mdtK:Gene Product(s): Difference between revisions

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!align=left {{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
||
||
multidrug efflux system transporter<ref name='LIB:Riley_2006'/>, NorM<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, B1663<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, MdtK<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YdhE<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
''multidrug efflux system transporter<ref name='LIB:Riley_2006'/>, NorM<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, B1663<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, MdtK<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, YdhE<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/> , ECK1659, JW1655, norM, ydhE, b1663''
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!align=left {{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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****************************************************************************************** -->{{Product_GO_help}}
****************************************************************************************** -->{{Product_GO_help}}
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{| border="2" cellpadding="4" cellspacing="0" style="margin: 1em 1em 1em 0; border: 1px #aaa solid; border-collapse: collapse;"  id="P46aa75c8a4ec0"  class=" tableEdit GO_table_product dataTable"   
|- {{table_heading_style}}
|- {{table_heading_style}}
!|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
|-  
|-  
|
|


|
|
GO:0006810
GO:0042910
|
|
transport
xenobiotic transmembrane transporter activity
|
|
GO_REF:0000004
PMID:18591276
|
|
IEA: Inferred from Electronic Annotation
IDA: Inferred from Direct Assay
|
SP_KW:KW-0813
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
|


|
GO:0006811
|
ion transport
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0406
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
|
GO:0006814
|
sodium ion transport
|
GO_REF:0000004<br />GO_REF:0000020
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0739<br />HAMAP:MF_00400
|
P
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|
|
GO:0006855
|
multidrug transport
|
GO_REF:0000002<br />GO_REF:0000020
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR002528<br />HAMAP:MF_00400
|
P
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|
|
GO:0015238
|
drug transporter activity
|
GO_REF:0000002<br />GO_REF:0000020
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR002528<br />HAMAP:MF_00400
|
|
F
F
|
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Decreased accumulation of norfloxacin and ethidium bromide compared to vector control.
|
complete
|-
|


|
GO:0015238 (obsolete) replaced with GO:0042910 xenobiotic transmembrane transporter activity.
GO:0015297
|
antiporter activity
|
GO_REF:0000002<br />GO_REF:0000004<br />GO_REF:0000020
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR002528<br />SP_KW:KW-0050<br />HAMAP:MF_00400
|
F
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
|
complete  
complete  
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|
|
GO:0016020
GO:0042910
|
|
membrane
xenobiotic transmembrane transporter activity
|
|
GO_REF:0000002<br />GO_REF:0000004<br />GO_REF:0000004
PMID:18591276
|
|
IEA: Inferred from Electronic Annotation
ISA: Inferred from Sequence Alignment
|
InterPro:IPR002528<br />SP_KW:KW-0397<br />SP_KW:KW-0472
|
C
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|
|
GenBank:YP_207551


|
GO:0016021
|
integral to membrane
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0812
|
C
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|


|
GO:0031402
|
sodium ion binding
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0915
|
|
F
F
|
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
NorM from ''Neisseria gonorrhea''
|
complete
|-
|


|
GO:0015238 (obsolete) replaced with GO:0042910 xenobiotic transmembrane transporter activity.
GO:0046677
|
response to antibiotic
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0046
|
P
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
|
complete  
complete  
|-
|
|
GO:0042493
|
response to drug
|
|
|
|
P
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing 
|-  
|-  
|
|


|
|
GO:0005886
GO:0042910
|
plasma membrane
|
|
GO_REF:0000020<br />GO_REF:0000004<br />GO_REF:0000004<br />GO_REF:0000023
xenobiotic transmembrane transporter activity
|
IEA: Inferred from Electronic Annotation
|
HAMAP:MF_00400<br />SP_KW:KW-0997<br />SP_KW:KW-1003<br />SP_SL:SL-0037
|
C
|
Seeded from EcoCyc <ref name = 'LIB:EcoCyc13.0'/>
|
complete
|-
|
 
