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Gene |

Product(s) |

Expression|

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Standard Name	rob
Gene Synonym(s)	ECK4388, b4396, JW4359, cbpB, robA^[1], robA
Product Desc.	Rob transcriptional activator^[2]^[3] Right oriC-binding protein, AraC family^[4]
Product Synonyms(s)	DNA-binding transcriptional activator ^[1], B4396 ^[2]^[1], RobA ^[2]^[1], CbpB ^[2]^[1], Rob ^[2]^[1], right origin-binding protein ^[2]^[1] , cbpB, ECK4388, JW4359, robA, b4396
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): rob^[2]
Regulation/Activity
Quick Links
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Notes

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Rob binds to right border of the oriC origin of chromsome replication.^[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	rob
Mnemonic	Right oriC binding
Synonyms	ECK4388, b4396, JW4359, cbpB, robA^[1], robA
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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	99.84 minutes	MG1655: 4633333..4632464 <gbrowseImage> name=NC_000913:4632464..4633333 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 4623470..4622601 <gbrowseImage> name=NC_012967:4622601..4623470 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 4570948..4571817 <gbrowseImage> name=NC_012759:4570948..4571817 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 4639990..4639121 <gbrowseImage> name=NC_007779:4639121..4639990 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 4679795..4678926 <gbrowseImage> name=NC_010473:4678926..4679795 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	4632464	Edman degradation	PMID:8449900
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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
Δrob (Keio:JW4359)	deletion	deletion	PMID:16738554	Shigen CGSC11112^[5]
rob-1				CGSC:64932
Δrob-721::kan			PMID:16738554	CGSC:102760
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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
JW4359	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCGATCAaGCCGGCATTATTCGCGACCTT Primer 2:CCACGACGGATCGGAATCAGCAG
12A4	Kohara Phage	Genobase	PMID:3038334
15A5	Kohara Phage	Genobase	PMID:3038334
mdoB202::Tn10	Linked marker	CAG18430 = CGSC7488^[5]	est. P1 cotransduction: 19% ^[6] Synonyms:zjj-202::Tn10, zji-202::Tn10
thrA34::Tn10	Linked marker	CAG18442 = CGSC7320^[5]	est. P1 cotransduction: 78% ^[6] Synonyms:thr-34::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:EG11366	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11366	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001334	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948916	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1340	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0014420	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	Rob
Synonyms	DNA-binding transcriptional activator ^[1], B4396 ^[2]^[1], RobA ^[2]^[1], CbpB ^[2]^[1], Rob ^[2]^[1], right origin-binding protein ^[2]^[1] , cbpB, ECK4388, JW4359, robA, b4396
Product description	Rob transcriptional activator^[2]^[3] Right oriC-binding protein, AraC 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:0003677	DNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR012287	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003677	DNA binding	GOA:spkw SP_KW:GO_REF:0000004	IEA: Inferred from Electronic Annotation	SP_KW:KW-0238	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003700	transcription factor activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000005	F	Seeded from EcoCyc (v14.0)	complete
	GO:0003700	transcription factor activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR020449	F	Seeded from EcoCyc (v14.0)	complete
	GO:0005622	intracellular	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000005	C	Seeded from EcoCyc (v14.0)	complete
	GO:0005622	intracellular	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR020449	C	Seeded from EcoCyc (v14.0)	complete
	GO:0006355	regulation of transcription, DNA-dependent	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000005	P	Seeded from EcoCyc (v14.0)	complete
	GO:0006355	regulation of transcription, DNA-dependent	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR020449	P	Seeded from EcoCyc (v14.0)	complete
	GO:0043565	sequence-specific DNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR000005	F	Seeded from EcoCyc (v14.0)	complete
	GO:0043565	sequence-specific DNA binding	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR020449	F	Seeded from EcoCyc (v14.0)	complete
	GO:0043565	sequence-specific DNA binding	PMID:10551881	IDA: Inferred from Direct Assay		F		complete
	GO:0045449	regulation of transcription	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR012287	P	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	rpsT	PMID:19402753	LCMS(ID Probability):99.6
Protein	ihfA	PMID:19402753	LCMS(ID Probability):99.6
Protein	phnI	PMID:19402753	LCMS(ID Probability):99.6
Protein	polA	PMID:19402753	LCMS(ID Probability):99.6 MALDI(Z-score):5.353895
Protein	hns	PMID:19402753	LCMS(ID Probability):99.6
Protein	rpoA	PMID:19402753	LCMS(ID Probability):99.6
Protein	hupA	PMID:19402753	LCMS(ID Probability):99.6 MALDI(Z-score):2.522944
Protein	phnG	PMID:19402753	LCMS(ID Probability):99.6
Protein	hupB	PMID:19402753	LCMS(ID Probability):99.6
Protein	stpA	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 MDQAGIIRDL LIWLEGHLDQ PLSLDNVAAK AGYSKWHLQR MFKDVTGHAI GAYIRARRLS KSAVALRLTA RPILDIALQY RFDSQQTFTR AFKKQFAQTP ALYRRSPEWS AFGIRPPLRL GEFTMPEHKF VTLEDTPLIG VTQSYSCSLE QISDFRHEMR YQFWHDFLGN APTIPPVLYG LNETRPSQDK DDEQEVFYTT ALAQDQADGY VLTGHPVMLQ GGEYVMFTYE GLGTGVQEFI LTVYGTCMPM LNLTRRKGQD IERYYPAEDA KAGDRPINLR CELLIPIRR
Length	289
Mol. Wt	33.145 kDa
pI	7.2 (calculated)
Extinction coefficient	42,860 - 43,235 (calc based on 14 Y, 4 W, and 3 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	66..105	PF00165 Bacterial regulatory helix-turn-helix proteins, AraC family	PMID:19920124
Domain	126..288	PF06445 Bacterial transcription activator, effector binding domain	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=rob 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:16132213	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948916	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0014420	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0ACI0	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG11366	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11366	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948916	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001334	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1340	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	1.98E+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	0.273+/-0.045	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		Single Molecule Fluorescence	PMID:20671182
mRNA	Ecoli K-12	0.154775604	Molecules/cell	Medium: Temperature (°C): Doubling time (min): Growth Rate(min): * Growth phase: other: *		by RNA_Seq	PMID:20671182
Protein	E. coli K-12 MG1655	1593	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	673	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	1260	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)
rob
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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_000913:4633313..4633353 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

</protect>

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:b4396 (EcoliWiki Page)	NCBI GEO profiles for rob
microarray	GenExpDB:b4396 (EcoliWiki Page)	Summary of data for rob 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 (4632786..4633124) fused to gfpmut2.	OpenBioSystems	GFP fusion described in Zaslaver, et al. Plate:109-AZ13; Well:B11^[7]
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Notes

Accessions Related to rob Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG11366	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1340	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b4396
EcoGene	EcoGene:EG11366	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001334	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0014420	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	ROB	From SHIGELLACYC
E. coli O157	ROB	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)	PF00165 Bacterial regulatory helix-turn-helix proteins, AraC family
Superfamily (EcoliWiki Page)	SUPERFAMILY:46689
Superfamily (EcoliWiki Page)	SUPERFAMILY:46689
Superfamily (EcoliWiki Page)	SUPERFAMILY:55136
Pfam (EcoliWiki Page)	PF06445 Bacterial transcription activator, effector binding domain
EcoCyc	EcoCyc:EG11366	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG11366	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120001334	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB1340	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0014420	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 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

rob: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 rob Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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