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Expression|

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Standard Name	ibpB
Gene Synonym(s)	ECK3678, b3686, JW3663, hslS, htpE, hslT^[1]^[2]
Product Desc.	small heat shock protein IbpB^[2]^[3] Chaperone, heat-inducible protein of HSP20 family^[4]
Product Synonyms(s)	heat shock chaperone^[1], HslS^[2]^[1], B3686^[2]^[1], HtpE^[2]^[1], HslT^[2]^[1], IbpB^[2]^[1] , ECK3678, hslS, htpE, JW3663, b3686
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): ibpB^[2], ibpAB^[2], hslTS
Regulation/Activity
Quick Links
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Notes

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RpoH regulon. 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	ibpB
Mnemonic	Inclusion body protein
Synonyms	ECK3678, b3686, JW3663, hslS, htpE, hslT^[1]^[2]
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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	83.29 minutes	MG1655: 3864920..3864492 <gbrowseImage> name=NC_000913:3864492..3864920 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3827231..3826830 <gbrowseImage> name=NC_012967:3826830..3827231 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3752825..3753253 <gbrowseImage> name=NC_012759:3752825..3753253 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3773518..3773946 <gbrowseImage> name=NC_007779:3773518..3773946 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 3962504..3962076 <gbrowseImage> name=NC_010473:3962076..3962504 source=DH10B preset=GeneLocation </gbrowseImage>	GBrowse(DH10B)	FASTA Dump
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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	3864492	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)	Reference	Availability	Comments
ΔibpB (Keio:JW3663)	deletion	deletion	PMID:16738554	Shigen CGSC10689^[5]
ibpB::Tn5KAN-I-SceI (FB21396)	Insertion at nt 301 in Plus orientation		PMID:15262929	E. coli Genome Project:FB21396	contains pKD46
ibpB::Tn5KAN-I-SceI (FB21397)	Insertion at nt 301 in Plus orientation		PMID:15262929	E. coli Genome Project:FB21397	does not contain pKD46
ΔibpB722::kan			PMID:16738554	CGSC:101518
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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
JW3663	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCCGTAACTTCGATTTATCCCC Primer 2:CCGCTATTTAACGCGGGACGTTC
3D1	Kohara Phage	Genobase	PMID:3038334
8E8	Kohara Phage	Genobase	PMID:3038334
zic-4901::Tn10	Linked marker	CAG18492 = CGSC7457^[5]	est. P1 cotransduction: 22% ^[6]
zid-501::Tn10	Linked marker	CAG18499 = CGSC7458^[5]	est. P1 cotransduction: 72% ^[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:EG11535	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11535	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001489	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948192	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1497	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012054	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	IbpB
Synonyms	heat shock chaperone^[1], HslS^[2]^[1], B3686^[2]^[1], HtpE^[2]^[1], HslT^[2]^[1], IbpB^[2]^[1] , ECK3678, hslS, htpE, JW3663, b3686
Product description	small heat shock protein IbpB^[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_02001	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_02001	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	References	Evidence
Protein	add	PMID:15690043	Experiment(s):EBI-880082
Protein	gadB	PMID:15690043	Experiment(s):EBI-880082
Protein	gatY	PMID:15690043	Experiment(s):EBI-880082
Protein	lpdA	PMID:15690043	Experiment(s):EBI-880082
Protein	malK	PMID:15690043	Experiment(s):EBI-880082
Protein	malT	PMID:15690043	Experiment(s):EBI-880082
Protein	mreB	PMID:15690043	Experiment(s):EBI-880082
Protein	pstB	PMID:15690043	Experiment(s):EBI-880082
Protein	tufA	PMID:15690043	Experiment(s):EBI-880082
Protein	gatY	PMID:19402753	MALDI(Z-score):34.764539
Protein	malT	PMID:19402753	MALDI(Z-score):18.889170
Protein	add	PMID:19402753	MALDI(Z-score):37.603326
Protein	pstB	PMID:19402753	MALDI(Z-score):23.999457
Protein	mreB	PMID:19402753	MALDI(Z-score):35.547198
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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 MTMRNFDLSP LMRQWIGFDK LANALQNAGE SQSFPPYNIE KSDDNHYRIT LALAGFRQED LEIQLEGTRL SVKGTPEQPK EEKKWLHQGL MNQPFSLSFT LAENMEVSGA TFVNGLLHID LIRNEPEPIA AQRIAISERP ALNS
Length	144
Mol. Wt	16.325 kDa
pI	5.1 (calculated)
Extinction coefficient	13,980 (calc based on 2 Y, 2 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	37..135	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=ibpB 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:90111637	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948192	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012054	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0C058	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11535	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11535	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948192	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001489	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1497	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	8.59E+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	Ecoli K-12	15.185+/-0.796	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
Protein	E. coli K-12 MG1655	620	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	138	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	585	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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See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)
ibpB
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_000913:3864900..3864940 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

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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:b3686 (EcoliWiki Page)	NCBI GEO profiles for ibpB
microarray	GenExpDB:b3686 (EcoliWiki Page)	Summary of data for ibpB 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 (3864458..3864663) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ11; Well:C7^[7]
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Notes

Accessions Related to ibpB Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11535	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1497	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3686
EcoGene	EcoGene:EG11535	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001489	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012054	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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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	IBPB	From SHIGELLACYC
E. coli O157	IBPB	From ECOO157CYC
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Do-It-Yourself Web Tools

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
EcoCyc	EcoCyc:EG11535	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11535	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001489	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1497	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012054	Escherichia coli str. K-12 substr. MG1655
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Notes

Links

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Name	URL	Comments
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References

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See Help:References for how to manage references in EcoliWiki.

↑ ^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 ^1.13 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.00 ^2.01 ^2.02 ^2.03 ^2.04 ^2.05 ^2.06 ^2.07 ^2.08 ^2.09 ^2.10 ^2.11 ^2.12 ^2.13 ^2.14 ^2.15 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^3.0 ^3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^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.
↑ ^5.0 ^5.1 ^5.2 CGSC: The Coli Genetics Stock Center
↑ ^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).
↑ Zaslaver, A et al. (2006) A comprehensive library of fluorescent transcriptional reporters for Escherichia coli. Nat. Methods 3 623-8 PubMed

ibpB:On One Page

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Notes

Gene

Nomenclature

Notes

Location(s) and DNA Sequence

Notes

Sequence Features

Notes

Alleles and Phenotypes

Notes

Genetic Interactions

Notes

Genetic Resources

Notes

Accessions in Other Databases

Notes

Links

Product(s)

Nomenclature

Notes

Function

Notes

Localization

Notes

Structure and Physical Properties

Structure figures

Notes

Gene Product Resources

Notes

Accessions in Other Databases

Notes

Links

Expression

Overview

Cellular Levels

Notes

Transcription and Transcriptional Regulation

Notes

Translation and Regulation of Translation

Notes

Turnover and Regulation of Turnover

Notes

Experimental

Notes

Accessions Related to ibpB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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