{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

On One Page

Quickview |

Gene |

Product(s) |

Expression|

Evolution |

References |

Quickview

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Standard Name	nfuA
Gene Synonym(s)	ECK3401, b3414, JW3377, yhgI, gntY^[1], gntY, yhgI
Product Desc.	protein involved in utilization of DNA as a carbon source^[2]^[3]
Product Synonyms(s)	predicted gluconate transport associated protein^[1], B3414^[2]^[1], YhgI^[2]^[1], GntY^[2]^[1] , ECK3401, gntY, JW3377, yhgI, b3414
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression
Regulation/Activity
Quick Links
edit table

</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

[back to top]

Gene

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css> <protect>

Nomenclature

[back to top]

See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name	nfuA
Mnemonic	NifU C-terminal domain-like
Synonyms	ECK3401, b3414, JW3377, yhgI, gntY^[1], gntY, yhgI
edit table

</protect>

Notes

Location(s) and DNA Sequence

[back to top]

<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	76.38 minutes	MG1655: 3543646..3544221 <gbrowseImage> name=NC_000913:3543646..3544221 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3474289..3474864 <gbrowseImage> name=NC_012967:3474289..3474864 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
W3110		W3110: 4094792..4094217 <gbrowseImage> name=NC_007779:4094217..4094792 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
BW2952		NC_012759: 3430803..3431378 <gbrowseImage> name=NC_012759:3430803..3431378 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse(BW2952)	FASTA Dump
edit table

</protect>

Notes

Sequence Features

[back to top]

See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type	Strain	Genomic Location	Evidence	Reference	Notes
edit table

Notes

Alleles and Phenotypes

[back to top]

See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele	Nt change(s)	AA change(s)	Phenotype: Description	Reference	Availability	Comments
ΔgntY (Keio:JW3377)	deletion	deletion		PMID:16738554	Shigen CGSC10516^[4]
yhgI::Tn5KAN-I-SceI (FB20203)	Insertion at nt 171 in Minus orientation			PMID:15262929	E. coli Genome Project:FB21181	contains pKD46
yhgI::Tn5KAN-I-SceI (FB20203)	Insertion at nt 171 in Minus orientation			PMID:15262929	E. coli Genome Project:FB21182	does not contain pKD46
nfuAC39S		C39S	No effect on activity in vivo. Still able to bind a Fe/S cluster in vitro			seeded from UniProt:P63020
nfuAC149S		C149S	Loss of activity in vivo. Still able to bind a Fe/S cluster in vitro			seeded from UniProt:P63020
nfuAC44S		C44S	No effect on activity in vivo			seeded from UniProt:P63020
nfuAC152S		C152S	Loss of activity in vivo. Still able to bind a Fe/S cluster in vitro			seeded from UniProt:P63020
ΔgntY748::kan				PMID:16738554	CGSC:101240
edit table

Notes

Genetic Interactions

[back to top]

Interactor	Interaction	Allele	Score(s)	Reference(s)	Accessions	Notes
edit table

</protect>

Notes

Genetic Resources

[back to top]

See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource	Resource Type	Source	Notes/Reference
JW3377	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCATCCGTATTTCCGATGCTGC Primer 2:CCGTAGTAGGAGTGTTCGCCGCG
zhf-3084::Tn10	Linked marker	CAG18456 = CGSC7576^[4]	est. P1 cotransduction: 18% ^[5] Synonyms:zhe-3084::Tn10nnnCAG18456 also carries cysG0 (CGSC).
glgP721::Tn10	Linked marker	CAG18638 = CGSC7451^[4]	est. P1 cotransduction: 49% ^[5] Synonyms:zhg-3086::Tn10, zhh-21::Tn10
edit table

Notes

Accessions in Other Databases

[back to top]

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

Database	Accession	Notes
EcoCyc	EcoCyc:G7748	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12935	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004291	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:947925	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2771	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011144	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Product(s)

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Nomenclature

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

Standard name	GntY
Synonyms	predicted gluconate transport associated protein^[1], B3414^[2]^[1], YhgI^[2]^[1], GntY^[2]^[1] , ECK3401, gntY, JW3377, yhgI, b3414
Product description	protein involved in utilization of DNA as a carbon source^[2]^[3]
EC number (for enzymes)
edit table

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki. <protect></protect>

Notes

Function

[back to top]

<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki. 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:0005506	iron ion binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001075	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:0016226	iron-sulfur cluster assembly	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01637	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016226	iron-sulfur cluster assembly	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001075	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016226	iron-sulfur cluster assembly	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR017726	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:0051539	4 iron, 4 sulfur cluster binding	PMID:18339628	IDA: Inferred from Direct Assay		F	Mössbauer spectroscopy (Fig. 2)	complete
	GO:0051539	4 iron, 4 sulfur cluster binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR017726	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051539	4 iron, 4 sulfur cluster binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0004	F	Seeded from EcoCyc (v14.0)	complete
	GO:0051604	protein maturation	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01637	P	Seeded from EcoCyc (v14.0)	complete
	GO:0051604	protein maturation	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR017726	P	Seeded from EcoCyc (v14.0)	complete
	GO:0015976	carbon utilization	PMID:16707682	IMP: Inferred from Mutant Phenotype		P	Mutants are unable to use DNA as the sole carbon and energy source.	complete
	GO:0051539	4 iron, 4 sulfur cluster binding	GOA:hamap GO_REF:0000020	IEA: Inferred from Electronic Annotation	HAMAP:MF_01637	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016226	iron-sulfur cluster assembly	PMID:18339628	IDA: Inferred from Direct Assay		P	Purified NfuA can transfer 4Fe-4S cluster to purified apo-aconitase.	complete
edit table

Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type	Partner	References	Evidence
Protein	luxS	PMID:19402753	LCMS(ID Probability):99.6
Protein	crp	PMID:19402753	LCMS(ID Probability):99.6
Protein	elbB	PMID:19402753	LCMS(ID Probability):99.6 MALDI(Z-score):21.945918
Protein	yqgE	PMID:19402753	LCMS(ID Probability):99.6
edit table

See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki. </protect>

Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment	Description	Evidence	Reference/Source	Notes
edit table

See Help:Product_localization for how to add or edit information in this section of EcoliWiki. <protect></protect>

Notes

Structure and Physical Properties

[back to top]

<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 MIRISDAAQA HFAKLLANQE EGTQIRVFVI NPGTPNAECG VSYCPPDAVE ATDTALKFDL LTAYVDELSA PYLEDAEIDF VTDQLGSQLT LKAPNAKMRK VADDAPLMER VEYMLQSQIN PQLAGHGGRV SLMEITEDGY AILQFGGGCN GCSMVDVTLK EGIEKQLLNE FPELKGVRDL TEHQRGEHSY Y
Length	191
Mol. Wt	20.997 kDa
pI	4.4 (calculated)
Extinction coefficient	10,430 - 10,930 (calc based on 7 Y, 0 W, and 4 C residues)
edit table

See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Domains/Motifs/Modification Sites

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

Type	Residues	Description	References
Domain	2..94	PF01521 Iron-sulphur cluster biosynthesis	PMID:19920124
Domain	111..180	PF01106 NifU-like domain	PMID:19920124
edit table

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

<motif_map/>

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

Structures

<beststructure> gene=nfuA taxon=562,83333 </beststructure>

Models

View models at:

edit table

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

</protect>

Structure figures

</protect>

Notes

Gene Product Resources

[back to top]

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

Resource type	Source	Notes/Reference
edit table

See Help:Product_resources for help with entering or editing information in this section of EcoliWiki. <protect></protect>

Notes

Accessions in Other Databases

[back to top]

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

Database	Accession	Notes
NCBI (Protein) (EcoliWiki Page)	GI:16131290	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:947925	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011144	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P63020	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:G7748	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12935	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:947925	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004291	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2771	Escherichia coli str. K-12 substr. MG1655
edit table

See Help:Product_accessions for help entering or editing information in this section of EcoliWiki. <protect></protect>

Notes

Links

[back to top]

Name	URL	Comments
edit table

See Help:Links_table for how to enter or edit information in this section of EcoliWiki.

Expression

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

[back to top]

See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Reference(s)
Protein	E. coli K-12 MG1655	15911	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	4329	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	11534	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	PMID: 24766808
edit table

Notes

Cellular Levels

[back to top]

See Help:Cellular levels

Molecule	Organism or Strain	Value	Units	Experimental Conditions	Assay used	Notes	Reference(s)
Protein	Ecoli K-12	311.312+/-1.742	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.30875+/-0.06436	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by FISH	PMID:20671182
Protein	E. coli K-12 MG1655	15911	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	4329	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	11534	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling		PMID: 24766808
edit table

Notes

Transcription and Transcriptional Regulation

[back to top]

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

Transcription unit(s)
gntY
gntXY
edit table

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

[back to top]

<protect><gbrowseImage> name=NC_000913:3543626..3543666 source=MG1655 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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

</protect>

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

[back to top]

<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name	Mutation	Phenotype	Reference
edit table

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

Type	Reference	Notes
microarray	GEO Profiles:b3414 (EcoliWiki Page)	NCBI GEO profiles for gntY
microarray	GenExpDB:b3414 (EcoliWiki Page)	Summary of data for gntY from multiple microarray studies
edit table

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

Resource Name	Resource Type	Description	Source	Notes
edit table

Notes

Accessions Related to nfuA Expression

[back to top]

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

Database	Accession	Notes
EcoCyc	EcoCyc:G7748	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2771	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3414
EcoGene	EcoGene:EG12935	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004291	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011144	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

Evolution

[back to top]

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

Homologs in Other Organisms

[back to top]

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

Organism	Homologs (Statistics)	Comments
Arabidopsis thaliana	AT3G20970 (score: 1.000; bootstrap: 100%) AT1G51390 (score: 0.698)	From Inparanoid:20070104
Danio rerio	ZDB-GENE-050417-365 (score: 1.000; bootstrap: 100%) ZDB-CDNA-050417-366 (score: 1.000; bootstrap: 100%) ZDB-CDNA-050417-346 (score: 0.439) ZDB-GENE-050417-345 (score: 0.439)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0186594 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q5WMY1 (score: 1.000; bootstrap: 49%)	From Inparanoid:20070104
Shigella flexneri	YHGI	From SHIGELLACYC
E. coli O157	YHGI	From ECOO157CYC
edit table

Do-It-Yourself Web Tools

Notes

Families

[back to top]

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

Database	Accession	Notes
Pfam (EcoliWiki Page)	PF01521 Iron-sulphur cluster biosynthesis
Pfam (EcoliWiki Page)	PF01106 NifU-like domain
Panther (EcoliWiki Page)	PTHR10072:SF26
Superfamily (EcoliWiki Page)	SUPERFAMILY:89360
Superfamily (EcoliWiki Page)	SUPERFAMILY:117916
EcoCyc	EcoCyc:G7748	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12935	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120004291	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2771	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0011144	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

References

[back to top]

See Help:References for how to manage references in EcoliWiki.

↑ ^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)
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 ^2.5 ^2.6 ^2.7 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 CGSC: The Coli Genetics Stock Center
↑ ^5.0 ^5.1 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).

nfuA:On One Page

Quickview

Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to nfuA Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

Categories

Navigation menu

Search