degQ: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

degQ

Gene Synonym(s)

ECK3223, b3234, JW3203, hhoA[1], hhoA

Product Desc.

serine endoprotease[2]; serine endoprotease, periplasmic[3]

Periplasmic serine endoprotease; multicopy suppressor of prc and degP[4]

Product Synonyms(s)

serine endoprotease, periplasmic[1], B3234[2][1], HhoA[2][1], DegQ[2][1] , ECK3223, hhoA, JW3203, b3234

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): degQ[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

degQ

Mnemonic

Degradative protease

Synonyms

ECK3223, b3234, JW3203, hhoA[1], hhoA

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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

72.82 minutes 

MG1655: 3378765..3380132
<gbrowseImage> name=NC_000913:3378765..3380132 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3308641..3310008
<gbrowseImage> name=NC_012967:3308641..3310008 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3265913..3267280
<gbrowseImage> name=NC_012759:3265913..3267280 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3380598..3381965
<gbrowseImage> name=NC_007779:3380598..3381965 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3476510..3477877
<gbrowseImage> name=NC_010473:3476510..3477877 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

3378846

Edman degradation

PMID:8576051
PMID:8576052
PMID:9740056


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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

ΔdegQ (Keio:JW3203)

deletion

deletion

PMID:16738554

Shigen
CGSC10429[5]

degQ::Tn5KAN-I-SceI (FB21077)

Insertion at nt 833 in Minus orientation

PMID:15262929

E. coli Genome Project:FB21077

contains pKD46

degQ::Tn5KAN-I-SceI (FB21078)

Insertion at nt 833 in Minus orientation

PMID:15262929

E. coli Genome Project:FB21078

does not contain pKD46

ΔdegQ760::kan

PMID:16738554

CGSC:100572


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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

JW3203

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAAAAAACAAACCCAGCTGTT

Primer 2:CCACGCATCAGCAGATAGATGCT

1E3

Kohara Phage

Genobase

PMID:3038334

zhc-6::Tn10

Linked marker

CAG12153 = CGSC7442[5]

est. P1 cotransduction: 59% [6]
Synonyms:zha-6::Tn10

acrF3083::Tn10

Linked marker

CAG12075 = CGSC7447[5]

est. P1 cotransduction: 23% [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:G7682

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12612

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004229

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947812

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2496

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010609

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

DegQ

Synonyms

serine endoprotease, periplasmic[1], B3234[2][1], HhoA[2][1], DegQ[2][1] , ECK3223, hhoA, JW3203, b3234

Product description

serine endoprotease[2]; serine endoprotease, periplasmic[3]

Periplasmic serine endoprotease; multicopy suppressor of prc and degP[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:0031225

anchored to membrane

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR009003

F

Seeded from EcoCyc (v14.0)

complete

GO:0004252

serine-type endopeptidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001254

F

Seeded from EcoCyc (v14.0)

complete

GO:0004252

serine-type endopeptidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001940

F

Seeded from EcoCyc (v14.0)

complete

GO:0004252

serine-type endopeptidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011782

F

Seeded from EcoCyc (v14.0)

complete

GO:0005515

protein binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001478

F

Seeded from EcoCyc (v14.0)

complete

GO:0006508

proteolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001254

P

Seeded from EcoCyc (v14.0)

complete

GO:0006508

proteolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001940

P

Seeded from EcoCyc (v14.0)

complete

GO:0006508

proteolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011782

P

Seeded from EcoCyc (v14.0)

complete

GO:0008233

peptidase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0645

F

Seeded from EcoCyc (v14.0)

complete

GO:0008236

serine-type peptidase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0720

F

Seeded from EcoCyc (v14.0)

complete

GO:0016787

hydrolase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0378

F

Seeded from EcoCyc (v14.0)

complete

GO:0042597

periplasmic space

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0574

C

Seeded from EcoCyc (v14.0)

