yfiQ:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

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Standard Name

yfiQ

Gene Synonym(s)

patZ, ECK2582, b2584, JW2568[1]

Product Desc.

fused predicted acyl-CoA synthetase: NAD(P)-binding subunit, ATP-binding subunit[2][3]

Product Synonyms(s)

fused predicted acyl-CoA synthetase: NAD(P)-binding subunit[1], ATP-binding subunit[1], B2584[2][1], YfiQ[2][1] , ECK2582, JW2568, pat, b2584

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): yfiP[2]

Regulation/Activity
Quick Links

porteco.png

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

yfiQ

Mnemonic

Systematic nomenclature

Synonyms

patZ, ECK2582, b2584, JW2568[1]

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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

58.58 minutes 

MG1655: 2717975..2720635
<gbrowseImage> name=NC_000913:2717975..2720635 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2641446..2644106
<gbrowseImage> name=NC_012967:2641446..2644106 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2603780..2606440
<gbrowseImage> name=NC_012759:2603780..2606440 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2718609..2721269
<gbrowseImage> name=NC_007779:2718609..2721269 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2809740..2812400
<gbrowseImage> name=NC_010473:2809740..2812400 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

ΔyfiQ (Keio:JW2568)

deletion

deletion

PMID:16738554

Shigen
CGSC10042[4]

ΔyfiQ752::kan

PMID:16738554

CGSC:104814


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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

JW2568

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCAGTCAGCGAGGACTGGAAGC

Primer 2:CCTGATTCCTCGCGCTGGGCAAG

4A12

Kohara Phage

Genobase

PMID:3038334

3F10

Kohara Phage

Genobase

PMID:3038334

21D7

Kohara Phage

Genobase

PMID:3038334

nadB51::Tn10

Linked marker

CAG18480 = CGSC7419[4]

est. P1 cotransduction: 75% [5]

pheA18::Tn10

Linked marker

CAG12158 = CGSC7421[4]

est. P1 cotransduction: 49% [5]

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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 (EcoliWiki Page)

GeneID:947056

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:

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

YfiQ

Synonyms

fused predicted acyl-CoA synthetase: NAD(P)-binding subunit[1], ATP-binding subunit[1], B2584[2][1], YfiQ[2][1] , ECK2582, JW2568, pat, b2584

Product description

fused predicted acyl-CoA synthetase: NAD(P)-binding subunit, ATP-binding subunit[2][3]

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:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011761

F

Seeded from EcoCyc (v14.0)

complete

GO:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016040

F

Seeded from EcoCyc (v14.0)

complete

GO:0005488

binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016040

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011761

F

Seeded from EcoCyc (v14.0)

complete

GO:0008080

N-acetyltransferase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000182

F

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000182

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016040

P

Seeded from EcoCyc (v14.0)

complete

GO:0052858

peptidyl-lysine N-acetyltransferase activity, acting on acetyl phosphate as donor

PMID:21696463

IMP: Inferred from Mutant Phenotype

F

Table 1 and S6-S8, acetylates RNA polymerase

complete

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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

