 glycerol-3-phosphate-dehydrogenase, anaerobic

could be indirect

Protein

glnA

PMID:16606699

Experiment(s):EBI-1142312

Protein

groL

PMID:16606699

Experiment(s):EBI-1142312

Protein

tatE

PMID:16606699

Experiment(s):EBI-1142312

Protein

rplP

PMID:19402753

LCMS(ID Probability):99.6

Protein

tig

PMID:19402753

LCMS(ID Probability):99.6

Protein

slyD

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsC

PMID:19402753

LCMS(ID Probability):99.6 MALDI(Z-score):12.455170

Protein

rfaD

PMID:19402753

MALDI(Z-score):39.047686

edit table

</protect>

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:3286606

EchoLocation:glpC


edit table

<protect></protect>

Notes

Structure and Physical Properties

[back to top]


<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 

MNDTSFENCI KCTVCTTACP VSRVNPGYPG PKQAGPDGER LRLKDGALYD EALKYCINCK
RCEVACPSDV KIGDIIQRAR AKYDTTRPSL RNFVLSHTDL MGSVSTPFAP IVNTATSLKP
VRQLLDAALK IDHRRTLPKY SFGTFRRWYR SVAAQQAQYK DQVAFFHGCF VNYNHPQLGK
DLIKVLNAMG TGVQLLSKEK CCGVPLIANG FTDKARKQAI TNVESIREAV GVKGIPVIAT
SSTCTFALRD EYPEVLNVDN KGLRDHIELA TRWLWRKLDE GKTLPLKPLP LKVVYHTPCH
MEKMGWTLYT LELLRNIPGL ELTVLDSQCC GIAGTYGFKK ENYPTSQAIG APLFRQIEES
GADLVVTDCE TCKWQIEMST SLRCEHPITL LAQALA
Length

396

Mol. Wt

44.108 kDa

pI

8.6 (calculated)

Extinction coefficient

46,870 - 49,120 (calc based on 13 Y, 5 W, and 18 C residues)

edit table


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

186..249

PF02754 Cysteine-rich domain

PMID:19920124

Domain

315..377

PF02754 Cysteine-rich domain

PMID:19920124

edit table

<motif_map/>

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

Structures

<beststructure> gene=glpC taxon=562,83333 </beststructure>

Models

View models at:

edit table
</protect>

Structure figures

<protect>

</protect>

Notes

Gene Product Resources

[back to top]


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

Resource type Source Notes/Reference
edit table

<protect></protect>

Notes

Accessions in Other Databases

[back to top]


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

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16130178

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946735

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007426

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A996

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10393

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10393

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946735

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000386

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0388

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]




Expression

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

[back to top]


See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

Ecoli K-12

0.663+/-0.066

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.00210084

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

8a

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

5

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

0a

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

edit table

Notes

Transcription and Transcriptional Regulation

[back to top]


<protect>

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

Transcription unit(s)

glpABC

edit table
Figure courtesy of RegulonDB

</protect>

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

[back to top]


<protect><gbrowseImage> name=NC_000913:2353523..2353563 source=MG1655 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

</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

[back to top]


<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference
edit table


Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b2243 (EcoliWiki Page)

NCBI GEO profiles for glpC

microarray

GenExpDB:b2243 (EcoliWiki Page)

Summary of data for glpC from multiple microarray studies

edit table


Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes
edit table

<protect></protect>

Notes

Accessions Related to glpC Expression

[back to top]


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

Database Accession Notes

EcoCyc

EcoCyc:EG10393

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0388

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2243

EcoGene

EcoGene:EG10393

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000386

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007426

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]



Evolution

[back to top]


{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Homologs in Other Organisms

[back to top]


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

Organism Homologs (Statistics) Comments

Shigella flexneri

GLPC

From SHIGELLACYC

E. coli O157

GLPC

From ECOO157CYC

edit table


Do-It-Yourself Web Tools

<protect></protect>

Notes

Families

[back to top]


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

Database Accession Notes

Pfam (EcoliWiki Page)

PF02754 Cysteine-rich domain

Pfam (EcoliWiki Page)

PF02754 Cysteine-rich domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:46548

EcoCyc

EcoCyc:EG10393

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10393

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000386

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0388

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0007426

Escherichia coli str. K-12 substr. MG1655

edit table

<protect></protect>

Notes

Links

[back to top]



References

[back to top]


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 4.2 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).

Categories

[back to top]


Retrieved from "https://ecoliwiki.org/colipedia/index.php?title=glpC:On_One_Page&oldid=220633"