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On One Page

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Gene |

Product(s) |

Expression|

Evolution |

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Standard Name	rbsK
Gene Synonym(s)	ECK3746, b3752, JW3731^[1], JW3731
Product Desc.	Ribokinase^[2]
Product Synonyms(s)	ribokinase^[1], B3752^[3]^[1], RbsK^[3]^[1], ATP:D-ribose 5-phosphotransferase^[3]^[1] , ECK3746, JW3731, b3752
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): rbsDACBKR^[3], OP00289
Regulation/Activity
Quick Links
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Notes

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HT_Cmplx20_Cyt: Prs+RbsK.^[2]

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	rbsK
Mnemonic	Ribose
Synonyms	ECK3746, b3752, JW3731^[1], JW3731
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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	84.82 minutes, 84.82 minutes	MG1655: 3935317..3936246 <gbrowseImage> name=NC_000913:3935317..3936246 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 3899101..3900030 <gbrowseImage> name=NC_012967:3899101..3900030 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 3823650..3824579 <gbrowseImage> name=NC_012759:3823650..3824579 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 3699387..3698458 <gbrowseImage> name=NC_007779:3698458..3699387 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 4032901..4033830 <gbrowseImage> name=NC_010473:4032901..4033830 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	3935317	Edman degradation	PMID:3011794
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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
rbsK(del) (Keio:JW3731)	deletion	deletion			PMID:16738554	Shigen CGSC10724^[4]
rbsK3						CGSC:6345
rbsK781(del)::kan					PMID:16738554	CGSC:102606
fucA(del) fucO(del) rbsK(del)	deletion	deletion	in vivo	Triple mutant caused elimination of colony in vivo (mice), FIgure 2.	PMID:17709419	Parental: MG1655
rbsK781(del)::FRTKanFRT	deletion		Mutagenesis Rate	Decrease in Stress Induced Mutagenesis (SIM).	PMID:23224554	Parent Strain: SMR4562 Experimental Strain: SMR12584	The mutation conferred a strong decrease in the SIM with mutant frequency reduced by over 90 percent. See table S3 for full experimental data.
SMR4562 yiaG-yfp FRTcatFRT rbsK781(del)::FRTKanFRT	Deletion		Sigma^S activity	See table S8 for full experimental data.	PMID:23224554	Parental Strain: SMR10582 Experimental Strain: SMR13312	See table S8 for full experimental strain
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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
JW3731	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCCAAAACGCAGGCAGCCTCGT Primer 2:CCtCTCTGCCTGTCTAAAAATGC
15D10	Kohara Phage	Genobase	PMID:3038334
4F4	Kohara Phage	Genobase	PMID:3038334
rbsD296::Tn10	Linked marker	CAG18501 = CGSC7460^[4]	est. P1 cotransduction: 83% ^[5] Synonyms:zie-296::Tn10
ilvD500::Tn10	Linked marker	CAG18431 = CGSC7462^[4]	est. P1 cotransduction: 53% ^[5] Synonyms:ilv500::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:EG10818	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10818	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000809	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:948260	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0811	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012266	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	RbsK
Synonyms	ribokinase^[1], B3752^[3]^[1], RbsK^[3]^[1], ATP:D-ribose 5-phosphotransferase^[3]^[1] , ECK3746, JW3731, b3752
Product description	Ribokinase^[2]
EC number (for enzymes)	2.7.1.15^[1]
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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:0004747	ribokinase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR002139	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004747	ribokinase activity	GOA:interpro GO_REF:0000002	IEA: Inferred from Electronic Annotation	InterPro:IPR011877	F	Seeded from EcoCyc (v14.0)	complete
	GO:0004747	ribokinase activity	GOA:spec GO_REF:0000003	IEA: Inferred from Electronic Annotation	EC:2.7.1.15	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: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
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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	ompR		PMID:16606699	Experiment(s):EBI-1146645
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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 MQNAGSLVVL GSINADHILN LQSFPTPGET VTGNHYQVAF GGKGANQAVA AGRSGANIAF IACTGDDSIG ESVRQQLATD NIDITPVSVI KGESTGVALI FVNGEGENVI GIHAGANAAL SPALVEAQRE RIANASALLM QLESPLESVM AAAKIAHQNK TIVALNPAPA RELPDELLAL VDIITPNETE AEKLTGIRVE NDEDAAKAAQ VLHEKGIRTV LITLGSRGVW ASVNGEGQRV PGFRVQAVDT IAAGDTFNGA LITALLEEKP LPEAIRFAHA AAAIAVTRKG AQPSVPWREE IDAFLDRQR
Length	309
Mol. Wt	32.29 kDa
pI	4.9 (calculated)
