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Gene |

Product(s) |

Expression|

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Standard Name	rhsC
Gene Synonym(s)	ECK0689, b0700, JW0689^[1], JW0689
Product Desc.	RhsC protein in rhs element^[2]^[3] Function unknown, encoded within RhsC repeat; hotspot for chromosomal duplication formation^[4]
Product Synonyms(s)	rhsC element core protein RshC^[1], B0700^[2]^[1], RhsC^[2]^[1] , ECK0689, JW0689, b0700
Function from GO	<GO_nr />
Knock-Out Phenotype
Regulation/Expression	transcription unit(s): rhsC^[2]
Regulation/Activity
Quick Links
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Notes

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Swiss-Prot prediction of 26 aa signal peptide is a probable false positve.^[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	rhsC
Mnemonic	Recombination hotsot
Synonyms	ECK0689, b0700, JW0689^[1], JW0689
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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	15.71 minutes	MG1655: 728806..732999 <gbrowseImage> name=NC_000913:728806..732999 source=MG1655 preset=GeneLocation </gbrowseImage>	EcoCyc GBrowse(MG1655)	FASTA Dump EcoCyc Sequence Dump
REL606		NC_012967: 711856..713520 <gbrowseImage> name=NC_012967:711856..713520 source=REL606 preset=GeneLocation </gbrowseImage>	GBrowse (REL606)	FASTA Dump
BW2952		NC_012759: 631566..635759 <gbrowseImage> name=NC_012759:631566..635759 source=BW2952 preset=GeneLocation </gbrowseImage>	GBrowse (BW2952)	FASTA Dump
W3110		W3110: 730005..734198 <gbrowseImage> name=NC_007779:730005..734198 source=W3110 preset=GeneLocation </gbrowseImage>	GBrowse(W3110)	FASTA Dump
DH10B		DH10B: 781398..785591 <gbrowseImage> name=NC_010473:781398..785591 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)	Reference	Availability
ΔrhsC (Keio:JW0689)	deletion	deletion	PMID:16738554	Shigen CGSC8769^[5]
ΔrhsC750::kan			PMID:16738554	CGSC:102700
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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
JW0689	Plasmid clone	Shigen	PMID:16769691 Status:Clone OK Primer 1:GCCAGCGGAAAACCGGCGGCGCG Primer 2:CCCATCACTCCGGTGAATACAAA
3G6	Kohara Phage	Genobase	PMID:3038334
asnB3057::Tn10	Linked marker	CAG18433 = CGSC7349^[5]	est. P1 cotransduction: 34% ^[6] Synonyms:zbf-3057::Tn10 nnnThe Tn10 in CAG18433 is inserted in the asnB regulatory region, 4 bp before the start of the asnB ORF.
nadA57::Tn10	Linked marker	CAG12147 = CGSC7351^[5]	est. P1 cotransduction: 9% ^[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:EG10848	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10848	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000839	Escherichia coli str. K-12 substr. MG1655
NCBI (EcoliWiki Page)	GeneID:945306	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0841	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002392	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	RhsC
Synonyms	rhsC element core protein RshC^[1], B0700^[2]^[1], RhsC^[2]^[1] , ECK0689, JW0689, b0700
Product description	RhsC protein in rhs element^[2]^[3] Function unknown, encoded within RhsC repeat; hotspot for chromosomal duplication formation^[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
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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	dnaK	PMID:16606699	Experiment(s):EBI-1137716
Protein	rhsA	PMID:16606699	Experiment(s):EBI-1137716
Protein	groL	PMID:16606699	Experiment(s):EBI-1137716
Protein	ybfO	PMID:16606699	Experiment(s):EBI-1137716, EBI-1137722
