ibpA: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

ibpA

Gene Synonym(s)

ECK3679, b3687, JW3664, hslT, htpN[1], htpN

Product Desc.

small heat shock protein IbpA[2][3]

Chaperone, heat-inducible protein of HSP20 family[4]

Product Synonyms(s)

heat shock chaperone[1], B3687[2][1], HtpN[2][1], HslT[2][1], IbpA[2][1] , ECK3679, hslT, htpN, JW3664, b3687

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): ibpAB[2], hslTS

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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RpoH regulon. 5' end has RNA thermosensor. Induced during biofilm formation.[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

ibpA

Mnemonic

Inclusion body protein

Synonyms

ECK3679, b3687, JW3664, hslT, htpN[1], htpN

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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

83.3 minutes 

MG1655: 3865445..3865032
<gbrowseImage> name=NC_000913:3865032..3865445 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 3827783..3827370
<gbrowseImage> name=NC_012967:3827370..3827783 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 3753365..3753778
<gbrowseImage> name=NC_012759:3753365..3753778 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 3772993..3773406
<gbrowseImage> name=NC_007779:3772993..3773406 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 3963029..3962616
<gbrowseImage> name=NC_010473:3962616..3963029 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

3865032

Edman degradation

PMID:1356969


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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

ΔibpA (Keio:JW3664)

deletion

deletion

PMID:16738554

Shigen
CGSC10690[5]

ΔibpA723::kan

PMID:16738554

CGSC:101516


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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

JW3664

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCCGTAACTTTGATTTATCCCC

Primer 2:CCGTTGATTTCGATACGGCGCGG

3D1

Kohara Phage

Genobase

PMID:3038334

8E8

Kohara Phage

Genobase

PMID:3038334

zic-4901::Tn10

Linked marker

CAG18492 = CGSC7457[5]

est. P1 cotransduction: 21% [6]

zid-501::Tn10

Linked marker

CAG18499 = CGSC7458[5]

est. P1 cotransduction: 73% [6]

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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:EG11534

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11534

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001488

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:948200

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1496

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012058

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

IbpA

Synonyms

heat shock chaperone[1], B3687[2][1], HtpN[2][1], HslT[2][1], IbpA[2][1] , ECK3679, hslT, htpN, JW3664, b3687

Product description

small heat shock protein IbpA[2][3]

Chaperone, heat-inducible protein of HSP20 family[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:0005737

cytoplasm

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_02000

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0963

C

Seeded from EcoCyc (v14.0)

complete

GO:0005737

cytoplasm

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-0086

C

Seeded from EcoCyc (v14.0)

complete

GO:0006950

response to stress

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0346

P

Seeded from EcoCyc (v14.0)

complete

GO:0050821

protein stabilization

GOA:hamap
GO_REF:0000020

IEA: Inferred from Electronic Annotation

HAMAP:MF_02000

P

Seeded from EcoCyc (v14.0)

