hcaE: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

hcaE

Gene Synonym(s)

ECK2535, b2538, JW2522, hcaA1, digA, hcaA, phdC1, yfhU[1], yfhU

Product Desc.

3-phenylpropionate dioxygenase, α subunit[2][3];

Component of 3-phenylpropionate dioxygenase system[2][3]; 3-phenylpropionate dioxygenase system[2][3]

3-phenylpropionate/cinnamic acid dioxygenase, alpha subunit; hca genes catabolize 3-phenylpropionate and cinnamic acid, feeding the products into the the mhp pathway[4]

Product Synonyms(s)

3-phenylpropionate dioxygenase, large (alpha) subunit[1], B2538[2][1], DigA[2][1], YfhU[2][1], HcaA[2][1], HcaE[2][1], HcaA1[2][1], 3-phenylpropionate dioxygenase, large subunit[2][1] , digA, ECK2535, hcaA, hcaA1, JW2522, phdC1, yfhU, b2538

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): hcaEFCBD[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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Hydrocinnamic acid is a synonym for 3-phenylpropionic acid. The N-terminal domains of YeaW and HcaE are homologous.[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

hcaE

Mnemonic

Hydrocinnamic acid

Synonyms

ECK2535, b2538, JW2522, hcaA1, digA, hcaA, phdC1, yfhU[1], yfhU

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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

57.48 minutes 

MG1655: 2667054..2668415
<gbrowseImage> name=NC_000913:2667054..2668415 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2589731..2591092
<gbrowseImage> name=NC_012967:2589731..2591092 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2552859..2554220
<gbrowseImage> name=NC_012759:2552859..2554220 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2667688..2669049
<gbrowseImage> name=NC_007779:2667688..2669049 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2758819..2760180
<gbrowseImage> name=NC_010473:2758819..2760180 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

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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

ΔhcaE (Keio:JW2522)

deletion

deletion

PMID:16738554

Shigen
CGSC10008[5]

ΔhcaE783::kan

PMID:16738554

CGSC:101312


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Notes

Genetic Interactions

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<protect>

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

JW2522

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCACCACACCCTCAGATTTGAA

Primer 2:CCTTTCATCACCTCCTGCTGGTA

5E10

Kohara Phage

Genobase

PMID:3038334

6F10

Kohara Phage

Genobase

PMID:3038334

zfh-208::Tn10

Linked marker

CAG18481 = CGSC7417[5]

est. P1 cotransduction: 88% [6]
Synonyms:zff-208::Tn10

nadB51::Tn10

Linked marker

CAG18480 = CGSC7419[5]

est. P1 cotransduction: 16% [6]

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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:M009

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13456

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004468

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946998

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3229

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008355

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

HcaE

Synonyms

3-phenylpropionate dioxygenase, large (alpha) subunit[1], B2538[2][1], DigA[2][1], YfhU[2][1], HcaA[2][1], HcaE[2][1], HcaA1[2][1], 3-phenylpropionate dioxygenase, large subunit[2][1] , digA, ECK2535, hcaA, hcaA1, JW2522, phdC1, yfhU, b2538

Product description

3-phenylpropionate dioxygenase, α subunit[2][3];

Component of 3-phenylpropionate dioxygenase system[2][3]; 3-phenylpropionate dioxygenase system[2][3]

3-phenylpropionate/cinnamic acid dioxygenase, alpha subunit; hca genes catabolize 3-phenylpropionate and cinnamic acid, feeding the products into the the mhp pathway[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:0005737

cytoplasm

C

Seeded from Riley et al 2006 [1].

Missing: evidence, reference

GO:0005506

iron ion binding

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01648

F

Seeded from EcoCyc (v14.0)

complete

GO:0005506

iron ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001663

F

Seeded from EcoCyc (v14.0)

complete

GO:0005506

iron ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015879

F

Seeded from EcoCyc (v14.0)

complete

GO:0005506

iron ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015881

F

Seeded from EcoCyc (v14.0)

complete

GO:0005506

iron ion binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020875

F

Seeded from EcoCyc (v14.0)

complete

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:0006725

cellular aromatic compound metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001663

P

Seeded from EcoCyc (v14.0)

complete

GO:0008695

3-phenylpropionate dioxygenase activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01648

F

Seeded from EcoCyc (v14.0)

complete

GO:0008695

3-phenylpropionate dioxygenase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020875

F

Seeded from EcoCyc (v14.0)

complete

GO:0008695

3-phenylpropionate dioxygenase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:1.14.12.19

