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Standard Name	hrpB
Gene Synonym(s)	ECK0147, b0148, JW0144, yadO^[1], yadO
Product Desc.	predicted ATP-dependent helicase^[2]^[3] RNA helicase-like; similarity to eukaryotic DEAH family and araC^[4]
Product Synonyms(s)	predicted ATP-dependent helicase^[1], B0148^[2]^[1], YadO^[2]^[1], HrpB^[2]^[1] , ECK0147, JW0144, yadO, b0148
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): hrpB^[2]
Regulation/Activity
Quick Links
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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	hrpB
Mnemonic	Helicase-related protein
Synonyms	ECK0147, b0148, JW0144, yadO^[1], yadO
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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	3.49 minutes	MG1655: 162105..164534 <gbrowseImage> name=NC_000913:162105..164534 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 164956..167385 <gbrowseImage> name=NC_012967:164956..167385 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 162104..164533 <gbrowseImage> name=NC_012759:162104..164533 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 162105..164534 <gbrowseImage> name=NC_007779:162105..164534 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 136209..138638 <gbrowseImage> name=NC_010473:136209..138638 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
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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
hrpB(del) (Keio:JW0144)	deletion	deletion			PMID:16738554	Shigen CGSC8414^[5]
hrpB(del)::kan	deletion		Biolog:respiration	unable to respire D-Mannose	PMID:16095938
hrpB(del)::kan	deletion		Biolog:respiration	unable to respire Acetate	PMID:16095938
hrpB764(del)::kan					PMID:16738554	CGSC:101406
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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
JW0144	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCTCGTCGTTGCCCGTTGCTGC Primer 2:CCCGAATACTTTTTCGTCCGTCG
15A7	Kohara Phage	Genobase	PMID:3038334
zad-220::Tn10	Linked marker	CAG12025 = CGSC7326^[5]	est. P1 cotransduction: 62% ^[6]
yafC502::Tn10	Linked marker	CAG18436 = CGSC7328^[5]	est. P1 cotransduction: 2% ^[6] Synonyms:zae-502::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:EG12329	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12329	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002204	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:944845	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2233	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000510	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	HrpB
Synonyms	predicted ATP-dependent helicase^[1], B0148^[2]^[1], YadO^[2]^[1], HrpB^[2]^[1] , ECK0147, JW0144, yadO, b0148
Product description	predicted ATP-dependent helicase^[2]^[3] RNA helicase-like; similarity to eukaryotic DEAH family and araC^[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:0000166	nucleotide binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0547	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003676	nucleic acid binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001650	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003676	nucleic acid binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011545	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004386	helicase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001650	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004386	helicase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR007502	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004386	helicase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0347	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR001650	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011545	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005524	ATP binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0067	F	Seeded from EcoCyc (v14.0)	complete
	GO:0008026	ATP-dependent helicase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011545	F	Seeded from EcoCyc (v14.0)	complete
	GO:0016787	hydrolase activity	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0378	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	References	Evidence
Protein	aceF	PMID:15690043	Experiment(s):EBI-884833
Protein	lpdA	PMID:15690043	Experiment(s):EBI-884833, EBI-891778
Protein	rplL	PMID:15690043	Experiment(s):EBI-891778
Protein	dnaK	PMID:16606699	Experiment(s):EBI-1135720
Protein	rplL	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 MLQCGAKNVN PLERFVSSLP VAAVLPELLT ALDCAPQVLL SAPTGAGKST WLPLQLLAHP GINGKIILLE PRRLAARNVA QRLAELLNEK PGDTVGYRMR AQNCVGPNTR LEVVTEGVLT RMIQRDPELS GVGLVILDEF HERSLQADLA LALLLDVQQG LRDDLKLLIM SATLDNDRLQ QMLPEAPVVI SEGRSFPVER RYLPLPAHQR FDDAVAVATA EMLRQESGSL LLFLPGVGEI QRVQEQLASR IGSDVLLCPL YGALSLNDQR KAILPAPQGM RKVVLATNIA ETSLTIEGIR LVVDCAQERV ARFDPRTGLT RLITQRVSQA SMTQRAGRAG RLEPGISLHL IAKEQAERAA AQSEPEILQS DLSGLLMELL QWGCSDPAQM SWLDQPPVVN LLAAKRLLQM LGALEGERLS AQGQKMAALG NDPRLAAMLV SAKNDDEAAT AAKIAAILEE PPRMGNSDLG VAFSRNQPAW QQRSQQLLKR LNVRGGEADS SLIAPLLAGA FADRIARRRG QDGRYQLANG MGAMLDANDA LSRHEWLIAP LLLQGSASPD ARILLALLVD IDELVQRCPQ LVQQSDTVEW DDAQGTLKAW RRLQIGQLTV KVQPLAKPSE DELHQAMLNG IRDKGLSVLN WTAEAEQLRL RLLCAAKWLP EYDWPAVDDE SLLAALETWL LPHMTGVHSL RGLKSLDIYQ ALRGLLDWGM QQRLDSELPA HYTVPTGSRI AIRYHEDNPP ALAVRMQEMF GEATNPTIAQ GRVPLVLELL SPAQRPLQIT RDLSDFWKGA YREVQKEMKG RYPKHVWPDD PANTAPTRRT KKYS
Length	824
Mol. Wt	90.819 kDa
pI	6.6 (calculated)
Extinction coefficient	93,390 - 94,390 (calc based on 11 Y, 14 W, and 8 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	References
Domain	7..167	PF00270 DEAD/DEAH box helicase	PMID:19920124
Domain	388..504	PF04408 Helicase associated domain (HA2)	PMID:19920124
Domain	237..328	PF00271 Helicase conserved C-terminal domain	PMID:19920124
Domain	664..796	PF08482 ATP-dependent helicase C-terminal	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=hrpB 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:162135893	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:944845	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000510	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P37024	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG12329	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12329	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:944845	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002204	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2233	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	Reference(s)
Protein	E. coli K-12 MG1655	134	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	39	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	60	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)
hrpB
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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_000913:162085..162125 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:b0148 (EcoliWiki Page)	NCBI GEO profiles for hrpB
microarray	GenExpDB:b0148 (EcoliWiki Page)	Summary of data for hrpB 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 (161956..162064) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ10; Well:A1^[7]
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Notes

Accessions Related to hrpB Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG12329	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2233	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0148
EcoGene	EcoGene:EG12329	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002204	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000510	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	HRPB	From SHIGELLACYC
E. coli O157	HRPB	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)	PF00271 Helicase conserved C-terminal domain
Pfam (EcoliWiki Page)	PF04408 Helicase associated domain (HA2)
Pfam (EcoliWiki Page)	PF00270 DEAD/DEAH box helicase
Superfamily (EcoliWiki Page)	SUPERFAMILY:52540
Pfam (EcoliWiki Page)	PF08482 ATP-dependent helicase C-terminal
EcoCyc	EcoCyc:EG12329	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG12329	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120002204	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB2233	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0000510	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.

↑ ^1.0 ^1.1 ^1.2 ^1.3 ^1.4 ^1.5 ^1.6 ^1.7 ^1.8 ^1.9 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 ^2.3 ^2.4 ^2.5 ^2.6 ^2.7 ^2.8 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 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

hrpB: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 hrpB Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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