yajI:Gene Product(s): Difference between revisions

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!align=left {{table heading style}} |Standard name
!align=left {{table heading style}} |Standard name
||
||
YajI product
YajI  
|-
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!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
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predicted lipoprotein product<ref name='LIB:Riley_2006'/>, B0412 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YajI product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''predicted lipoprotein<ref name='LIB:Riley_2006'/>, B0412<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YajI<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK0406, JW5056, b0412''
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!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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conserved hypothetical protein<ref name='LIB:EcoCyc10.6'/>; predicted lipoprotein<ref name='LIB:EcoCyc11.1'/>
conserved hypothetical protein<ref name='LIB:EcoCyc10.6'/>; predicted lipoprotein<ref name='LIB:EcoCyc11.1'/>


Probable lipoprotein, function unknown; Cys conserved<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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*


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===Notes===
===Notes===
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{{BacktoTop}}
{{BacktoTop}}
<protect>
<protect>
<big>'''Gene Ontology'''</big><br />{{Product_GO_help}}<!--box uid=421aa90e079fa326b6494f812ad13e79.20455.D46aa2ddce0447-->
<big>'''Gene Ontology'''</big><br /><!--box uid=421aa90e079fa326b6494f812ad13e79.20455.D46aa2ddce0447-->
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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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|
 
|
GO:0005886
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plasma membrane
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GOA:spkw<br />SP_KW:GO_REF:0000004
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IEA: Inferred from Electronic Annotation
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SP_KW:KW-1003
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C
|
Seeded from [[EcoCyc]] (v14.0)
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complete
|-  
|-  
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|


|
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[[Category:GO:0016020_!_membrane]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0016020_!_membrane GO:0016020]
GO:0016020
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|
membrane
membrane
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[http://www.geneontology.org/cgi-bin/references.cgi#GO_REF:0000004 GO_REF:0000004]
GOA:spkw<br />SP_KW:GO_REF:0000004
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|
IEA: Inferred from Electronic Annotation
IEA: Inferred from Electronic Annotation
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[http://www.uniprot.org/keywords/KW-0472 SP_KW:KW-0472]
SP_KW:KW-0472
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C
C
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|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from [[EcoCyc]] (v14.0)
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complete  
complete  
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GO:0031225
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anchored to membrane
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GO_REF:0000023
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IEA: Inferred from Electronic Annotation
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SP_SL:SL-9901
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C
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Seeded from [[EcoCyc]] (v14.0)
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complete
 
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!|Partner Type!!Partner!!Notes
!|Partner Type!!Partner!!Notes!!References!!Evidence


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===Notes===
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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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LRIQGESNDP LPAFSGTVEY GQIQGTIDNF QEINVQNQLI NAPASVLAPS DVDIPLQLKG
LRIQGESNDP LPAFSGTVEY GQIQGTIDNF QEINVQNQLI NAPASVLAPS DVDIPLQLKG
ISVDQLGFVR IHDIQPVMQ</pre>  
ISVDQLGFVR IHDIQPVMQ</pre>  
|-
!align=left {{table heading style}} |Length
||
199
|-
|-
!align=left {{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
||
||
19.56 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
21.779 kDa
|-
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!align=left {{table heading style}} |pI
!align=left {{table heading style}} |pI
||
||
8.1 (calculated)
|-
|-
!align=left {{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
||
||
2980 - 3105 (calc based on 2 Y, 0 W, and 1 C residues)  
2,980 - 3,105 (calc based on 2 Y, 0 W, and 1 C residues)


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<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span>
 
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<span id="Domains/Motifs/Modification Sites"><big>'''Domains/Motifs/Modification Sites'''</big></span><table>
<tr align="left" valign="top">
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!|Type!!Residues!!Description!!Notes
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[[uniprotmanual:signal|UniProt Manual:Signal Peptides]]
[[uniprotmanual:signal|UniProt Manual:Signal Peptides]]
|
|
[http://www.uniprot.org/uniprot/P46122#section_features UniProt:P46122]  
[http://www.uniprot.org/uniprot/P46122#section_features UniProt:P46122]
|
|-
|
Domain
|
20..179
|
[http://pfam.janelia.org/family/PF11622 PF11622  Protein of unknown function (DUF3251)]
|
 
|
PMID:19920124


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<td>
<!-- motifs column 2-->
<motif_map/>
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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
||
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<beststructure>yajI
<beststructure>
562</beststructure>
gene=yajI
 
taxon=562,83333
</beststructure>
|-
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!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=yajI&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P58095 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=yajI&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P46122 PSI-PRED (P46122)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P46122 Genomes TO Protein (P46122)] (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 figures ====
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
 
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===Notes===
===Notes===


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


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===Notes===
===Notes===
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!|Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-  
|-  
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[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/90111129 GI:90111129]
|
Escherichia coli str. K-12 substr. MG1655
|-
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[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/protein/NP_414946.4 GeneID:947233]
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[ASAP]]
|
ASAP:ABE-0001433
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
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[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG12874-MONOMER EcoCyc:EG12874-MONOMER]
[http://www.uniprot.org/uniprot/P46122 UniProtKB/Swiss-Prot:P46122]
|
|
Escherichia coli str. K-12 substr. MG1655
|-
|
[[EcoCyc]]
|
EcoCyc:EG12874
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EcoGene]]
|
EcoGene:EG12874
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
|
[http://www.ncbi.nlm.nih.gov/gene?term=947233 GeneID:947233]
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[RegulonDB]]
|
|
[[uniprot:P46122|UniProt:P46122]]
RegulonDB:ECK120002413
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
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|
|
[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_414946 RefSeq:NP_414946]
EchoBASE:EB2712
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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===Categories===
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[[Category:Proteins]]
[[Category:Proteins]]
[[Category:Pfam:PF11622_!_Protein of unknown function (DUF3251)]]

Latest revision as of 20:25, 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

YajI

Synonyms

predicted lipoprotein[1], B0412[2][1], YajI[2][1] , ECK0406, JW5056, b0412

Product description

conserved hypothetical protein[2]; predicted lipoprotein[3]

Probable lipoprotein, function unknown; Cys conserved[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
GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc (v14.0)

complete

GO:0031225

anchored to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9901

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
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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 

MLSLLLPSTI RLIATRKGRP MNTNVFRLLL LGSLFSLSAC VQQSEVRQMK HSVSTLNQEM
TQLNQETVKI TQQNRLNAKS SSGVYLLPGA KTPARLESQI GTLRMSLVNI TPDADGTTLT
LRIQGESNDP LPAFSGTVEY GQIQGTIDNF QEINVQNQLI NAPASVLAPS DVDIPLQLKG
ISVDQLGFVR IHDIQPVMQ
Length

199

Mol. Wt

21.779 kDa

pI

8.1 (calculated)

Extinction coefficient

2,980 - 3,105 (calc based on 2 Y, 0 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

motif

1-19

UniProt Manual:Signal Peptides

UniProt:P46122

Domain

20..179

PF11622 Protein of unknown function (DUF3251)

PMID:19920124[5]

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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=yajI 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:90111129

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947233

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001433

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P46122

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG12874

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12874

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947233

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002413

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2712

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. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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