{{#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	purF
Gene Synonym(s)	ECK2306, b2312, JW2309, adeub, ade(ub)^[1], ade, purC
Product Desc.	PurF^[2]^[3]; Component of amidophosphoribosyl transferase^[2]^[3] Amidophosphoribosyltransferase, purine synthesis; GPATase^[4]
Product Synonyms(s)	amidophosphoribosyltransferase^[1], B2312^[2]^[1], PurF^[2]^[1] , ade, ECK2306, JW2309, purC, b2312
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): cvpA-purF-ubiX^[2]
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	purF
Mnemonic	Purine
Synonyms	ECK2306, b2312, JW2309, adeub, ade(ub)^[1], ade, purC
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	52.3 minutes	MG1655: 2428260..2426743 <gbrowseImage> name=NC_000913:2426743..2428260 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 2373830..2372313 <gbrowseImage> name=NC_012967:2372313..2373830 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 2312548..2314065 <gbrowseImage> name=NC_012759:2312548..2314065 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 2435684..2434167 <gbrowseImage> name=NC_007779:2434167..2435684 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 2520025..2518508 <gbrowseImage> name=NC_010473:2518508..2520025 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	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
Coding Start (SO:0000323)	MG1655	2426746	Edman degradation	PMID:7037784
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: Type	Phenotype: Description	Reference	Availability	Comments
purF(del) (Keio:JW2309)	deletion	deletion			PMID:16738554	Shigen CGSC9854^[5]
purF::Tn5KAN-2 (FB20758)	Insertion at nt 213 in Minus orientation				PMID:15262929	E. coli Genome Project:FB20758	does not contain pKD46
purF::Tn5KAN-2 (FB20759)	Insertion at nt 213 in Minus orientation				PMID:15262929	E. coli Genome Project:FB20759	contains pKD46
purF1						CGSC:4842
purF92::Tn10						CGSC:7471
purF91::Tn10						CGSC:10757
purF59						CGSC:11521
purF723(del)::kan					PMID:16738554	CGSC:102534
purF⁺			Resistant to	Resistance to Nalidixic acid	PMID:4923064	Experimental strain: AN2547A	Figure 1
glnV44 purF-asuC4	Insertion of anti-suppression mutation		Sensitivity to	Decrease sensitivity to suppressor genes.	PMID:3918006		See table 5 for results dealing with anti-suppressor mutations.
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
JW2309	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTGCGGTATTGTCGGTATCGC Primer 2:CCTCCTTCGTTATGCATTTCGAG
9D2	Kohara Phage	Genobase	PMID:3038334
12F12	Kohara Phage	Genobase	PMID:3038334
zfb-223::Tn10	Linked marker	CAG18484 = CGSC7406^[5]	est. P1 cotransduction: 21% ^[6] Synonyms:zej-223::Tn10
zfd-1::Tn10	Linked marker	CAG18467 = CGSC7408^[5]	est. P1 cotransduction: 3% ^[6] Synonyms:zfb-1::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:EG10794	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10794	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000785	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:946794	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0787	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007631	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	PurF
Synonyms	amidophosphoribosyltransferase^[1], B2312^[2]^[1], PurF^[2]^[1] , ade, ECK2306, JW2309, purC, b2312
Product description	PurF^[2]^[3]; Component of amidophosphoribosyl transferase^[2]^[3] Amidophosphoribosyltransferase, purine synthesis; GPATase^[4]
EC number (for enzymes)	2.4.2.14^[1]
edit table

Notes

Function

[back to top]

<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:0004044	amidophosphoribosyltransferase activity	PMID:372191	IDA: Inferred from Direct Assay		F		complete
	GO:0000287	magnesium ion binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0460	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004044	amidophosphoribosyltransferase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005854	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004044	amidophosphoribosyltransferase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:2.4.2.14	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005829	cytosol	PMID:16858726	IDA: Inferred from Direct Assay		C	Seeded from EcoCyc (v14.0)	complete
	GO:0006164	purine nucleotide biosynthetic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0658	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006541	glutamine metabolic process	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0315	P	Seeded from EcoCyc (v14.0)	complete
	GO:0009113	purine base biosynthetic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR005854	P	Seeded from EcoCyc (v14.0)	complete
	GO:0004044	amidophosphoribosyltransferase activity	PMID:7037784	IDA: Inferred from Direct Assay		F		complete
	GO:0009116	nucleoside metabolic process	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000836	P	Seeded from EcoCyc (v14.0)	complete
	GO:0016757	transferase activity, transferring glycosyl groups	PMID:7037784	IDA: Inferred from Direct Assay		F		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:0006164	purine nucleotide biosynthetic process	PMID:7037784	IDA: Inferred from Direct Assay		P		complete
	GO:0005737	cytoplasm	PMID:7037784	IDA: Inferred from Direct Assay		C		complete
	GO:0006541	glutamine metabolic process	PMID:7037784	IDA: Inferred from Direct Assay		P		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	Notes	References	Evidence
Protein	Subunits of amidophosphoribosyl transferase	could be indirect
edit table

