fis: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

fis

Gene Synonym(s)

ECK3248, b3261, JW3229, nbp[1], nbp

Product Desc.

Fis transcriptional dual regulator[2][3]

Transcriptional activator for rRNA operons, bends DNA; interacts with RNAP; nucleoid-associated protein; dimeric[4]

Product Synonyms(s)

global DNA-binding transcriptional dual regulator[1], B3261[2][1], Nbp[2][1], Fis[2][1], site-specific DNA inversion stimulation factor; DNA-binding protein; a trans activator for transcription[2][1] , ECK3248, JW3229, nbp, b3261

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): dusB-fis[2], OP00028, fis, yhdG-fis

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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fis transcription is supercoiling-dependent. Overexpression causes filamentous biofilm formation. Decreased levels of Fis inhibit open complex formation, inhibiting oriC unwinding by blocking IHF and DnaA low affinity binding sites. Polyamine modulon. Mutations affect chromosomal supercoliing.[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

fis

Mnemonic

Factor for inversion stimulation

Synonyms

ECK3248, b3261, JW3229, nbp[1], nbp

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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

73.48 minutes 

MG1655: 3409293..3409589
<gbrowseImage> name=NC_000913:3409293..3409589 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3339162..3339458
<gbrowseImage> name=NC_012967:3339162..3339458 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3296441..3296737
<gbrowseImage> name=NC_012759:3296441..3296737 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3411126..3411422
<gbrowseImage> name=NC_007779:3411126..3411422 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3507038..3507334
<gbrowseImage> name=NC_010473:3507038..3507334 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

3409293

Edman degradation

PMID:2835774
PMID:2837762
PMID:8809757


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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

Δfis (Keio:JW3229)

deletion

deletion

PMID:16738554

Shigen
CGSC10443[5]

Δfis::kan

deletion

Biolog:respiration

unable to respire a-Ketobutyrate

PMID:16095938

Δfis-779::kan

PMID:16738554

CGSC:100880

fis(del)-767::khan

Growth Phenotype

Growth rate regulation of the amount of the pdxA-ksgA contranscript was abolished by mutation, figure 7.

PMID:11844765

Strain: TX3333

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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

JW3229

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTTCGAACAACGCGTAAATTC

Primer 2:CCGTTCATGCCGTATTTTTTCAA

6G3

Kohara Phage

Genobase

PMID:3038334

6G9

Kohara Phage

Genobase

PMID:3038334

zhc-6::Tn10

Linked marker

CAG12153 = CGSC7442[5]

est. P1 cotransduction: 13% [6]
Synonyms:zha-6::Tn10

acrF3083::Tn10

Linked marker

CAG12075 = CGSC7447[5]

est. P1 cotransduction: 83% [6]
Synonyms:zhd-3083::Tn10, zhe-3083::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:EG10317

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10317

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000311

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947697

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0313

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010703

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

Fis

Synonyms

global DNA-binding transcriptional dual regulator[1], B3261[2][1], Nbp[2][1], Fis[2][1], site-specific DNA inversion stimulation factor; DNA-binding protein; a trans activator for transcription[2][1] , ECK3248, JW3229, nbp, b3261

Product description

Fis transcriptional dual regulator[2][3]

Transcriptional activator for rRNA operons, bends DNA; interacts with RNAP; nucleoid-associated protein; dimeric[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:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005412

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00166

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002197

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020441

F

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_00166

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002197

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR005412

P

Seeded from EcoCyc (v14.0)

complete

GO:0043565

sequence-specific DNA binding

PMID:10551881

IDA: Inferred from Direct Assay

F

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020441

P

Seeded from EcoCyc (v14.0)

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

rpsD

PMID:16606699

Experiment(s):EBI-1145333

Protein

rplB

PMID:16606699

Experiment(s):EBI-1145333

Protein

ycgE

PMID:16606699

Experiment(s):EBI-1145333

Protein

rpsC

PMID:16606699

Experiment(s):EBI-1145333

Protein

dnaK

PMID:15690043

Experiment(s):EBI-887368

Protein

hupA

PMID:15690043

Experiment(s):EBI-887368

Protein

rplC

PMID:15690043

Experiment(s):EBI-887368

Protein

rplD

PMID:15690043

Experiment(s):EBI-887368

Protein

rplM

PMID:15690043

Experiment(s):EBI-887368

Protein

rplS

PMID:15690043

Experiment(s):EBI-887368

Protein

rplT

PMID:15690043

Experiment(s):EBI-887368

Protein

rplV

PMID:15690043

Experiment(s):EBI-887368

Protein

rplW

PMID:15690043

Experiment(s):EBI-887368

Protein

rpmG

PMID:15690043

Experiment(s):EBI-887368

Protein

rpoC

PMID:15690043

Experiment(s):EBI-887368

Protein

rpsB

PMID:15690043

Experiment(s):EBI-887368

Protein

rpsE

PMID:15690043

Experiment(s):EBI-887368

Protein

rpsJ

PMID:15690043

Experiment(s):EBI-887368

Protein

rpsM

PMID:15690043

Experiment(s):EBI-887368

Protein

thiG

PMID:15690043

Experiment(s):EBI-887368

Protein

thiG

PMID:19402753

LCMS(ID Probability):99.0

Protein

Phage lambda Xis

PMID:1396573

see Fig 4.

Protein

Phage lambda Int

PMID:1396573

see Fig 4.

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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 

MFEQRVNSDV LTVSTVNSQD QVTQKPLRDS VKQALKNYFA QLNGQDVNDL YELVLAEVEQ
PLLDMVMQYT RGNQTRAALM MGINRGTLRK KLKKYGMN
Length

98

Mol. Wt

11.239 kDa

pI

9.8 (calculated)

Extinction coefficient

5,960 (calc based on 4 Y, 0 W, and 0 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

54..95

PF02954 Bacterial regulatory protein, Fis 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=fis 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:16131149

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947697

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010703

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0A6R3

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10317

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10317

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947697

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000311

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0313

Escherichia coli str. K-12 substr. MG1655

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Notes

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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

4.53E+05

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

72580

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

7711

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

17805

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

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)

dusB-fis

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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_000913:3409273..3409313 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:b3261 (EcoliWiki Page)

NCBI GEO profiles for fis

microarray

GenExpDB:b3261 (EcoliWiki Page)

Summary of data for fis 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 fis Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG10317

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0313

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3261

EcoGene

EcoGene:EG10317

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000311

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010703

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

Shigella flexneri

FIS

From SHIGELLACYC

E. coli O157

FIS

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)

PF02954 Bacterial regulatory protein, Fis family

Superfamily (EcoliWiki Page)

SUPERFAMILY:46689

EcoCyc

EcoCyc:EG10317

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10317

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000311

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0313

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0010703

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. ↑ 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 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 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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