complete

GO:0042597

periplasmic space

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0200

C

Seeded from EcoCyc (v14.0)

complete

GO:0008233

peptidase activity

PMID:8830688

IDA: Inferred from Direct Assay

F

complete

GO:0004252

serine-type endopeptidase activity

PMID:8576051

IDA: Inferred from Direct Assay

F

complete

GO:0006508

proteolysis

PMID:8576051

ISA: Inferred from Sequence Alignment

UniProtKB:P0C0V0


P

complete

GO:0071575

integral to external side of plasma membrane

PMID:8576051

ISA: Inferred from Sequence Alignment

UniProtKB:P0C0V0


C

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

intA

PMID:16606699

Experiment(s):EBI-1145240

Protein

nfrA

PMID:16606699

Experiment(s):EBI-1145240

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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

periplasm


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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

MKKQTQLLSA LALSVGLTLS ASFQAVASIP GQVADQAPLP SLAPMLEKVL PAVVSVRVEG
TASQGQKIPE EFKKFFGDDL PDQPAQPFEG LGSGVIINAS KGYVLTNNHV INQAQKISIQ
LNDGREFDAK LIGSDDQSDI ALLQIQNPSK LTQIAIADSD KLRVGDFAVA VGNPFGLGQT
ATSGIVSALG RSGLNLEGLE NFIQTDASIN RGNSGGALLN LNGELIGINT AILAPGGGSV
GIGFAIPSNM ARTLAQQLID FGEIKRGLLG IKGTEMSADI AKAFNLDVQR GAFVSEVLPG
SGSAKAGVKA GDIITSLNGK PLNSFAELRS RIATTEPGTK VKLGLLRNGK PLEVEVTLDT
STSSSASAEM ITPALEGATL SDGQLKDGGK GIKIDEVVKG SPAAQAGLQK DDVIIGVNRD
RVNSIAEMRK VLAAKPAIIA LQIVRGNESI YLLMR
Length

455

Mol. Wt

47.206 kDa

pI

5.7 (calculated)

Extinction coefficient

2,980 (calc based on 2 Y, 0 W, and 0 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

motif

1-27

UniProt Manual:Signal Peptides

UniProt:P39099

Domain

84..254

PF00089 Trypsin

PMID:19920124

Domain

257..346

PF00595 PDZ domain (Also known as DHR or GLGF)

PMID:19920124

Domain

366..444

PF00595 PDZ domain (Also known as DHR or GLGF)

PMID:19920124

<motif_map/>

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

Structures

<beststructure> gene=degQ 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:16131124

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947812

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010609

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P39099

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G7682

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12612

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947812

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004229

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2496

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

2.20E+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

528

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

482

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

492

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)

degQ

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_000913:3378745..3378785 source=MG1655 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:b3234 (EcoliWiki Page)

NCBI GEO profiles for degQ

microarray

GenExpDB:b3234 (EcoliWiki Page)

Summary of data for degQ 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 (3378133..3378433) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ04; Well:E8[7]

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Notes

Accessions Related to degQ Expression

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

Database Accession Notes

EcoCyc

EcoCyc:G7682

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2496

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3234

EcoGene

EcoGene:EG12612

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004229

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010609

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

Anopheles gambiae

  • ENSANGP00000012547 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Apis mellifera

  • ENSAPMP00000014738 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT3G27925 (score: 1.000; bootstrap: 63%)
  • AT5G39830 (score: 0.181)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000026026 (score: 1.000; bootstrap: 100%)
  • ENSBTAP00000011042 (score: 1.000; bootstrap: 100%)
  • ENSBTAP00000004564 (score: 0.425)
  • ENSBTAP00000026804 (score: 0.313)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000018471 (score: 1.000; bootstrap: 100%)
  • ENSCAFP00000021445 (score: 1.000; bootstrap: 100%)
  • ENSCAFP00000008772 (score: 0.562)
  • ENSCAFP00000012325 (score: 0.385)

