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fkpB:On One Page

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Standard Name

fkpB

Gene Synonym(s)

ECK0029, b0028, JW0026, slpA, yaaD[1]

Product Desc.

EG11080[2][3]

FKBP-type peptidyl-prolyl cis-trans isomerase[4]

Product Synonyms(s)

FKBP-type peptidyl-prolyl cis-trans isomerase (rotamase)[1], B0028[2][1], YaaD[2][1], FkpB[2][1], SlpA[2][1]

Function from GO
Knock-Out Phenotype
Regulation/Expression

transcription unit(s): lsp-fkpB-ispH[2], ribF-ileS-lspA-fkpB-ispH[2], ileS-lsp, ileS-lspA-lytB, ribF-ileS-lspA-slpA-lytB

Regulation/Activity
Quick Links

DNA display    Protein display    Pubmed(fkpB)    Textpresso(fkpB)

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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

fkpB

Mnemonic

FK506-binding protein

Synonyms

ECK0029, b0028, JW0026, slpA, yaaD[1]

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Notes

Location(s) and DNA Sequence

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See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

StrainMap locationGenome coordinatesGenome browsersSequence links

MG1655

0.56 minutes 

MG1655: 25826..26275
gbrowse_img.php?coord=25826..26275&genome=ecoli&name=MG1655&trackset=0&width=300&.png

REL606

NC_012967: 29898..30347
gbrowse_img.php?coord=29898..30347&genome=REL606&name=NC_012967&trackset=0&width=300&.png

W3110

 

W3110: 25826..26275
gbrowse_img.php?coord=25826..26275&genome=ecoli_W3110&name=W3110&trackset=0&width=300&.png

DH10B

DH10B: 25826..26275
gbrowse_img.php?coord=25826..26275&genome=ecoli_DH10B&name=DH10B&trackset=0&width=300&.png

BW2952

NC_012759: 25826..26275
gbrowse_img.php?coord=25826..26275&genome=BW2952&name=NC_012759&trackset=0&width=300&.png

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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 typeLocationDescription
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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.

AlleleNt change(s)AA change(s)Phenotype: TypePhenotype: DescriptionReferenceAvailabilityComments

ΔfkpB (Keio:JW0026)

deletion

deletion

PMID:16738554

Shigen
CGSC8347[5]

ΔfkpB742::kan

PMID:16738554

CGSC:100894


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Notes

Genetic Resources

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

ResourceResource TypeSourceNotes/Reference

JW0026

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTCTGAATCTGTACAGAGCAA

Primer 2:CCCGCCTCCAGTGCCGGATCGAT

thrA34::Tn10

Linked marker

CAG18442 = CGSC7320[5]

est. P1 cotransduction: 38% [6]
Synonyms:thr-34::Tn10

carB96::Tn10

Linked marker

CAG12093 = CGSC7322[5]

est. P1 cotransduction: 80% [6]
Synonyms:car-96::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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11080

EchoBASE (EcoliWiki Page)

EchoBASE:EB1072

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0028

ECOL199310CYC (EcoliWiki Page)

ECOL199310CYC:C0032

EcoGene (EcoliWiki Page)

EcoGene:EG11080

ECOO157CYC (EcoliWiki Page)

ECOO157CYC:SLPA

ASAP (EcoliWikiPage)

ASAP:ABE-0000101


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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

FkpB

Synonyms

FKBP-type peptidyl-prolyl cis-trans isomerase (rotamase)[1], B0028[2][1], YaaD[2][1], FkpB[2][1], SlpA[2][1]

Product description

EG11080[2][3]

FKBP-type peptidyl-prolyl cis-trans isomerase[4]

EC number (for enzymes)
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Notes

Function

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Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

QualifierGO IDGO term nameReference(s)Evidence Codewith/fromAspectNotesStatus

GO:0016853

isomerase activity

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0413

F

Seeded from EcoCyc [7]

complete

GO:0006457

protein folding

GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR001179
SP_KW:KW-0697

P

Seeded from EcoCyc [7]

complete

GO:0003755

peptidyl-prolyl cis-trans isomerase activity

GO_REF:0000003
GO_REF:0000004

IEA: Inferred from Electronic Annotation

EC:5.2.1.8
SP_KW:KW-0697

F

Seeded from EcoCyc [7]

complete

GO:0005737

cytoplasm

C

Seeded from EcoCyc 11.1[3].

required fields missing

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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 TypePartnerNotesReferencesEvidence