complete

GO:0009408

response to heat

PMID:8349564

IEP: Inferred from Expression Pattern

P

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

add

PMID:15690043

Experiment(s):EBI-880023

Protein

atpD

PMID:15690043

Experiment(s):EBI-880023

Protein

clpA

PMID:15690043

Experiment(s):EBI-880023, EBI-885106

Protein

ftsZ

PMID:15690043

Experiment(s):EBI-880023

Protein

gadA

PMID:15690043

Experiment(s):EBI-880023

Protein

gatY

PMID:15690043

Experiment(s):EBI-880023

Protein

ibpB

PMID:15690043

Experiment(s):EBI-880023, EBI-885106, EBI-885226

Protein

malK

PMID:15690043

Experiment(s):EBI-880023, EBI-885106

Protein

malT

PMID:15690043

Experiment(s):EBI-880023

Protein

metK

PMID:15690043

Experiment(s):EBI-880023, EBI-885106

Protein

mreB

PMID:15690043

Experiment(s):EBI-880023, EBI-893751

Protein

ompC

PMID:15690043

Experiment(s):EBI-880023

Protein

pflB

PMID:15690043

Experiment(s):EBI-880023, EBI-885106

Protein

pnp

PMID:15690043

Experiment(s):EBI-880023, EBI-885106

Protein

pstB

PMID:15690043

Experiment(s):EBI-880023, EBI-885106

Protein

rpoB

PMID:15690043

Experiment(s):EBI-880023

Protein

rpoC

PMID:15690043

Experiment(s):EBI-880023

Protein

tufA

PMID:15690043

Experiment(s):EBI-880023, EBI-885106

Protein

yjjL

PMID:15690043

Experiment(s):EBI-880023

Protein

rpsF

PMID:15690043

Experiment(s):EBI-885106

Protein

rpsG

PMID:15690043

Experiment(s):EBI-885106

Protein

uspA

PMID:15690043

Experiment(s):EBI-885106

Protein

uspG

PMID:15690043

Experiment(s):EBI-885106

Protein

ybiY

PMID:15690043

Experiment(s):EBI-885106

Protein

cbpM

PMID:15690043

Experiment(s):EBI-885106

Protein

clpB

PMID:15690043

Experiment(s):EBI-885106

Protein

dnaJ

PMID:15690043

Experiment(s):EBI-885106

Protein

eno

PMID:15690043

Experiment(s):EBI-885106

Protein

gatA

PMID:15690043

Experiment(s):EBI-885106

Protein

gatB

PMID:15690043

Experiment(s):EBI-885106

Protein

gpmA

PMID:15690043

Experiment(s):EBI-885106

Protein

hrpB

PMID:15690043

Experiment(s):EBI-885106

Protein

infB

PMID:15690043

Experiment(s):EBI-885106

Protein

lpdA

PMID:15690043

Experiment(s):EBI-885106

Protein

malZ

PMID:15690043

Experiment(s):EBI-885106

Protein

msbB

PMID:15690043

Experiment(s):EBI-885106

Protein

prc

PMID:15690043

Experiment(s):EBI-885106

Protein

proS

PMID:15690043

Experiment(s):EBI-885106

Protein

radC

PMID:15690043

Experiment(s):EBI-885106

Protein

rpsA

PMID:15690043

Experiment(s):EBI-885106

Protein

rpsB

PMID:15690043

Experiment(s):EBI-885106

Protein

pflB

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):17.053160

Protein

pnp

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):17.053160

Protein

eno

PMID:19402753

LCMS(ID Probability):99.0

Protein

clpA

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):17.053160

Protein

infB

PMID:19402753

LCMS(ID Probability):99.0

Protein

atpD

PMID:19402753

MALDI(Z-score):17.053160

Protein

uspG

PMID:19402753

LCMS(ID Probability):99.0

Protein

metK

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):17.053160

Protein

uspA

PMID:19402753

LCMS(ID Probability):99.0

Protein

pstB

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):17.053160

Protein

dnaJ

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):2.708161

Protein

cbpM

PMID:19402753

LCMS(ID Probability):99.0

Protein

ftsZ

PMID:19402753

MALDI(Z-score):37.533852

Protein

gatB

PMID:19402753

LCMS(ID Probability):99.0

Protein

malZ

PMID:19402753

LCMS(ID Probability):99.0

Protein

yicR

PMID:19402753

LCMS(ID Probability):99.0

Protein

malT

PMID:19402753

MALDI(Z-score):17.702644

Protein

add

PMID:19402753

MALDI(Z-score):17.053160

Protein

gatY

PMID:19402753

MALDI(Z-score):17.053160

Protein

malK

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):36.763598

Protein

ibpB

PMID:19402753

LCMS(ID Probability):99.0 MALDI(Z-score):38.694244

Protein

ybiY

PMID:19402753

LCMS(ID Probability):99.0

Protein

yjjL

PMID:19402753

MALDI(Z-score):17.053160

Protein

lpxM

PMID:19402753

LCMS(ID Probability):99.0

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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 

MRNFDLSPLY RSAIGFDRLF NHLENNQSQS NGGYPPYNVE LVDENHYRIA IAVAGFAESE
LEITAQDNLL VVKGAHADEQ KERTYLYQGI AERNFERKFQ LAENIHVRGA NLVNGLLYID
LERVIPEAKK PRRIEIN
Length

137

Mol. Wt

15.773 kDa

pI

5.7 (calculated)

Extinction coefficient

10,430 (calc based on 7 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

39..137

PF00011 Hsp20/alpha crystallin 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=ibpA 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:16131555

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948200

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012058

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0C054

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG11534

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11534

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948200

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001488

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1496

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

2.66E+03

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

Ecoli K-12

217.956+/-2.625

Molecules/cell

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

Single Molecule Fluorescence

PMID:20671182

mRNA

Ecoli K-12

0.28592+/-0.01509

Molecules/cell

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

by FISH

PMID:20671182

Protein

E. coli K-12 MG1655

2834

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

666

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

2032

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)

ibpAB

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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_000913:3865425..3865465 source=MG1655 flip=1 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

</protect>

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:b3687 (EcoliWiki Page)

NCBI GEO profiles for ibpA

microarray

GenExpDB:b3687 (EcoliWiki Page)

Summary of data for ibpA 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 ibpA Expression

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

Database Accession Notes

EcoCyc

EcoCyc:EG11534

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1496

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b3687

EcoGene

EcoGene:EG11534

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001488

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012058

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

  • ENSANGP00000000082 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

IBPA

From SHIGELLACYC

E. coli O157

IBPA

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)

PF00011 Hsp20/alpha crystallin family

Superfamily (EcoliWiki Page)

SUPERFAMILY:49764

Panther (EcoliWiki Page)

PTHR11527:SF15

EcoCyc

EcoCyc:EG11534

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG11534

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120001488

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB1496

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0012058

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).

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