</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

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 MCGIVGIAGV MPVNQSIYDA LTVLQHRGQD AAGIITIDAN NCFRLRKANG LVSDVFEARH MQRLQGNMGI GHVRYPTAGS SSASEAQPFY VNSPYGITLA HNGNLTNAHE LRKKLFEEKR RHINTTSDSE ILLNIFASEL DNFRHYPLEA DNIFAAIAAT NRLIRGAYAC VAMIIGHGMV AFRDPNGIRP LVLGKRDIDE NRTEYMVASE SVALDTLGFD FLRDVAPGEA IYITEEGQLF TRQCADNPVS NPCLFEYVYF ARPDSFIDKI SVYSARVNMG TKLGEKIARE WEDLDIDVVI PIPETSCDIA LEIARILGKP YRQGFVKNRY VGRTFIMPGQ QLRRKSVRRK LNANRAEFRD KNVLLVDDSI VRGTTSEQII EMAREAGAKK VYLASAAPEI RFPNVYGIDM PSATELIAHG REVDEIRQII GADGLIFQDL NDLIDAVRAE NPDIQQFECS VFNGVYVTKD VDQGYLDFLD TLRNDDAKAV QRQNEVENLE MHNEG
Length	505
Mol. Wt	56.488 kDa
pI	5.3 (calculated)
Extinction coefficient	30,830 - 31,705 (calc based on 17 Y, 1 W, and 7 C residues)
edit table

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:P0AG16
Domain	269..397	PF00156 Phosphoribosyl transferase domain		PMID:19920124
Domain	49..211	PF00310 Glutamine amidotransferases class-II		PMID:19920124
edit table

<motif_map/>

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

Structures

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

Models

View models at:

edit table

</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
Purification protocol		PMID:372191
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
NCBI (Protein) (EcoliWiki Page)	GI:16130247	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:946794	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007631	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0AG16	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10794	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10794	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:946794	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000785	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0787	Escherichia coli str. K-12 substr. MG1655
edit table

Notes

Links

[back to top]

Name	URL	Comments
edit table

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 MC4100	4.77E+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	1339	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	2061	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	318	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)
cvpA-purF-ubiX
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_000913:2428240..2428280 source=MG1655 flip=1 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:b2312 (EcoliWiki Page)	NCBI GEO profiles for purF
microarray	GenExpDB:b2312 (EcoliWiki Page)	Summary of data for purF 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 purF Expression

[back to top]

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10794	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0787	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b2312
EcoGene	EcoGene:EG10794	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000785	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007631	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
Anopheles gambiae	ENSANGP00000019430 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Apis mellifera	ENSAPMP00000005050 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Arabidopsis thaliana	AT4G34740 (score: 1.000; bootstrap: 100%) AT2G16570 (score: 0.768) AT4G38880 (score: 0.467)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000013978 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00037511 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00011407 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000003241 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Ciona intestinalis	ENSCINP00000005653 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0230083 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0041194 (score: 1.000; bootstrap: 100%) FBgn0004901 (score: 0.706)	From Inparanoid:20070104
Drosophila pseudoobscura	GA10055-PA (score: 1.000; bootstrap: 100%) GA15494-PA (score: 0.705)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000022273 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Homo sapiens	ENSP00000264220 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000021488 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000025887 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Mus musculus	MGI:2387203 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Oryza gramene	Q6I5V5 (score: 1.000; bootstrap: 100%) Q8RUM9 (score: 0.746)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000027654 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000002905 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Saccharomyces cerevisiae	YMR300C (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPAC4D78c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000166233 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00032746001 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000050230 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Shigella flexneri	PURF	From SHIGELLACYC
E. coli O157	PURF	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)	PF00156 Phosphoribosyl transferase domain
Pfam (EcoliWiki Page)	PF00310 Glutamine amidotransferases class-II
Superfamily (EcoliWiki Page)	SUPERFAMILY:53271
Panther (EcoliWiki Page)	PTHR11907:SF0
Superfamily (EcoliWiki Page)	SUPERFAMILY:56235
EcoCyc	EcoCyc:EG10794	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10794	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000785	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0787	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0007631	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 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 ^2.8 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 ^3.2 ^3.3 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^5.0 ^5.1 ^5.2 CGSC: The Coli Genetics Stock Center
↑ ^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).

purF: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

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to purF Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

Categories

Navigation menu

Search