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017941

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

F

Seeded from EcoCyc (v14.0)

complete

GO:0016702

oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0223

F

Seeded from EcoCyc (v14.0)

complete

GO:0016705

oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015881

F

Seeded from EcoCyc (v14.0)

complete

GO:0016708

oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NADH or NADPH as one donor, and incorporation of two atoms of oxygen into one donor

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015879

F

Seeded from EcoCyc (v14.0)

complete

GO:0019439

aromatic compound catabolic process

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_01648

P

Seeded from EcoCyc (v14.0)

complete

GO:0019439

aromatic compound catabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015879

P

Seeded from EcoCyc (v14.0)

complete

GO:0019439

aromatic compound catabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020875

P

Seeded from EcoCyc (v14.0)

complete

GO:0019439

aromatic compound catabolic process

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0058

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:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0411

F

Seeded from EcoCyc (v14.0)

complete

GO:0051537

2 iron, 2 sulfur cluster binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001663

F

Seeded from EcoCyc (v14.0)

complete

GO:0051537

2 iron, 2 sulfur cluster binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015879

F

Seeded from EcoCyc (v14.0)

complete

GO:0051537

2 iron, 2 sulfur cluster binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015881

F

Seeded from EcoCyc (v14.0)

complete

GO:0051537

2 iron, 2 sulfur cluster binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017941

F

Seeded from EcoCyc (v14.0)

complete

GO:0051537

2 iron, 2 sulfur cluster binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0001

F

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001663

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015879

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR015881

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR017941

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

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

Subunits of 3-phenylpropionate dioxygenase system

could be indirect

Protein

groL

PMID:16606699

Experiment(s):EBI-1143192

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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

MTTPSDLNIY QLIDTQNGRV TPRIYTDPDI YQLELERIFG RCWLFLAHES QIPKPGDFFN
TYMGEDAVVV VRQKDGSIKA FLNQCRHRAM RVSYADCGNT RAFTCPYHGW SYGINGELID
VPLEPRAYPQ GLCKSHWGLN EVPCVESYKG LIFGNWDTSA PGLRDYLGDI AWYLDGMLDR
REGGTEIVGG VQKWVINCNW KFPAEQFASD QYHALFSHAS AVQVLGAKDD GSDKRLGDGQ
TARPVWETAK DALQFGQDGH GSGFFFTEKP DANVWVDGAV SSYYRETYAE AEQRLGEVRA
LRLAGHNNIF PTLSWLNGTA TLRVWHPRGP DQVEVWAFCI TDKAASDEVK AAFENSATRA
FGPAGFLEQD DSENWCEIQK LLKGHRARNS KLCLEMGLGQ EKRRDDGIPG ITNYIFSETA
ARGMYQRWAD LLSSESWQEV LDKTAAYQQE VMK
Length

453

Mol. Wt

51.109 kDa

pI

5.2 (calculated)

Extinction coefficient

109,320 - 110,570 (calc based on 18 Y, 15 W, and 10 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

Domain

42..141

PF00355 Rieske [2Fe-2S domain]

PMID:19920124

Domain

163..437

PF00848 Ring hydroxylating alpha subunit (catalytic domain)

PMID:19920124

<motif_map/>

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

Structures

<beststructure> gene=hcaE 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:16130463

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946998

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008355

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0ABR5

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:M009

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13456

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946998

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004468

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3229

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 MG1655

4a

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

10

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

4a

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

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)

hcaEFCBD

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

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<protect><gbrowseImage> name=NC_000913:2667034..2667074 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:b2538 (EcoliWiki Page)

NCBI GEO profiles for hcaE

microarray

GenExpDB:b2538 (EcoliWiki Page)

Summary of data for hcaE 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

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Notes

Accessions Related to hcaE Expression

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

Database Accession Notes

EcoCyc

EcoCyc:M009

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3229

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2538

EcoGene

EcoGene:EG13456

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004468

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008355

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

Xenopus tropicalis

  • ENSXETP00000002096 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

HCAA1

From SHIGELLACYC

E. coli O157

HCAA1

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)

PF00355 Rieske [2Fe-2S domain]

Superfamily (EcoliWiki Page)

SUPERFAMILY:50022

Panther (EcoliWiki Page)

PTHR21266:SF2

Superfamily (EcoliWiki Page)

SUPERFAMILY:55961

Pfam (EcoliWiki Page)

PF00848 Ring hydroxylating alpha subunit (catalytic domain)

EcoCyc

EcoCyc:M009

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13456

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004468

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3229

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008355

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 1.12 1.13 1.14 1.15 1.16 1.17 1.18 1.19 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 2.11 2.12 2.13 2.14 2.15 2.16 2.17 2.18 2.19 2.20 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 3.4 3.5 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

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