sspA:On One Page

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

Quickview

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Standard Name

sspA

Gene Synonym(s)

ECK3218, b3229, JW3198, pog, ssp[1], ssp

Product Desc.

stringent starvation protein A[2][3]

Activator of phage P1 late genes, stress response protein; glutathione S-transferase homolog[4]

Product Synonyms(s)

stringent starvation protein A[1], B3229[2][1], Pog[2][1], Ssp[2][1], SspA[2][1] , ECK3218, JW3198, pog, ssp, b3229

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): sspAB[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

sspA

Mnemonic

Stringent starvation protein

Synonyms

ECK3218, b3229, JW3198, pog, ssp[1], ssp

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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

72.74 minutes 

MG1655: 3375442..3374804
<gbrowseImage> name=NC_000913:3374804..3375442 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3305318..3304680
<gbrowseImage> name=NC_012967:3304680..3305318 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3261952..3262590
<gbrowseImage> name=NC_012759:3261952..3262590 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3377275..3376637
<gbrowseImage> name=NC_007779:3376637..3377275 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3473187..3472549
<gbrowseImage> name=NC_010473:3472549..3473187 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

3374807

Edman degradation

PMID:3003520
PMID:9298646


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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

sspA(del) (Keio:JW3198)

deletion

deletion

PMID:16738554

Shigen
CGSC10427[5]

sspA::Tn5KAN-I-SceI (FB21076)

Insertion at nt 482 in Minus orientation

PMID:15262929

E. coli Genome Project:FB21076

contains pKD46

sspA757(del)::kan

PMID:16738554

CGSC:103028

sspA(del)::Nmr

Deletion of sspA gene

Resistant to

resistance to Neomycin developed.

PMID:1721886

Was analyzed by southern-blot, see figure 4 for full analyze.

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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

JW3198

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCTGTCGCTGCCAACAAACG

Primer 2:CCACTCCGaCCCAGACGCATTTCACGTTCT

7C8

Kohara Phage

Genobase

PMID:3038334

1E3

Kohara Phage

Genobase

PMID:3038334

zhc-6::Tn10

Linked marker

CAG12153 = CGSC7442[5]

est. P1 cotransduction: 68% [6]
Synonyms:zha-6::Tn10

acrF3083::Tn10

Linked marker

CAG12075 = CGSC7447[5]

est. P1 cotransduction: 18% [6]
Synonyms:zhd-3083::Tn10, zhe-3083::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:EG10977

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10977

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000966

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:944744

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0970

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010594

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

SspA

Synonyms

stringent starvation protein A[1], B3229[2][1], Pog[2][1], Ssp[2][1], SspA[2][1] , ECK3218, JW3198, pog, ssp, b3229

Product description

stringent starvation protein A[2][3]

Activator of phage P1 late genes, stress response protein; glutathione S-transferase homolog[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:0006950

response to stress

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0346

P

Seeded from EcoCyc (v14.0)

complete

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

rpoB

PMID:15690043

Experiment(s):EBI-884735

Protein

rpoC

PMID:15690043

Experiment(s):EBI-884735

Protein

dnaK

PMID:15690043

Experiment(s):EBI-891549

Protein

hrsA

PMID:15690043

Experiment(s):EBI-891549

Protein

lysU

PMID:15690043

Experiment(s):EBI-891549

Protein

groL

PMID:15690043

Experiment(s):EBI-891549

Protein

pflB

PMID:15690043

Experiment(s):EBI-891549

Protein

rplI

PMID:15690043

Experiment(s):EBI-891549

Protein

rpoA

PMID:15690043

Experiment(s):EBI-891549

Protein

serS

PMID:15690043

Experiment(s):EBI-891549

Protein

thiG

PMID:15690043

Experiment(s):EBI-891549

Protein

tyrP

PMID:15690043

Experiment(s):EBI-891549

Protein

ybaT

PMID:15690043

Experiment(s):EBI-891549

Protein

groL

PMID:19402753

LCMS(ID Probability):99.6

Protein

serS

PMID:19402753

LCMS(ID Probability):99.0

Protein

thiG

PMID:19402753

LCMS(ID Probability):99.0

Protein

ybaT

PMID:19402753

LCMS(ID Probability):99.0

Protein

mngA

PMID:19402753

LCMS(ID Probability):99.0

Protein

lysU

PMID:19402753

LCMS(ID Probability):99.0

Protein

tyrP

PMID:19402753

LCMS(ID Probability):99.0

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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

MAVAANKRSV MTLFSGPTDI YSHQVRIVLA EKGVSFEIEH VEKDNPPQDL IDLNPNQSVP
TLVDRELTLW ESRIIMEYLD ERFPHPPLMP VYPVARGESR LYMHRIEKDW YTLMNTIING
SASEADAARK QLREELLAIA PVFGQKPYFL SDEFSLVDCY LAPLLWRLPQ LGIEFSGPGA
KELKGYMTRV FERDSFLASL TEAEREMRLG RS
Length

212

Mol. Wt

24.305 kDa

pI

5.1 (calculated)

