rhsC:Gene Product(s): Difference between revisions

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!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
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rhsC element core protein RshC<ref name='LIB:Riley_2006'/>, B0700<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RhsC<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''rhsC element core protein RshC<ref name='LIB:Riley_2006'/>, B0700<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, RhsC<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK0689, JW0689, b0700''
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!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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RhsC protein in rhs element<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
RhsC protein in rhs element<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>


Function unknown, encoded within RhsC repeat; hotspot for chromosomal duplication formation<ref name='LIB:EcoGene'/>
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!align=left {{table heading style}} |EC number (for enzymes)
!align=left {{table heading style}} |EC number (for enzymes)
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!|Qualifier!!GO ID!!GO term name!!Reference(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
!|Qualifier!!GO ID!!GO term name!!Reference!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-
|
 
|
[[Category:GO:0005515_!_protein_binding]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0005515_!_protein_binding GO:0005515]
|
protein binding
|[[PMID:16606699]]<ref name=PMID:16606699/>
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IPI: Inferred from Physical Interaction
|
[http://www.uniprot.org/uniprot/P05793 UniProtKB:P05793]
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F
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
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complete
|-
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[[Category:GO:0016021_!_integral_to_membrane]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0016021_!_integral_to_membrane GO:0016021]
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integral to membrane
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[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000004 GO_REF:0000004]
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IEA: Inferred from Electronic Annotation
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[http://www.uniprot.org/keywords/KW-0812 SP_KW:KW-0812]
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C
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
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complete
|-
|
 
|
[[Category:GO:0016020_!_membrane]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0016020_!_membrane GO:0016020]
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membrane
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[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000004 GO_REF:0000004]
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IEA: Inferred from Electronic Annotation
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[http://www.uniprot.org/keywords/KW-0472 SP_KW:KW-0472]
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C
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Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
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complete
 
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!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence
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|[[PMID:16606699]]<ref name=PMID:16606699/>
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PMID:16606699
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Experiment(s):EBI-1137716<br />  
Experiment(s):EBI-1137716<br />  
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|[[PMID:16606699]]<ref name=PMID:16606699/>
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PMID:16606699
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Experiment(s):EBI-1137716<br />  
Experiment(s):EBI-1137716<br />  
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|[[PMID:16606699]]<ref name=PMID:16606699/>
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PMID:16606699
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Experiment(s):EBI-1137716<br />  
Experiment(s):EBI-1137716<br />  
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|[[PMID:16606699]]<ref name=PMID:16606699/>
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PMID:16606699
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Experiment(s):EBI-1137716, EBI-1137722<br />  
Experiment(s):EBI-1137716, EBI-1137722<br />  


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!|Compartment!!Description!!Evidence!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes


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!align=left {{table heading style}} |Name
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RCDLVETDNS CVENCLKGKF KEVRPRYSVL PDIFTPINLG LFKNCQDWSN DSLETCKMKC
RCDLVETDNS CVENCLKGKF KEVRPRYSVL PDIFTPINLG LFKNCQDWSN DSLETCKMKC
SGNNIGRFIR FVFTGVM</pre>  
SGNNIGRFIR FVFTGVM</pre>  
|-
!align=left {{table heading style}} |Length
||
1,397
|-
|-
!align=left {{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
||
||
157.78 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
157.778 kDa
|-
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!align=left {{table heading style}} |pI
!align=left {{table heading style}} |pI
||
||
6.7 (calculated)
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!align=left {{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
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||
278240 - 280615 (calc based on 76 Y, 30 W, and 19 C residues)  
278,240 - 280,615 (calc based on 76 Y, 30 W, and 19 C residues)


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<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span>
<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span><table>
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="K46aa3e668e92a"  class=" tableEdit Product_motif_table dataTable"   
|- {{table heading style}}
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!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-
|
Domain
|
1143..1183
|
[http://pfam.janelia.org/family/PF03527 PF03527  RHS protein]
|
 
|
PMID:19920124
|-
|
Domain
|
425..463
|
[http://pfam.janelia.org/family/PF05593 PF05593  RHS Repeat]
|
 
|
PMID:19920124
|-
|
Domain
|
468..505
|
[http://pfam.janelia.org/family/PF05593 PF05593  RHS Repeat]
|