Protein

rpsI

PMID:16606699

Experiment(s):EBI-1135340

Protein

rplS

PMID:16606699

Experiment(s):EBI-1135340

Protein

mreB

PMID:16606699

Experiment(s):EBI-1135340

Protein

cheA

PMID:16606699

Experiment(s):EBI-1135340

Protein

rpsD

PMID:16606699

Experiment(s):EBI-1135340, EBI-1135340

Protein

hybE

PMID:16606699

Experiment(s):EBI-1135340

Protein

rpsB

PMID:16606699

Experiment(s):EBI-1135340

Protein

rpsN

PMID:16606699

Experiment(s):EBI-1135340

Protein

ileS

PMID:16606699

Experiment(s):EBI-1135340

Protein

rpoB

PMID:16606699

Experiment(s):EBI-1135340

Protein

slyD

PMID:16606699

Experiment(s):EBI-1135340

Protein

fliC

PMID:16606699

Experiment(s):EBI-1135340

Protein

rplO

PMID:16606699

Experiment(s):EBI-1135340

Protein

gltB

PMID:16606699

Experiment(s):EBI-1135340

Protein

rpsJ

PMID:16606699

Experiment(s):EBI-1135340

Protein

rplN

PMID:16606699

Experiment(s):EBI-1135340

Protein

rplB

PMID:16606699

Experiment(s):EBI-1135340

Protein

dnaJ

PMID:16606699

Experiment(s):EBI-1135340

Protein

pdxA

PMID:16606699

Experiment(s):EBI-1135340

Protein

greA

PMID:16606699

Experiment(s):EBI-1135340

Protein

rplQ

PMID:16606699

Experiment(s):EBI-1135340

Protein

ydcP

PMID:16606699

Experiment(s):EBI-1135340

Protein

nrdI

PMID:16606699

Experiment(s):EBI-1135340

Protein

rpoC

PMID:16606699

Experiment(s):EBI-1135340

Protein

dnaK

PMID:16606699

Experiment(s):EBI-1135340

Protein

rplC

PMID:16606699

Experiment(s):EBI-1135340

Protein

sdhA

PMID:16606699

Experiment(s):EBI-1135340

Protein

rpsL

PMID:16606699

Experiment(s):EBI-1135340

Protein

rpsC

PMID:16606699

Experiment(s):EBI-1135340

Protein

glpD

PMID:16606699

Experiment(s):EBI-1135340

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Notes

Localization

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

CompartmentDescriptionEvidenceSourceNotes
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Notes

Structure and Physical Properties

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

Sequence

at EcoCyc 

MSESVQSNSA VLVHFTLKLD DGTTAESTRN NGKPALFRLG DASLSEGLEQ HLLGLKVGDK
TTFSLEPDAA FGVPSPDLIQ YFSRREFMDA GEPEIGAIML FTAMDGSEMP GVIREINGDS
ITVDFNHPLA GQTVHFDIEV LEIDPALEA
Length

149

Mol. Wt

16.08 kDa

pI

4.2 (calculated)

Extinction coefficient

1,490 (calc based on 1 Y, W, and 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.

TypeResiduesDescriptionNotesReferences

Initiator Methionine

1

Removed

UniProt:P0AEM0


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

Structures
Models

View models at:

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Structure figures

Notes

Gene Product Resources

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Resource typeSourceNotes/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.

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11080-MONOMER

UniProt (EcoliWiki Page)

UniProt:P0AEM0

PFAM (EcoliWiki Page)

PFAM:PF00254

RefSeq (EcoliWiki Page)

RefSeq:NP_414569


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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

MoleculeOrganism or StrainCellular levelUnitsMediumTemperature °COther (e.g. anaerobic)Growth rateAssay usedNotesReference(s)
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Notes

Transcription and Transcriptional Regulation

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

Transcription unit(s)

lsp-fkpB-ispH

ribF-ileS-lspA-fkpB-ispH

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Figure courtesy of RegulonDB

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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gbrowse_img.php?coord=25806..25846&genome=ecoli&name=MG1655&trackset=Gene+DNA_+Protein&width=400&figure=Nterm&.png
This picture shows the sequence around the N-terminus.

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

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

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

TypeReferenceNotes

microarray

GEO Profiles:b0028 (EcoliWiki Page)

NCBI GEO profiles for fkpB

microarray

GenExpDB:b0028 (EcoliWiki Page)

Summary of data for fkpB 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 NameResource TypeDescriptionSourceNotes

GFP Fusion

Intergenic region (25631..25907) fused to gfpmut2.

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ09; Well:D1[8]

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Notes

Accessions Related to fkpB Expression

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

DatabaseAccessionNotes

EcoCyc (EcoliWiki Page)

EcoCyc:EG11080

EchoBASE (EcoliWiki Page)

EchoBASE:EB1072

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0028

EcoGene (EcoliWiki Page)

EcoGene:EG11080


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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.

OrganismHomologs (Statistics)Comments

Shigella flexneri

SLPA

From SHIGELLACYC

E. coli O157

SLPA

From ECOO157CYC

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Do-It-Yourself Web Tools

Notes

Families

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DatabaseAccessionNotes

PFAM (EcoliWiki Page)

PFAM:PF00254


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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 1.12 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 2.11 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ 3.0 3.1 3.2 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).
  7. ↑ 7.0 7.1 7.2 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ Zaslaver A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat Methods 3: 623-8 PubMed EcoliWiki page

Categories

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