Extinction coefficient

28,420 - 28,545 (calc based on 8 Y, 3 W, and 1 C residues)


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

Initiator Methionine

1

Removed

UniProt:P0ACA3

Domain

101..194

PF00043 Glutathione S-transferase, C-terminal domain

PMID:19920124

Domain

9..81

PF02798 Glutathione S-transferase, N-terminal domain

PMID:19920124

<motif_map/>

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

Structures

<beststructure> gene=sspA 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:16131119

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:944744

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010594

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0ACA3

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10977

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10977

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:944744

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000966

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0970

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

1.96E+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

Ecoli K-12

240.998+/-1.244

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.60774+/-0.08443

Molecules/cell

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

by FISH

PMID:20671182

mRNA

Ecoli K-12

0.304858934

Molecules/cell

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

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 EMG2

480

molecules/cell

  • Medium: MOPS glucose minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • Growth phase: Exponential
  • OD: OD600 = 0.2 to 0.25
  • other: aerated

Quantitative protein sequencing

Spot ID: M119

PMID: 9298646

Protein

E. coli K-12 MG1655

12135

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

2668

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

4611

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

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)

sspAB

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_000913:3375422..3375462 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


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

Type Reference Notes

microarray

GEO Profiles:b3229 (EcoliWiki Page)

NCBI GEO profiles for sspA

microarray

GenExpDB:b3229 (EcoliWiki Page)

Summary of data for sspA from multiple microarray studies


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 (3374976..3375461) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ05; Well:G1[7]

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Notes

Accessions Related to sspA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10977

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0970

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3229

EcoGene

EcoGene:EG10977

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000966

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010594

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

  • ENSAPMP00000009071 (score: 1.000; bootstrap: 53%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT1G78380 (score: 1.000; bootstrap: 79%)
  • AT1G17180 (score: 0.734)
  • AT1G78370 (score: 0.707)
  • AT1G78360 (score: 0.675)
  • AT1G78340 (score: 0.667)
  • AT1G17170 (score: 0.653)
  • AT1G78320 (score: 0.631)
  • AT1G17190 (score: 0.610)
  • AT1G53680 (score: 0.528)
  • AT3G43800 (score: 0.463)
  • AT1G10360 (score: 0.220)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000005211 (score: 1.000; bootstrap: 100%)
  • ENSBTAP00000017435 (score: 0.378)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00039326 (score: 1.000; bootstrap: 52%)
  • WBGene00023684 (score: 0.402)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00001790 (score: 1.000; bootstrap: 53%)
  • WBGene00001791 (score: 0.519)
  • WBGene00021817 (score: 0.437)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000015576 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-040718-365 (score: 1.000; bootstrap: 70%)
  • ZDB-CDNA-040718-400 (score: 1.000; bootstrap: 71%)
  • ZDB-CDNA-041114-67 (score: 0.714)
  • ZDB-GENE-041114-67 (score: 0.714)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0035587 (score: 1.000; bootstrap: 46%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA18310-PA (score: 1.000; bootstrap: 51%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000032508 (score: 1.000; bootstrap: 67%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000278062 (score: 1.000; bootstrap: 100%)
  • ENSP00000334683 (score: 0.767)
  • ENSP00000345023 (score: 0.610)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000020110 (score: 1.000; bootstrap: 100%)
  • ENSMMUP00000020113 (score: 0.592)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000006704 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:1341859 (score: 1.000; bootstrap: 60%)

From Inparanoid:20070104

Oryza gramene

  • O24595 (score: 1.000; bootstrap: 69%)
  • Q9SES7 (score: 0.672)
  • Q8RW02 (score: 0.664)
  • Q8RW03 (score: 0.662)
  • Q8RW04 (score: 0.659)
  • Q9FQC0 (score: 0.623)
  • Q9ZP61 (score: 0.618)
  • O65032 (score: 0.611)
  • Q9FUE5 (score: 0.547)
  • Q69RL1 (score: 0.539)
  • Q60DP1 (score: 0.407)
  • Q7Y1E0 (score: 0.071)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000005155 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000026521 (score: 0.765)
  • ENSPTRP00000005157 (score: 0.605)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000017186 (score: 1.000; bootstrap: 100%)
  • ENSRNOP00000016851 (score: 0.499)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000154150 (score: 1.000; bootstrap: 68%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00024925001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000041366 (score: 1.000; bootstrap: 99%)

From Inparanoid:20070104

Shigella flexneri

SSPA

From SHIGELLACYC

E. coli O157

SSPA

From ECOO157CYC


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)

PF00043 Glutathione S-transferase, C-terminal domain

Pfam (EcoliWiki Page)

PF02798 Glutathione S-transferase, N-terminal domain

Superfamily (EcoliWiki Page)

SUPERFAMILY:47616

Superfamily (EcoliWiki Page)

SUPERFAMILY:52833

Panther (EcoliWiki Page)

PTHR11260:SF61

EcoCyc

EcoCyc:EG10977

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10977

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000966

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0970

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010594

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 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 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. 3.0 3.1 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).
  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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