yffL:Gene Product(s): Difference between revisions

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|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Localization |Localization]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Sequence|Sequence]]
|{{Sub}}[[#Domains/Motifs/Modification Sites|Domains]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Structure|Structure]]
|{{Sub}}[[#Gene Product Resources|Resources]]
|{{Sub}}[[#Gene Product Resources|Resources]]
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|-
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!{{table heading style}} |Standard name
!align=left {{table heading style}} |Standard name
|
||
YffL product
YffL  
|-
|-
!{{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
|
||
CPZ-55 prophage; predicted protein product<ref name='LIB:Riley_2006'/>, B2443 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YffL product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''CPZ-55 prophage; predicted protein<ref name='LIB:Riley_2006'/>, B2443<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YffL<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK2438, b2443''
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!{{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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CPZ-55 prophage; predicted protein<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
CPZ-55 prophage; predicted protein<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>


Function unknown, Eut/CPZ-55 prophage<ref name='LIB:EcoGene'/>
|-
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!{{table heading style}} |EC number (for enzymes)
!align=left {{table heading style}} |EC number (for enzymes)
|
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*
 
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===Notes===
===Notes===
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<big>'''Gene Ontology'''</big><br />{{Product_GO_help}}<!--box uid=421aa90e079fa326b6494f812ad13e79.25126.R46aaa81e2ce8d-->
<big>'''Gene Ontology'''</big><br /><!--box uid=421aa90e079fa326b6494f812ad13e79.25126.R46aaa81e2ce8d-->
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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
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!Partner Type!!Partner!!Notes
!|Partner Type!!Partner!!Notes!!References!!Evidence
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Protein
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rpsT
|
 
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PMID:19402753
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LCMS(ID Probability):99.6
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Protein
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groS
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|
PMID:19402753
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LCMS(ID Probability):99.6
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Protein
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rplM
|
 
|
PMID:19402753
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LCMS(ID Probability):99.6
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Protein
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rpmB
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6
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Protein
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rpsM
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6
|-
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Protein
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rplT
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6
|-
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Protein
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rplU
|
 
|
PMID:19402753
|
LCMS(ID Probability):99.6
|-
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Protein
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fadJ
|
 
|
PMID:19402753
|
MALDI(Z-score):28.803616
|-
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Protein
|
fadI
|
 
|
PMID:19402753
|
MALDI(Z-score):39.194124
 
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===Notes===
===Notes===
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!align=left {{table heading style}} |Name
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!{{table heading style}} |Sequence
!align=left {{table heading style}} |Sequence
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[http://biocyc.org/ECOLI/sequence-aa?object=G7273-MONOMER at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=G7273-MONOMER at EcoCyc]  
<pre>MFATKDPEFE NRINTNKSPR NAATCRGRYE KQAKGEFLMS DMLAVEQETN NDVRQFLNKI
<pre>MFATKDPEFE NRINTNKSPR NAATCRGRYE KQAKGEFLMS DMLAVEQETN NDVRQFLNKI
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HFKLVERTEG YIPGSAEREC NEYQLLFKPY NMK</pre>  
HFKLVERTEG YIPGSAEREC NEYQLLFKPY NMK</pre>  
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!{{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Length
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25.14 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
213
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!{{table heading style}} |pI
!align=left {{table heading style}} |Mol. Wt
|
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25.143 kDa
|-
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!{{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |pI
|
||
26930 - 27555 (calc based on 7 Y, 3 W, and 5 C residues)  
8.4 (calculated)
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!align=left {{table heading style}} |Extinction coefficient
||
26,930 - 27,555 (calc based on 7 Y, 3 W, and 5 C residues)
 
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==Domains/Motifs/Modification Sites==
 
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<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span><table>
<tr align="left" valign="top">
<td><!--box uid=421aa90e079fa326b6494f812ad13e79.25126.O46aaa82113659-->
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!Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
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<td>
<!-- motifs column 2-->
<motif_map/>
</td>
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<span id="Structure"></span><big>'''Structure'''</big>
<table><tr valign='top'><td>
<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>yffL
<beststructure>
562</beststructure>
gene=yffL
 
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=yffL&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P76543 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=yffL&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P76543 PSI-PRED (P76543)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P76543 Genomes TO Protein (P76543)] (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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===Notes===
===Notes===
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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-
|
[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/16130368 GI:16130368]
|
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_416938.1 GeneID:946922]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
|
ASAP:ABE-0008055
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.uniprot.org/uniprot/P76543 UniProtKB/Swiss-Prot:P76543]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[EcoCyc]]
|
EcoCyc:G7273
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EcoGene]]
|
EcoGene:EG14173
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
|
|
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=G7273-MONOMER EcoCyc:G7273-MONOMER]
[http://www.ncbi.nlm.nih.gov/gene?term=946922 GeneID:946922]
|
|
Escherichia coli str. K-12 substr. MG1655
|-
|-  
|
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[RegulonDB]]
|
|
[[uniprot:P76543|UniProt:P76543]] 
RegulonDB:ECK120003847
|
|
''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_416938 RefSeq:NP_416938] 
EchoBASE:EB3925
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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===Notes===
===Notes===
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[[Category:Proteins]]

Latest revision as of 20:51, 17 February 2015

{{#css:Suppresslinks.css}}<css>h1 .editsection { display:none;} h2 .editsection { display:none;}</css>

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

YffL

Synonyms

CPZ-55 prophage; predicted protein[1], B2443[2][1], YffL[2][1] , ECK2438, b2443

Product description

CPZ-55 prophage; predicted protein[2][3]

Function unknown, Eut/CPZ-55 prophage[4]

EC number (for enzymes)



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

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

rpsT

PMID:19402753[5]

LCMS(ID Probability):99.6

Protein

groS

PMID:19402753[5]

LCMS(ID Probability):99.6

Protein

rplM

PMID:19402753[5]

LCMS(ID Probability):99.6

Protein

rpmB

PMID:19402753[5]

LCMS(ID Probability):99.6

Protein

rpsM

PMID:19402753[5]

LCMS(ID Probability):99.6

Protein

rplT

PMID:19402753[5]

LCMS(ID Probability):99.6

Protein

rplU

PMID:19402753[5]

LCMS(ID Probability):99.6

Protein

fadJ

PMID:19402753[5]

MALDI(Z-score):28.803616

Protein

fadI

PMID:19402753[5]

MALDI(Z-score):39.194124


Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes


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

MFATKDPEFE NRINTNKSPR NAATCRGRYE KQAKGEFLMS DMLAVEQETN NDVRQFLNKI
NELRNKAPKN EETKHEEHTP DNHEETDHHE AKQQEQAWRG NLRYLDTLNR LDEVLPRKLY
ERWEKEHTVN DEAVLRALCY FAGTGKNSQL GWCRVGRGTI DKRARLSKNT VKKCLDRLVN
HFKLVERTEG YIPGSAEREC NEYQLLFKPY NMK
Length

213

Mol. Wt

25.143 kDa

pI

8.4 (calculated)

Extinction coefficient

26,930 - 27,555 (calc based on 7 Y, 3 W, and 5 C residues)


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

<motif_map/>

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=yffL taxon=562,83333 </beststructure>

Models

View models at:

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


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:16130368

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946922

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008055

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P76543

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G7273

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG14173

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946922

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003847

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3925

Escherichia coli str. K-12 substr. MG1655


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 5.4 5.5 5.6 5.7 5.8 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed

Categories

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