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PMID:19920124
|-
|
Domain
|
489..517
|
[http://pfam.janelia.org/family/PF05593 PF05593  RHS Repeat]
|
 
|
PMID:19920124
|-
|
Domain
|
533..570
|
[http://pfam.janelia.org/family/PF05593 PF05593  RHS Repeat]
|
 
|
PMID:19920124
|-
|
Domain
|
575..612
|
[http://pfam.janelia.org/family/PF05593 PF05593  RHS Repeat]
|
 
|
PMID:19920124
|-
|
Domain
|
637..674
|
[http://pfam.janelia.org/family/PF05593 PF05593  RHS Repeat]
|
 
|
PMID:19920124
|-
|
Domain
|
699..733
|
[http://pfam.janelia.org/family/PF05593 PF05593  RHS Repeat]
|
 
|
PMID:19920124
|-
|
Domain
|
939..985
|
[http://pfam.janelia.org/family/PF05593 PF05593  RHS Repeat]
|
 
|
PMID:19920124
 
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<td>
<!-- motifs column 2-->
<motif_map/>
</td>
</tr>
</table>


 
<table><tr valign='top'><td>
<span id="Structure"></span><big>'''Structure'''</big>
<span id='Structure'></span><big>'''Structure'''</big><br />
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|-
!align=left {{table heading style}} |Structures
!align=left {{table heading style}} |Structures
||
||
<beststructure>rhsC
<beststructure>
562</beststructure>
gene=rhsC
 
taxon=562,83333
</beststructure>
|-
|-
!align=left {{table heading style}} |Models
!align=left {{table heading style}} |Models
||
||
View models at:
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=rhsC&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P18032 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=rhsC&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P16918 PSI-PRED (P16918)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P16918 Genomes TO Protein (P16918)] (GTOP)
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
* [http://spock.genes.nig.ac.jp/~genome/search.html Genomes TO Protein] (GTOP)


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<!--Structure_notes--></protect>
</td><td></protect>
==== Structure figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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===Notes===
===Notes===


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!|Resource type!!Source!!Notes/Reference
!|Resource type!!Source!!Notes/Reference


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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/16128676 GI:16128676]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/NP_415229.1 GeneID:945306]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
|
ASAP:ABE-0002392
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG10848-MONOMER EcoCyc:EG10848-MONOMER]
[http://www.uniprot.org/uniprot/P16918 UniProtKB/Swiss-Prot:P16918]
|
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[EcoCyc]]
|
EcoCyc:EG10848
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EcoGene]]
|
EcoGene:EG10848
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
|
|
[[uniprot:P16918|UniProt:P16918]]
[http://www.ncbi.nlm.nih.gov/gene?term=945306 GeneID:945306]
|
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
[[RegulonDB]]
|
|
[http://pfam.sanger.ac.uk/family?acc=PF05593 PFAM:PF05593]
RegulonDB:ECK120000839
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|-  
|
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])
[[EchoBASE]]
|
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_415229 RefSeq:NP_415229]
EchoBASE:EB0841
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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==References==
==References==
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<references/>
<references />
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
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[[Category:Proteins]]
[[Category:Proteins]]
[[Category:Pfam:PF03527_!_RHS protein]]
[[Category:Pfam:PF05593_!_RHS Repeat]]
[[Category:Pfam:PF05593_!_RHS Repeat]]
[[Category:Pfam:PF05593_!_RHS Repeat]]
[[Category:Pfam:PF05593_!_RHS Repeat]]
[[Category:Pfam:PF05593_!_RHS Repeat]]
[[Category:Pfam:PF05593_!_RHS Repeat]]
[[Category:Pfam:PF05593_!_RHS Repeat]]
[[Category:Pfam:PF05593_!_RHS Repeat]]

Latest revision as of 20:28, 17 February 2015

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

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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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 Notes References Evidence

Protein

dnaK

PMID:16606699[5]

Experiment(s):EBI-1137716

Protein

rhsA

PMID:16606699[5]

Experiment(s):EBI-1137716

Protein

groL

PMID:16606699[5]

Experiment(s):EBI-1137716

Protein

ybfO

PMID:16606699[5]

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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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 Notes References

Domain

1143..1183

PF03527 RHS protein

PMID:19920124[6]

Domain

425..463

PF05593 RHS Repeat

PMID:19920124[6]

Domain

468..505

PF05593 RHS Repeat

PMID:19920124[6]

Domain

489..517

PF05593 RHS Repeat

PMID:19920124[6]

Domain

533..570

PF05593 RHS Repeat

PMID:19920124[6]

Domain

575..612

PF05593 RHS Repeat

PMID:19920124[6]

Domain

637..674

PF05593 RHS Repeat

PMID:19920124[6]

Domain

699..733

PF05593 RHS Repeat

PMID:19920124[6]

Domain

939..985

PF05593 RHS Repeat

PMID:19920124[6]

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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

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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References

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

  1. ↑ 1.0 1.1 1.2 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 5.3 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  6. ↑ 6.0 6.1 6.2 6.3 6.4 6.5 6.6 6.7 6.8 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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