ypeA

PMID:15690043

Experiment(s):EBI-891722

Protein

dnaJ

PMID:15690043

Experiment(s):EBI-891722

Protein

hupB

PMID:15690043

Experiment(s):EBI-891722

Protein

hypC

PMID:15690043

Experiment(s):EBI-891722

Protein

lpdA

PMID:15690043

Experiment(s):EBI-891722

Protein

groL

PMID:15690043

Experiment(s):EBI-891722

Protein

rplC

PMID:15690043

Experiment(s):EBI-891722

Protein

rplM

PMID:15690043

Experiment(s):EBI-891722

Protein

rplO

PMID:15690043

Experiment(s):EBI-891722

Protein

rplP

PMID:15690043

Experiment(s):EBI-891722

Protein

rplQ

PMID:15690043

Experiment(s):EBI-891722

Protein

rplV

PMID:15690043

Experiment(s):EBI-891722

Protein

rpmB

PMID:15690043

Experiment(s):EBI-891722

Protein

rpsB

PMID:15690043

Experiment(s):EBI-891722

Protein

rpsE

PMID:15690043

Experiment(s):EBI-891722

Protein

rpsJ

PMID:15690043

Experiment(s):EBI-891722

Protein

rpsM

PMID:15690043

Experiment(s):EBI-891722

Protein

rpsN

PMID:15690043

Experiment(s):EBI-891722

Protein

rpsS

PMID:15690043

Experiment(s):EBI-891722

Protein

rpsT

PMID:15690043

Experiment(s):EBI-891722

Protein

tufA

PMID:15690043

Experiment(s):EBI-891722

Protein

ulaR

PMID:15690043

Experiment(s):EBI-891722

Protein

thrS

PMID:16606699

Experiment(s):EBI-1143389

Protein

sdhA

PMID:16606699

Experiment(s):EBI-1143389

Protein

rpsA

PMID:16606699

Experiment(s):EBI-1143389

Protein

htpG

PMID:16606699

Experiment(s):EBI-1143389

Protein

rplP

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplQ

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplO

PMID:19402753

LCMS(ID Probability):99.6

Protein

hupB

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplM

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsT

PMID:19402753

LCMS(ID Probability):99.6

Protein

hypC

PMID:19402753

LCMS(ID Probability):99.6

Protein

groS

PMID:19402753

LCMS(ID Probability):99.6

Protein

groL

PMID:19402753

LCMS(ID Probability):99.6

Protein

ypeA

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpmB

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsN

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsJ

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsM

PMID:19402753

LCMS(ID Probability):99.6

Protein

dnaJ

PMID:19402753

LCMS(ID Probability):99.6

Protein

ulaR

PMID:19402753

LCMS(ID Probability):99.6

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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 

MSQRGLEALL RPKSIAVIGA SMKPNRAGYL MMRNLLAGGF NGPVLPVTPA WKAVLGVLAW
PDIASLPFTP DLAVLCTNAS RNLALLEELG EKGCKTCIIL SAPASQHEDL RACALRHNMR
LLGPNSLGLL APWQGLNASF SPVPIKRGKL AFISQSAAVS NTILDWAQQR KMGFSYFIAL
GDSLDIDVDE LLDYLARDSK TSAILLYLEQ LSDARRFVSA ARSASRNKPI LVIKSGRSPA
AQRLLNTTAG MDPAWDAAIQ RAGLLRVQDT HELFSAVETL SHMRPLRGDR LMIISNGAAP
AALALDALWS RNGKLATLSE ETCQKLRDAL PEHVAISNPL DLRDDASSEH YIKTLDILLH
SQDFDALMVI HSPSAAAPAT ESAQVLIEAV KHHPRSKYVS LLTNWCGEHS SQEARRLFSE
AGLPTYRTPE GTITAFMHMV EYRRNQKQLR ETPALPSNLT SNTAEAHLLL QQAIAEGATS
LDTHEVQPIL QAYGMNTLPT WIASDSTEAV HIAEQIGYPV ALKLRSPDIP HKSEVQGVML
YLRTANEVQQ AANAIFDRVK MAWPQARVHG LLVQSMANRA GAQELRVVVE HDPVFGPLIM
LGEGGVEWRP EDQAVVALPP LNMNLARYLV IQGIKSKKIR ARSALRPLDV AGLSQLLVQV
SNLIVDCPEI QRLDIHPLLA SGSEFTALDV TLDISPFEGD NESRLAVRPY PHQLEEWVEL
KNGERCLFRP ILPEDEPQLQ QFISRVTKED LYYRYFSEIN EFTHEDLANM TQIDYDREMA
FVAVRRIDQT EEILGVTRAI SDPDNIDAEF AVLVRSDLKG LGLGRRLMEK LITYTRDHGL
QRLNGITMPN NRGMVALARK LGFNVDIQLE EGIVGLTLNL AQREES
Length

886

Mol. Wt

97.99 kDa

pI

6.4 (calculated)

Extinction coefficient

87,320 - 88,320 (calc based on 18 Y, 11 W, and 8 C residues)

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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

775..864

PF00583 Acetyltransferase (GNAT) family

PMID:19920124

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<motif_map/>

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

Structures

<beststructure> gene=yfiQ 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:16130509

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947056

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P76594

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947056

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:

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

Ecoli K-12

11.377+/-0.082

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.02424812

Molecules/cell

  • Medium:
  • Temperature (°C):
  • Doubling time (min): Growth Rate(min): *
  • Growth phase: other: *

by RNA_Seq

PMID:20671182

Protein

E. coli K-12 MG1655

20

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

33

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

6a

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

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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)

yfiP

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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_000913:2717955..2717995 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
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Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b2584 (EcoliWiki Page)

NCBI GEO profiles for yfiQ

microarray

GenExpDB:b2584 (EcoliWiki Page)

Summary of data for yfiQ from multiple microarray studies

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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 yfiQ Expression

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

Database Accession Notes

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2584

RegulonDB

RegulonDB:

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

  • ENSXETP00000015275 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

YFIQ

From SHIGELLACYC

E. coli O157

YFIQ

From ECOO157CYC

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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)

PF00583 Acetyltransferase (GNAT) family

Superfamily (EcoliWiki Page)

SUPERFAMILY:51735

Superfamily (EcoliWiki Page)

SUPERFAMILY:52210

Superfamily (EcoliWiki Page)

SUPERFAMILY:52210

Superfamily (EcoliWiki Page)

SUPERFAMILY:55729

Superfamily (EcoliWiki Page)

SUPERFAMILY:56059

EcoCyc

EcoCyc:

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:

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 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 4.2 CGSC: The Coli Genetics Stock Center
  5. ↑ 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).

Categories

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