Extinction coefficient	12,490 - 12,615 (calc based on 1 Y, 2 W, and 1 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	4..298	PF00294 pfkB family carbohydrate kinase		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=rbsK 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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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:16131620	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:948260	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012266	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P0A9J6	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10818	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10818	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:948260	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000809	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0811	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 MC4100	4.20E+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	816	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	144	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	385	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)
rbsDACBKR
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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_000913:3935297..3935337 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:b3752 (EcoliWiki Page)	NCBI GEO profiles for rbsK
microarray	GenExpDB:b3752 (EcoliWiki Page)	Summary of data for rbsK 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 rbsK Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10818	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0811	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b3752
EcoGene	EcoGene:EG10818	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000809	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012266	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
Anopheles gambiae	ENSANGP00000010594 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Apis mellifera	ENSAPMP00000025742 (score: 1.000; bootstrap: 77%)	From Inparanoid:20070104
Arabidopsis thaliana	AT1G17160 (score: 1.000; bootstrap: 96%)	From Inparanoid:20070104
Bos taurus	ENSBTAP00000015052 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis briggsae	WBGene00025817 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Caenorhabditis elegans	WBGene00008548 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Canis familiaris	ENSCAFP00000007761 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Ciona intestinalis	ENSCINP00000012547 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Danio rerio	ZDB-GENE-040625-112 (score: 1.000; bootstrap: 99%) ZDB-CDNA-040625-167 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Dictyostelium discoideum	DDB0231353 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Drosophila melanogaster	FBgn0025640 (score: 1.000; bootstrap: 100%) FBgn0032424 (score: 0.265)	From Inparanoid:20070104
Drosophila pseudoobscura	GA12236-PA (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Gallus gallus	ENSGALP00000016302 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Homo sapiens	ENSP00000306817 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Macaca mulatta	ENSMMUP00000018984 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000019446 (score: 1.000; bootstrap: 94%)	From Inparanoid:20070104
Mus musculus	MGI:1918586 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Oryza gramene	Q5SN59 (score: 1.000; bootstrap: 90%)	From Inparanoid:20070104
Pan troglodytes	ENSPTRP00000020233 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Rattus norvegicus	ENSRNOP00000006452 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Saccharomyces cerevisiae	YCR036W (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Schizosaccharomyces pombe	SPBC16G52c (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Takifugu rubripes	NEWSINFRUP00000173799 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Tetraodon nigroviridis	GSTENP00034745001 (score: 1.000; bootstrap: 100%)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000014188 (score: 1.000; bootstrap: 99%)	From Inparanoid:20070104
Shigella flexneri	RBSK	From SHIGELLACYC
E. coli O157	RBSK	From ECOO157CYC
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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)	PF00294 pfkB family carbohydrate kinase
Superfamily (EcoliWiki Page)	SUPERFAMILY:53613
Panther (EcoliWiki Page)	PTHR10584:SF94
EcoCyc	EcoCyc:EG10818	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10818	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000809	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0811	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0012266	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 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
↑ ^2.0 ^2.1 ^2.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
↑ ^3.0 ^3.1 ^3.2 ^3.3 ^3.4 ^3.5 ^3.6 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
↑ ^4.0 ^4.1 ^4.2 CGSC: The Coli Genetics Stock Center
↑ ^5.0 ^5.1 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).

rbsK: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 rbsK Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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