greA: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

greA

Gene Synonym(s)

ECK3170, b3181, JW3148[1], JW3148

Product Desc.

transcription elongation factor GreA[2][3]

Transcript cleavage factor[4]

Product Synonyms(s)

transcription elongation factor[1], B3181[2][1], GreA[2][1] , ECK3170, JW3148, b3181

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): greA[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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HT_Cmplx24_Cyt: DksA+GreA. Coiled coil domain.[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

greA

Mnemonic

Growth regulator

Synonyms

ECK3170, b3181, JW3148[1], JW3148

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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

71.69 minutes 

MG1655: 3326737..3326261
<gbrowseImage> name=NC_000913:3326261..3326737 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3263949..3263473
<gbrowseImage> name=NC_012967:3263473..3263949 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3213409..3213885
<gbrowseImage> name=NC_012759:3213409..3213885 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3328570..3328094
<gbrowseImage> name=NC_007779:3328094..3328570 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3424482..3424006
<gbrowseImage> name=NC_010473:3424006..3424482 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

3326261

Edman degradation

PMID:1384037


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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

greA(del) (Keio:JW3148)

deletion

deletion

PMID:16738554

Shigen
CGSC10392[5]

greA::Tn5KAN-I-SceI (FB21062)

Insertion at nt 212 in Plus orientation

PMID:15262929

E. coli Genome Project:FB21062

contains pKD46

greA788(del)::kan

PMID:16738554

CGSC:101248

greA D41N

A single Amino Acid was substituted.

D41N

Gene Expression

Reduced lambda red-mediated recombination

PMID:21453489

See Table 1

greA D41A

A single Amino Acid was changed.

D41A

Gene Expression

Reduced lambda red-mediated recombination

PMID:21453489

See Table 1

greA E44K

A single amino acid is substituted

E44K

Gene Expression

Reduced lambda red-mediated recombination

PMID:21453489

See table 1.

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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

JW3148

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCAAGCTATTCCGATGACCTT

Primer 2:CCaAGGTATTCCACCTTAATTAC

18H7

Kohara Phage

Genobase

PMID:3038334

14F11

Kohara Phage

Genobase

PMID:3038334

aer-3075::Tn10

Linked marker

CAG12152 = CGSC7438[5]

est. P1 cotransduction: % [6]
Synonyms:zgh-3075::Tn10, zgj-3075::Tn10

sfsB203::Tn10

Linked marker

CAG12072 = CGSC7440[5]

est. P1 cotransduction: 85% [6]
Synonyms:zgj-203::Tn10, zha-203::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:EG10415

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10415

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000408

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947696

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0410

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010454

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

GreA

Synonyms

transcription elongation factor[1], B3181[2][1], GreA[2][1] , ECK3170, JW3148, b3181

Product description

transcription elongation factor GreA[2][3]

Transcript cleavage factor[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:0003677

DNA binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00105

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001437

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006359

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018151

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0003711

transcription elongation regulator activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00105

F

Seeded from EcoCyc (v14.0)

complete

GO:0003711

transcription elongation regulator activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001437

F

Seeded from EcoCyc (v14.0)

complete

GO:0003711

transcription elongation regulator activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006359

F

Seeded from EcoCyc (v14.0)

complete

GO:0003711

transcription elongation regulator activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018151

F

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00105

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001437

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR006359

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR018151

P

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

aceE

PMID:15690043

Experiment(s):EBI-883047

Protein

adhE

PMID:15690043

Experiment(s):EBI-883047

Protein

atpD

PMID:15690043

Experiment(s):EBI-883047

Protein

carB

PMID:15690043

Experiment(s):EBI-883047

Protein

clpX

PMID:15690043

Experiment(s):EBI-883047

Protein

dnaK

PMID:15690043

Experiment(s):EBI-883047

Protein

gapA

PMID:15690043

Experiment(s):EBI-883047

Protein

gatZ

PMID:15690043

Experiment(s):EBI-883047

Protein

guaB

PMID:15690043

Experiment(s):EBI-883047

Protein

metE

PMID:15690043

Experiment(s):EBI-883047

Protein

ptsI

PMID:15690043

Experiment(s):EBI-883047

Protein

rho

PMID:15690043

Experiment(s):EBI-883047

Protein

rplB

PMID:15690043

Experiment(s):EBI-883047

Protein

rplD

PMID:15690043

Experiment(s):EBI-883047

Protein

rplE

PMID:15690043

Experiment(s):EBI-883047

Protein

rplJ

PMID:15690043

Experiment(s):EBI-883047

Protein

rplM

PMID:15690043

Experiment(s):EBI-883047

Protein

rpoA

PMID:15690043

Experiment(s):EBI-883047

Protein

rpoB

PMID:15690043

Experiment(s):EBI-883047

Protein

rpoC

PMID:15690043

Experiment(s):EBI-883047

Protein

rpsB

PMID:15690043

Experiment(s):EBI-883047

Protein

rpsE

PMID:15690043

Experiment(s):EBI-883047

Protein

rpsG

PMID:15690043

Experiment(s):EBI-883047

Protein

rpsJ

PMID:15690043

Experiment(s):EBI-883047

Protein

secA

PMID:15690043

Experiment(s):EBI-883047

Protein

thrS

PMID:15690043

Experiment(s):EBI-883047

Protein

tufA

PMID:15690043

Experiment(s):EBI-883047

Protein

yeaG

PMID:15690043

Experiment(s):EBI-883047

Protein

yfiF

PMID:15690043

Experiment(s):EBI-883047

Protein

prs

PMID:16606699

Experiment(s):EBI-1145055

Protein

ybiB

PMID:16606699

Experiment(s):EBI-1145055

Protein

nadE

PMID:16606699

Experiment(s):EBI-1145055

Protein

guaB

PMID:19402753

MALDI(Z-score):17.053160

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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

From EcoCyc[3]


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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 

MTLRGAEKLR EELDFLKSVR RPEIIAAIAE AREHGDLKEN AEYHAAREQQ GFCEGRIKDI
EAKLSNAQVI DVTKMPNNGR VIFGATVTVL NLDSDEEQTY RIVGDDEADF KQNLISVNSP
IARGLIGKEE DDVVVIKTPG GEVEFEVIKV EYL
Length

153

Mol. Wt

17.099 kDa

pI

4.6 (calculated)

Extinction coefficient

4,470 - 4,595 (calc based on 3 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

80..157

PF01272 Transcription elongation factor, GreA/GreB, C-term

PMID:19920124

Domain

1..74

PF03449 domain

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=greA 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:90111554

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947696

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010454

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A6W5

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10415

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10415

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947696

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000408

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0410

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

2.55E+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

9172

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

1510

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

2977

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)

greA

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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_000913:3326717..3326757 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:b3181 (EcoliWiki Page)

NCBI GEO profiles for greA

microarray

GenExpDB:b3181 (EcoliWiki Page)

Summary of data for greA 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 (3326267..3326684) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ09; Well:E9[7]

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Notes

Accessions Related to greA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10415

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0410

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3181

EcoGene

EcoGene:EG10415

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000408

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010454

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

Shigella flexneri

GREA

From SHIGELLACYC

E. coli O157

GREA

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

Pfam (EcoliWiki Page)

PF01272 Transcription elongation factor, GreA/GreB, C-term

Pfam (EcoliWiki Page)

PF03449 domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:46557

Superfamily (EcoliWiki Page)

SUPERFAMILY:54534

EcoCyc

EcoCyc:EG10415

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10415

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000408

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0410

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010454

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 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 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 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).
  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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