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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 MSGKPAARQG DMTQYGGSIV QGSAGVRIGA PTGVACSVCP GGVTSGHPVN PLLGAKVLPG ETDIALPGPL PFILSRTYSS YRTKTPAPVG SLGPGWKMPA DIRLQLRDNT LILSDNGGRS LYFEHLFPGE DGYSRSESLW LVRGGVAKLD EGHRLAALWQ ALPEELRLSP HRYLATNSPQ GPWWLLGWCE RVPEADEVLP APLPPYRVLT GLVDRFGRTQ TFHREAAGEF SGEITGVTDG AGRHFRLVLT TQAQRAEEAR QQAISGGTEP SAFPDTLPGY TEYGRDNGIR LSAVWLTHDP EYPENLPAAP LVRYGWTPRG ELAAVYDRSN TQVRSFTYDD KYRGRMVAHR HTGRPEICYR YDSDGRVTEQ LNPAGLSYTY QYEKDRITIT DSLNRREVLH TQGEGGLKRV VKKEHADGSV TQSQFDAVGR LRAQTDAAGR TTEYSPDVVT GLITRITTPD GRASAFYYNH HSQLTSATGP DGLEIRREYD EWGRLIQETA PDGDITRYRY DNPHSDLPCA TEDATGSRKT MTWSRYGQLL SFTDCSGYVT RYDHDRFGQV TAVHREEGLS QYRAYDSRGQ LIAVKDTQGH ETRYEYNAAG DLTTVIAPDG SRNGTQYDAW GKAICTTQGG LTRSMEYDAA GRVIRLTSEN GSHTTFRYDV LDRLIQETGF DGRTQRYHHD LTGKLIRSED EGLVTHWHYD EADRLTHRTV NGETAERWQY DERGWLTDIS HISEGHRVTV HYGYDSKGRL ASEHLTVHHP QTNELLWQHE TRHAYNAQGL ANRCIPDSLP AVEWLTYGSG WLSGMKLGDT PLVEYTRDRL HRETLRSFGR YELTTAYTPA GQLQSQHLNS LLSDRDYTWN DNGELIRISS PRQTRSYSYS TTGRLTGVHT TAANLDIRIP YTTDPAGNRL PDPELHPDSA LSMWPDNRIA RDAHYLYRYD RHGRLTEKTD LIPEGVIRTD DERTHRYHYD SQHRLVHYTR TQYAEPLVES RYLYDPLGRR VAKRVWRRER DLTGWMSLSR KPQVTWYGWD GDRLTTIQND RTRIQTIYQP GSFTPLIRVE TATGELAKTQ RRSLADTLQQ SGGEDGGSVV FPPVLVQMLD RLESEILADR VSEESRRWLA SCGLTVAQMQ SQMDPVYTPA RKIHLYHCDH RGLPLALIST EGTTAWYAEY DEWGNLLNEE NPHQLQQLIR LPGQQYDEES GLYYNRHRYY DPLQGRYITQ DPIGLKGGWN FYQYPLNPIS NIDPLGLETL KCIKPLHSMG GTGERSGPDI WGNPFYHQYL CVPDGKGDYT CGGQDQRGES KGDGLWGPGK ASNDTKEAAG RCDLVETDNS CVENCLKGKF KEVRPRYSVL PDIFTPINLG LFKNCQDWSN DSLETCKMKC SGNNIGRFIR FVFTGVM
Length	1,397
Mol. Wt	157.778 kDa
pI	6.7 (calculated)
Extinction coefficient	278,240 - 280,615 (calc based on 76 Y, 30 W, and 19 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	1143..1183	PF03527 RHS protein	PMID:19920124
Domain	425..463	PF05593 RHS Repeat	PMID:19920124
Domain	468..505	PF05593 RHS Repeat	PMID:19920124
Domain	489..517	PF05593 RHS Repeat	PMID:19920124
Domain	533..570	PF05593 RHS Repeat	PMID:19920124
Domain	575..612	PF05593 RHS Repeat	PMID:19920124
Domain	637..674	PF05593 RHS Repeat	PMID:19920124
Domain	699..733	PF05593 RHS Repeat	PMID:19920124
Domain	939..985	PF05593 RHS Repeat	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=rhsC 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:16128676	Escherichia coli str. K-12 substr. MG1655
NCBI (Protein) (EcoliWiki Page)	GeneID:945306	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002392	Escherichia coli str. K-12 substr. MG1655
UniProt (EcoliWiki Page)	UniProtKB/Swiss-Prot:P16918	Escherichia coli str. K-12 substr. MG1655
EcoCyc	EcoCyc:EG10848	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10848	Escherichia coli str. K-12 substr. MG1655
NCBI (Gene) (EcoliWiki Page)	GeneID:945306	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000839	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0841	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 MG1655	0^a	molecules/cell/generation	Medium: MOPS Complete Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
Protein	E. coli K-12 MG1655	0^a	molecules/cell/generation	Medium: MOPS Minimal Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	PMID: 24766808
Protein	E. coli K-12 MG1655	0^a	molecules/cell/generation	Medium: MOPS Complete without Methionine Temperature (°C): 37 Doubling time (min): *Growth phase: OD: other:	Ribosome Profiling	Low confidence in the sequencing data set.	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)
rhsC
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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_000913:728786..728826 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:b0700 (EcoliWiki Page)	NCBI GEO profiles for rhsC
microarray	GenExpDB:b0700 (EcoliWiki Page)	Summary of data for rhsC 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 rhsC Expression

