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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

purN

Gene Synonym(s)

ECK2496, b2500, JW2485, adec, ade(c)[1], ade

Product Desc.

GART[2][3]

Glycinamide ribonucleotide transformylase (GART) 1, purine synthesis; glycinamide ribonucleotide formyltransferase[4]

Product Synonyms(s)

phosphoribosylglycinamide formyltransferase 1[1], B2500[2][1], PurN[2][1] , ade, ECK2496, JW2485, b2500

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): purMN[2], OP00080, purM

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

purN

Mnemonic

Purine

Synonyms

ECK2496, b2500, JW2485, adec, ade(c)[1], ade

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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

56.47 minutes 

MG1655: 2620256..2620894
<gbrowseImage> name=NC_000913:2620256..2620894 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2543054..2543692
<gbrowseImage> name=NC_012967:2543054..2543692 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2506061..2506699
<gbrowseImage> name=NC_012759:2506061..2506699 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2620890..2621528
<gbrowseImage> name=NC_007779:2620890..2621528 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2712021..2712659
<gbrowseImage> name=NC_010473:2712021..2712659 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

2620256

Edman degradation

PMID:2204419


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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

ΔpurN (Keio:JW2485)

deletion

deletion

PMID:16738554

Shigen
CGSC9984[5]

purNH108A,G,M,N,Q,R

H108A,G,M,N,Q,R

Loss of activity

seeded from UniProt:P08179

purNH108E,S,T

H108E,S,T

Reduces activity about 1000- fold

seeded from UniProt:P08179

purNH119A

H119A

No effect

seeded from UniProt:P08179

purNH121Q

H121Q

Increases Km for 5'- phosphoribosylglycinamide 4-fold

seeded from UniProt:P08179

purNS135A,L

S135A,L

Reduces activity about 1000-fold

seeded from UniProt:P08179

purNH137F,Q

H137F,Q

No effect

seeded from UniProt:P08179

purNE70A

E70A

Loss of homodimerization. No effect on activity

seeded from UniProt:P08179

purNN106A,D,G,S

N106A,D,G,S

Reduces activity about 2000- fold

seeded from UniProt:P08179

purNN106E,H,I,K,L,Y

N106E,H,I,K,L,Y

Loss of activity

seeded from UniProt:P08179

purND144A,E,S,Y

D144A,E,S,Y

Reduces activity about 1000- fold

seeded from UniProt:P08179

purND144C,F,H,K,L,N,P,Q,R,T,V

D144C,F,H,K,L,N,P,Q,R,T,V

Loss of activity

seeded from UniProt:P08179

ΔpurN748::kan

PMID:16738554

CGSC:102542


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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

JW2485

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAATATTGTGGTGCTTATTTC

Primer 2:CCtTCGTCGGCAGCGTAGCCCTG

10H6

Kohara Phage

Genobase

PMID:3038334

5A11

Kohara Phage

Genobase

PMID:3038334

purC80::Tn10

Linked marker

CAG18470 = CGSC7413[5]

est. P1 cotransduction: 36% [6]

zfh-208::Tn10

Linked marker

CAG18481 = CGSC7417[5]

est. P1 cotransduction: 16% [6]
Synonyms:zff-208::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:EG10799

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10799

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000790

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:946973

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0792

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008232

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

PurN

Synonyms

phosphoribosylglycinamide formyltransferase 1[1], B2500[2][1], PurN[2][1] , ade, ECK2496, JW2485, b2500

Product description

GART[2][3]

Glycinamide ribonucleotide transformylase (GART) 1, purine synthesis; glycinamide ribonucleotide formyltransferase[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:0004644

phosphoribosylglycinamide formyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004607

F

Seeded from EcoCyc (v14.0)

complete

GO:0004644

phosphoribosylglycinamide formyltransferase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:2.1.2.2

F

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:0006189

'de novo' IMP biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR004607

P

Seeded from EcoCyc (v14.0)

complete

GO:0008168

methyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001555

F

Seeded from EcoCyc (v14.0)

complete

GO:0009058

biosynthetic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002376

P

Seeded from EcoCyc (v14.0)

complete

GO:0016740

transferase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0808

F

Seeded from EcoCyc (v14.0)

complete

GO:0016742

hydroxymethyl-, formyl- and related transferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002376

F

Seeded from EcoCyc (v14.0)

complete

GO:0006974

response to DNA damage stimulus

PMID:11967071

IEP: Inferred from Expression Pattern

P

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

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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

MNIVVLISGN GSNLQAIIDA CKTNKIKGTV RAVFSNKADA FGLERARQAG IATHTLIASA
FDSREAYDRE LIHEIDMYAP DVVVLAGFMR ILSPAFVSHY AGRLLNIHPS LLPKYPGLHT
HRQALENGDE EHGTSVHFVT DELDGGPVIL QAKVPVFAGD SEDDITARVQ TQEHAIYPLV
ISWFADGRLK MHENAAWLDG QRLPPQGYAA DE
Length

212

Mol. Wt

23.238 kDa

pI

5.8 (calculated)

Extinction coefficient

19,940 - 20,065 (calc based on 6 Y, 2 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

Domain

1..181

PF00551 Formyl transferase

PMID:19920124

<motif_map/>

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

Structures

<beststructure> gene=purN 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:16130425

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946973

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008232

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P08179

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10799

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10799

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946973

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000790

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0792

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

1.98E+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

753

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

426

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

214

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)

purMN

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_000913:2620236..2620276 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:b2500 (EcoliWiki Page)

NCBI GEO profiles for purN

microarray

GenExpDB:b2500 (EcoliWiki Page)

Summary of data for purN 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 purN Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10799

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0792

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2500

EcoGene

EcoGene:EG10799

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000790

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008232

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

  • ENSANGP00000001057 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT1G31220 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Dictyostelium discoideum

  • DDB0230085 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Oryza gramene

  • Q6ZK11 (score: 1.000; bootstrap: 100%)
  • Q53WN6 (score: 0.655)
  • Q69XB6 (score: 0.392)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YDR408C (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Schizosaccharomyces pombe

  • SPCC5698c (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000035533 (score: 1.000; bootstrap: 97%)

From Inparanoid:20070104

Shigella flexneri

PURN

From SHIGELLACYC

E. coli O157

PURN

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)

PF00551 Formyl transferase

Superfamily (EcoliWiki Page)

SUPERFAMILY:53328

Panther (EcoliWiki Page)

PTHR10520:SF9

EcoCyc

EcoCyc:EG10799

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10799

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000790

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0792

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008232

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 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 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).

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