fkpB: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

fkpB

Gene Synonym(s)

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

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] , ECK0029, JW0026, slpA, yaaD, b0028

Function from GO

<GO_nr />

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

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

fkpB

Mnemonic

FK506-binding protein

Synonyms

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

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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

0.56 minutes 

MG1655: 25826..26275
<gbrowseImage> name=NC_000913:25826..26275 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 29898..30347
<gbrowseImage> name=NC_012967:29898..30347 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 25826..26275
<gbrowseImage> name=NC_012759:25826..26275 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 25826..26275
<gbrowseImage> name=NC_007779:25826..26275 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 25826..26275
<gbrowseImage> name=NC_010473:25826..26275 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

fkpB(del) (Keio:JW0026)

deletion

deletion

PMID:16738554

Shigen

CGSC8347[5]

fkpB742(del)::kan

PMID:16738554

CGSC:100894


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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

JW0026

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCTCTGAATCTGTACAGAGCAA

Primer 2:CCCGCCTCCAGTGCCGGATCGAT

22B12

Kohara Phage

Genobase

PMID:3038334

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.

Database Accession Notes

EcoCyc

EcoCyc:EG11080

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11080

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001068

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:944807

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1072

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000101

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

FkpB

Synonyms

FKBP-type peptidyl-prolyl cis-trans isomerase (rotamase)[1], B0028[2][1], YaaD[2][1], FkpB[2][1], SlpA[2][1] , ECK0029, JW0026, slpA, yaaD, b0028

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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<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:0003755

peptidyl-prolyl cis-trans isomerase activity

GOA:spec
GO_REF:0000003

IEA: Inferred from Electronic Annotation

EC:5.2.1.8

F

Seeded from EcoCyc (v14.0)

complete

GO:0003755

peptidyl-prolyl cis-trans isomerase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0697

F

Seeded from EcoCyc (v14.0)

complete

GO:0006457

protein folding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001179

P

Seeded from EcoCyc (v14.0)

complete

GO:0006457

protein folding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0697

P

Seeded from EcoCyc (v14.0)

complete

GO:0016853

isomerase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0413

F

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

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

Protein

hupA

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsM

PMID:19402753

LCMS(ID Probability):99.6

Protein

rplI

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsA

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsN

PMID:19402753

LCMS(ID Probability):99.6

Protein

rpsP

PMID:19402753

LCMS(ID Probability):99.6

Protein

yhbY

PMID:19402753

LCMS(ID Probability):99.6

Protein

frmA

PMID:19402753

LCMS(ID Probability):99.6

Protein

ebgA

PMID:19402753

LCMS(ID Probability):99.6

Protein

ydhU

PMID:19402753

LCMS(ID Probability):99.6

Protein

puuP

PMID:19402753

LCMS(ID Probability):99.6

Protein

nuoI

PMID:19402753

LCMS(ID Probability):99.6

Protein

eda

PMID:19402753

LCMS(ID Probability):99.6

Protein

flgI

PMID:19402753

LCMS(ID Probability):99.6

Protein

ycgX

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 

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, 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

Initiator Methionine

1

Removed

UniProt:P0AEM0

Domain

1..141

PF00254 FKBP-type peptidyl-prolyl cis-trans isomerase

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=fkpB 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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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:16128022

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000101

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AEM0

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11080

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11080

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:944807

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001068

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:944807

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1072

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

5.46E+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

1155

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

472

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

553

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)

lsp-fkpB-ispH

ribF-ileS-lspA-fkpB-ispH

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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_000913:25806..25846 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: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 Name Resource Type Description Source Notes

GFP Fusion

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

OpenBioSystems

GFP fusion described in Zaslaver, et al.
Plate:109-AZ09; Well:D1[7]

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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.

Database Accession Notes

EcoCyc

EcoCyc:EG11080

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1072

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b0028

EcoGene

EcoGene:EG11080

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001068

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000101

Escherichia coli str. K-12 substr. MG1655

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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

SLPA

From SHIGELLACYC

E. coli O157

SLPA

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)

PF00254 FKBP-type peptidyl-prolyl cis-trans isomerase

Panther (EcoliWiki Page)

PTHR10516:SF108

Superfamily (EcoliWiki Page)

SUPERFAMILY:54534

EcoCyc

EcoCyc:EG11080

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11080

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001068

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1072

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0000101

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 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 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. ↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

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