ybaM:Gene Product(s): Difference between revisions

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!align=left {{table heading style}} |Standard name
!align=left {{table heading style}} |Standard name
||
||
YbaM product
YbaM  
|-
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!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
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predicted protein product<ref name='LIB:Riley_2006'/>, YbaM product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, B0466 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''predicted protein<ref name='LIB:Riley_2006'/>, YbaM<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, B0466<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK0460, JW0455, b0466''
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!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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hypothetical protein<ref name='LIB:EcoCyc10.6'/>; predicted protein<ref name='LIB:EcoCyc11.1'/>
hypothetical protein<ref name='LIB:EcoCyc10.6'/>; predicted protein<ref name='LIB:EcoCyc11.1'/>


Function unknown<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>
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<big>'''Gene Ontology'''</big><br />{{Product_GO_help}}<!--box uid=421aa90e079fa326b6494f812ad13e79.20591.S46aa3197e6086-->
<big>'''Gene Ontology'''</big><br /><!--box uid=421aa90e079fa326b6494f812ad13e79.20591.S46aa3197e6086-->
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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:0033554
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cellular response to stress
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PMID:19734312
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IMP: Inferred from Mutant Phenotype
|


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P
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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===
===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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[http://biocyc.org/ECOLI/sequence-aa?object=EG12830-MONOMER at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=EG12830-MONOMER at EcoCyc]  
<pre>MSLENAPDDV KLAVDLIVLL EENQIPASTV LRALDIVKRD YEKKLTRDDE AEK</pre>  
<pre>MSLENAPDDV KLAVDLIVLL EENQIPASTV LRALDIVKRD YEKKLTRDDE AEK</pre>  
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!align=left {{table heading style}} |Length
||
53
|-
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!align=left {{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
||
||
6.02 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
6.024 kDa
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!align=left {{table heading style}} |pI
!align=left {{table heading style}} |pI
||
||
4.3 (calculated)
|-
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!align=left {{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
||
||
1490 (calc based on 1 Y, 0 W, and 0 C residues)  
1,490 (calc based on 1 Y, 0 W, and 0 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
!|Type!!Residues!!Description!!Notes!!References
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Domain
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2..45
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[http://pfam.janelia.org/family/PF10689 PF10689  Protein of unknown function (DUF2496)]
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PMID:19920124
 
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<td>
<!-- motifs column 2-->
<motif_map/>
</td>
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</table>


<span id="Structure"></span><big>'''Structure'''</big>
<table><tr valign='top'><td>
<span id='Structure'></span><big>'''Structure'''</big><br />
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|-
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!align=left {{table heading style}} |Structures
!align=left {{table heading style}} |Structures
||
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<beststructure>ybaM
<beststructure>
562</beststructure>
gene=ybaM
 
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=ybaM&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P45807 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=ybaM&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P45807 PSI-PRED (P45807)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P45807 Genomes TO Protein (P45807)] (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>
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==== 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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===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://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=EG12830-MONOMER EcoCyc:EG12830-MONOMER]
[http://www.ncbi.nlm.nih.gov/protein/16128450 GI:16128450]
|
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Escherichia coli str. K-12 substr. MG1655
|-
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[http://www.ncbi.nlm.nih.gov/protein NCBI (Protein)] ([[NCBI (Protein)|EcoliWiki Page]])
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[http://www.ncbi.nlm.nih.gov/protein/NP_414999.1 GeneID:945144]
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Escherichia coli str. K-12 substr. MG1655
|-
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[[ASAP]]
|
ASAP:ABE-0001616
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
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[http://www.pir.uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
|
[http://www.uniprot.org/uniprot/P45807 UniProtKB/Swiss-Prot:P45807]
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Escherichia coli str. K-12 substr. MG1655
|-
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[[EcoCyc]]
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EcoCyc:EG12830
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-
|
[[EcoGene]]
|
EcoGene:EG12830
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''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=945144 GeneID:945144]
|
Escherichia coli str. K-12 substr. MG1655
|-  
|-  
|
|
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])
[[RegulonDB]]
|
|
[[uniprot:P45807|UniProt:P45807]]
RegulonDB:ECK120002390
|
|
''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_414999 RefSeq:NP_414999]
EchoBASE:EB2679
|
|
''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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===Notes===
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===Categories===
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[[Category:Proteins]]
[[Category:Proteins]]
[[Category:Pfam:PF10689_!_Protein of unknown function (DUF2496)]]

Latest revision as of 20:26, 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

YbaM

Synonyms

predicted protein[1], YbaM[2][1], B0466[2][1] , ECK0460, JW0455, b0466

Product description

hypothetical protein[2]; predicted protein[3]

Function unknown[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:0033554

cellular response to stress

PMID:19734312[5]

IMP: Inferred from Mutant Phenotype

P

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 

MSLENAPDDV KLAVDLIVLL EENQIPASTV LRALDIVKRD YEKKLTRDDE AEK
Length

53

Mol. Wt

6.024 kDa

pI

4.3 (calculated)

Extinction coefficient

1,490 (calc based on 1 Y, 0 W, and 0 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

2..45

PF10689 Protein of unknown function (DUF2496)

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=ybaM 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:16128450

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945144

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001616

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P45807

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG12830

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12830

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945144

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002390

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2679

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. ↑ Hobbs, EC et al. (2010) Small RNAs and small proteins involved in resistance to cell envelope stress and acid shock in Escherichia coli: analysis of a bar-coded mutant collection. J. Bacteriol. 192 59-67 PubMed
  6. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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