fhuD: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

fhuD

Gene Synonym(s)

ECK0151, b0152, JW0148[1], JW0148

Product Desc.

FhuD[2][3];

Component of iron (III) hydroxamate ABC transporter[2][3]; ferrichrome uptake system[3]

Iron-ferrichrome periplasmic binding protein; ferrichrome-dependent iron uptake; binds other hydroxamate siderophores; fhuD mutants are albomycin resistant[4]

Product Synonyms(s)

iron-hydroxamate transporter subunit[1], periplasmic-binding component of ABC superfamily[1], B0152[2][1], FhuD[2][1] , ECK0151, JW0148, b0152

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): fhuACDB[2], OP00027, fhuA

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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Verified Tat substrate: FhuD has a predicted Tat-only (Class I) 30 aa signal peptide (Tullman-Ercek, 2007). The N-terminal sequence in Rohrback (1995), cited in Swiss-Prot, does not verify this putative SPI cleavage; it is the product of an enterokinase cleavage of a cloning construct. Rohrback (1995) demonstrated proper folding of FhuD in the cytoplasm prior to export, consistent with FhuD needing the Tat pathway, which exports folded proteins.[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

fhuD

Mnemonic

Ferric hydroxamate uptake

Synonyms

ECK0151, b0152, JW0148[1], JW0148

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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

3.68 minutes 

MG1655: 170575..171465
<gbrowseImage> name=NC_000913:170575..171465 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 173417..174307
<gbrowseImage> name=NC_012967:173417..174307 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 170574..171464
<gbrowseImage> name=NC_012759:170574..171464 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 170575..171465
<gbrowseImage> name=NC_007779:170575..171465 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 144679..145569
<gbrowseImage> name=NC_010473:144679..145569 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

fhuD(del) (Keio:JW0148)

deletion

deletion

PMID:16738554

Shigen

CGSC8418[5]

fhuD::Tn5KAN-2 (FB20023)

Insertion at nt 617 in Plus orientation

PMID:15262929

E. coli Genome Project:FB20023

does not contain pKD46

fhuD768(del)::kan

PMID:16738554

CGSC:100854


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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

JW0148

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAGCGGCTTACCTCTTATTTC

Primer 2:CCCGCTTTACCTCCGATGGCGTT

15A7

Kohara Phage

Genobase

PMID:3038334

9H2

Kohara Phage

Genobase

PMID:3038334

4E4

Kohara Phage

Genobase

PMID:3038334

zad-220::Tn10

Linked marker

CAG12025 = CGSC7326[5]

est. P1 cotransduction: 44% [6]

yafC502::Tn10

Linked marker

CAG18436 = CGSC7328[5]

est. P1 cotransduction: 4% [6]
Synonyms:zae-502::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:EG10305

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10305

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947510

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000299

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0301

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000524

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

FhuD

Synonyms

iron-hydroxamate transporter subunit[1], periplasmic-binding component of ABC superfamily[1], B0152[2][1], FhuD[2][1] , ECK0151, JW0148, b0152

Product description

FhuD[2][3];

Component of iron (III) hydroxamate ABC transporter[2][3]; ferrichrome uptake system[3]

Iron-ferrichrome periplasmic binding protein; ferrichrome-dependent iron uptake; binds other hydroxamate siderophores; fhuD mutants are albomycin resistant[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:0005381

iron ion transmembrane transporter activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002491

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: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:0006811

ion transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0406

P

Seeded from EcoCyc (v14.0)

complete

GO:0006826

iron ion transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0410

P

Seeded from EcoCyc (v14.0)

complete

GO:0006827

high-affinity iron ion transport

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002491

P

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

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 iron (III) hydroxamate ABC transporter

could be indirect

Protein

caiA

PMID:16606699

Experiment(s):EBI-1135726

Protein

yeaU

PMID:16606699

Experiment(s):EBI-1135726

Protein

Subunits of ferrichrome uptake system

could be indirect


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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

From EcoCyc[3]

Periplasm

PMID:8522527

EchoLocation:fhuD


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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

MSGLPLISRR RLLTAMALSP LLWQMNTAHA AAIDPNRIVA LEWLPVELLL ALGIVPYGVA
DTINYRLWVS EPPLPDSVID VGLRTEPNLE LLTEMKPSFM VWSAGYGPSP EMLARIAPGR
GFNFSDGKQP LAMARKSLTE MADLLNLQSA AETHLAQYED FIRSMKPRFV KRGARPLLLT
TLIDPRHMLV FGPNSLFQEI LDEYGIPNAW QGETNFWGST AVSIDRLAAY KDVDVLCFDH
DNSKDMDALM ATPLWQAMPF VRAGRFQRVP AVWFYGATLS AMHFVRVLDN AIGGKA
Length

296

Mol. Wt

32.999 kDa

pI

6.4 (calculated)

Extinction coefficient

54,430 - 54,555 (calc based on 7 Y, 8 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

motif

1-30

UniProt Manual:Signal Peptides

UniProt:P07822

Domain

38..273

PF01497 Periplasmic binding protein

PMID:19920124

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

Structures

<beststructure> gene=fhuD 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:16128145

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947510

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000524

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P07822

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10305

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10305

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947510

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000299

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0301

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

101

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

27

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

42a

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

Transcription unit(s)

fhuACDB

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_000913:170555..170595 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:b0152 (EcoliWiki Page)

NCBI GEO profiles for fhuD

microarray

GenExpDB:b0152 (EcoliWiki Page)

Summary of data for fhuD 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 fhuD Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10305

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0301

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0152

EcoGene

EcoGene:EG10305

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000299

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000524

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

FHUD

From SHIGELLACYC

E. coli O157

FHUD

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

Superfamily (EcoliWiki Page)

SUPERFAMILY:53807

Pfam (EcoliWiki Page)

PF01497 Periplasmic binding protein

EcoCyc

EcoCyc:EG10305

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10305

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000299

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0301

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000524

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 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 3.4 3.5 3.6 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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