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

Database	Accession	Notes
EcoCyc	EcoCyc:EG10848	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0841	Escherichia coli str. K-12 substr. MG1655
EcoliGenExpDB (EcoliWiki Page)	EcoliGenExpDB:b0700
EcoGene	EcoGene:EG10848	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000839	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002392	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
Bos taurus	ENSBTAP00000009783 (score: 1.000; bootstrap: 100%) ENSBTAP00000039755 (score: 0.704) ENSBTAP00000036826 (score: 0.689) ENSBTAP00000018431 (score: 0.501) ENSBTAP00000034908 (score: 0.091) YP_026224 (score: 1.000; bootstrap: 100%) YP_026234 (score: 0.073)	From Inparanoid:20070104
Ciona intestinalis	ENSCINP00000017541 (score: 1.000; bootstrap: 100%) YP_026224 (score: 0.856) YP_026234 (score: 0.086)	From Inparanoid:20070104
Monodelphis domestica	ENSMODP00000009228 (score: 1.000; bootstrap: 100%) ENSMODP00000005061 (score: 0.735) ENSMODP00000005751 (score: 0.678) ENSMODP00000018654 (score: 0.620) YP_026224 (score: 1.000; bootstrap: 100%) YP_026234 (score: 0.087)	From Inparanoid:20070104
Mus musculus	MGI:1345183 (score: 1.000; bootstrap: 100%) MGI:2447063 (score: 0.698) MGI:1345184 (score: 0.693) MGI:1345185 (score: 0.609) YP_026224 (score: 1.000; bootstrap: 100%) YP_026234 (score: 0.080)	From Inparanoid:20070104
Xenopus tropicalis	ENSXETP00000003591 (score: 1.000; bootstrap: 69%) YP_026224 (score: 0.848)	From Inparanoid:20070104
E. coli O157	RHSC	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)	PF03527 RHS protein
Pfam (EcoliWiki Page)	PF05593 RHS Repeat
Pfam (EcoliWiki Page)	PF05593 RHS Repeat
Pfam (EcoliWiki Page)	PF05593 RHS Repeat
Pfam (EcoliWiki Page)	PF05593 RHS Repeat
Pfam (EcoliWiki Page)	PF05593 RHS Repeat
Pfam (EcoliWiki Page)	PF05593 RHS Repeat
Pfam (EcoliWiki Page)	PF05593 RHS Repeat
Pfam (EcoliWiki Page)	PF05593 RHS Repeat
EcoCyc	EcoCyc:EG10848	Escherichia coli str. K-12 substr. MG1655
EcoGene	EcoGene:EG10848	Escherichia coli str. K-12 substr. MG1655
RegulonDB	RegulonDB:ECK120000839	Escherichia coli str. K-12 substr. MG1655
EchoBASE	EchoBASE:EB0841	Escherichia coli str. K-12 substr. MG1655
ASAP	ASAP:ABE-0002392	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 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 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).

rhsC: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 rhsC Expression

Notes

Links

Evolution

Homologs in Other Organisms

Do-It-Yourself Web Tools

Notes

Families

Notes

Links

References

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