From Inparanoid:20070104

Danio rerio

  • ZDB-GENE-040704-64 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040704-64 (score: 1.000; bootstrap: 100%)
  • ZDB-GENE-040801-245 (score: 1.000; bootstrap: 100%)
  • ZDB-CDNA-040801-260 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0204001 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila melanogaster

  • FBgn0038233 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Drosophila pseudoobscura

  • GA21097-PA (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000025070 (score: 1.000; bootstrap: 100%)
  • ENSGALP00000025068 (score: 0.468)
  • ENSGALP00000021805 (score: 0.218)
  • ENSGALP00000021600 (score: 0.070)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000303766 (score: 1.000; bootstrap: 100%)
  • ENSP00000299020 (score: 0.469)
  • ENSP00000305919 (score: 0.354)
  • ENSP00000258080 (score: 0.242)

From Inparanoid:20070104

Macaca mulatta

  • ENSMMUP00000011963 (score: 1.000; bootstrap: 100%)
  • ENSMMUP00000029846 (score: 1.000; bootstrap: 100%)
  • ENSMMUP00000007924 (score: 0.437)
  • ENSMMUP00000002846 (score: 0.365)

From Inparanoid:20070104

Monodelphis domestica

  • ENSMODP00000003793 (score: 1.000; bootstrap: 100%)
  • ENSMODP00000010233 (score: 0.456)
  • ENSMODP00000013256 (score: 0.338)
  • ENSMODP00000005932 (score: 0.220)

From Inparanoid:20070104

Mus musculus

  • MGI:3036260 (score: 1.000; bootstrap: 100%)
  • MGI:1929076 (score: 0.433)
  • MGI:1925808 (score: 0.355)
  • MGI:1928676 (score: 0.210)

From Inparanoid:20070104

Oryza gramene

  • Q6AUN5 (score: 1.000; bootstrap: 99%)
  • Q7XUW0 (score: 0.180)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000005327 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000020762 (score: 1.000; bootstrap: 100%)
  • ENSPTRP00000034549 (score: 0.395)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000022166 (score: 1.000; bootstrap: 100%)
  • ENSRNOP00000027860 (score: 0.437)
  • ENSRNOP00000010852 (score: 0.341)
  • ENSRNOP00000030076 (score: 0.215)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YNL123W (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPAC23G32c (score: 1.000; bootstrap: 100%)
  • SPBC16855 (score: 0.229)

From Inparanoid:20070104

Takifugu rubripes

  • NEWSINFRUP00000136976 (score: 1.000; bootstrap: 100%)
  • NEWSINFRUP00000160494 (score: 1.000; bootstrap: 100%)
  • NEWSINFRUP00000180577 (score: 0.579)
  • NEWSINFRUP00000170339 (score: 0.153)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00022346001 (score: 1.000; bootstrap: 100%)
  • GSTENP00031557001 (score: 1.000; bootstrap: 100%)
  • GSTENP00006681001 (score: 0.425)
  • GSTENP00032214001 (score: 0.198)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000033992 (score: 1.000; bootstrap: 100%)
  • ENSXETP00000033189 (score: 1.000; bootstrap: 100%)
  • ENSXETP00000043887 (score: 0.435)

From Inparanoid:20070104

E. coli O157

DEGQ

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)

PF00089 Trypsin

Superfamily (EcoliWiki Page)

SUPERFAMILY:50156

Superfamily (EcoliWiki Page)

SUPERFAMILY:50156

Superfamily (EcoliWiki Page)

SUPERFAMILY:50494

Panther (EcoliWiki Page)

PTHR22939:SF10

Pfam (EcoliWiki Page)

PF00595 PDZ domain (Also known as DHR or GLGF)

Pfam (EcoliWiki Page)

PF00595 PDZ domain (Also known as DHR or GLGF)

EcoCyc

EcoCyc:G7682

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12612

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004229

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2496

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010609

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. 2.0 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 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

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