|
GO:0005886
|
plasma membrane
|
GO_REF:0000020<br />GO_REF:0000004<br />GO_REF:0000004<br />GO_REF:0000023
|
IEA: Inferred from Electronic Annotation
|
HAMAP:MF_00400<br />SP_KW:KW-0997<br />SP_KW:KW-1003<br />SP_SL:SL-0037
|
C
|
Seeded from EcoCyc
|
complete
|-
|
 
|
GO:0006810
|
transport
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0813
|
P
|
Seeded from EcoCyc
|
complete
|-
|
|
GO:0015292
|
uniporter activity
|
|
|
|
F
|
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
|
required fields missing 
|-
|
 
|
GO:0015559
|
multidrug efflux pump activity
|
|
PMID:18591276
PMID:18591276
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F
F
|
|
Decreased accumulation of norfloxacin and ethidium bromide compared to vector control.
Replaced original annotation to GO:0005215 which was made obsolete.
|
|
complete  
complete  
|-
|


|
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GO:0015559
|<div class="tableEdit_editLink plainlinks">[{{SERVER}}{{SCRIPTPATH}}?title=Special:TableEdit&id=421aa90e079fa326b6494f812ad13e79.23375.P46aa75c8a4ec0&page=23375&pagename={{FULLPAGENAMEE}}&type=&template=GO_table_product edit table]</div> || || || || || || || ||
|
multidrug efflux pump activity
|
PMID:18591276
|
ISA: Inferred from Sequence Alignment
|
GenBank:YP_207551
|
F
|
NorM from ''Neisseria gonorrhea''
|
complete
|-  
|
 
|
GO:0006811
|
ion transport
|
GO_REF:0000004
|
IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0406
|
P
|
Seeded from EcoCyc
|
complete
 
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!|Partner Type!!Partner!!Notes!!References!!Evidence
!|Partner Type!!Partner!!Notes!!References!!Evidence


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!|Compartment!!Description!!Evidence!!Notes
!|Compartment!!Description!!Evidence!!Reference/Source!!Notes
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Daley et al. (2005) <ref name=PMID:15919996/>
Daley et al. (2005) <ref name=PMID:15919996/>
|
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!align=left {{table heading style}} |Name
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!align=left {{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
||
||
49.45 kDa (calc) <ref name='LIB:EcoCyc10.6'/>
49.448 kDa
|-
|-
!align=left {{table heading style}} |pI
!align=left {{table heading style}} |pI
||
||
10.0 (calculated)
|-
|-
!align=left {{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
||
||
62340 - 62715 (calc based on 16 Y, 7 W, and 3 C residues)  
62,340 - 62,715 (calc based on 16 Y, 7 W, and 3 C residues)


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|- {{table heading style}}
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!|Type!!Residues!!Description!!Notes
!|Type!!Residues!!Description!!Notes!!References
|-  
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|
|
Domain
Domain
|
|
241 - 263
17..177
|
|
Predicted membrane-spanning helix.
[http://pfam.janelia.org/family/PF01554 PF01554  MatE]
|
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
 
|-
|
|
Domain
PMID:19920124
|
278 - 300
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-  
|-  
|
|
Domain
Domain
|
|
313 - 335
244..405
|
|
Predicted membrane-spanning helix.
[http://pfam.janelia.org/family/PF01554 PF01554  MatE]
|
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
 
|-
|
Domain
|
350 - 367
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
|
387 - 409
PMID:19920124
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
419 - 438
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
7 - 29
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
44 - 66
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
91 - 113
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
128 - 147
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
160 - 180
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />
|-
|
Domain
|
190 - 212
|
Predicted membrane-spanning helix.
|
TMD predicted by [http://www.cbs.dtu.dk/services/TMHMM TMHMM]<ref name='PMID:11152613' />


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</table>
</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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|-
|-
!align=left {{table heading style}} |Structures
!align=left {{table heading style}} |Structures
||
||
<beststructure>mdtK
<beststructure>
562</beststructure>
gene=mdtK
 
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=mdtK&sub=keywordSearc EcoliPredict]
* [http://www.proteinmodelportal.org/query/uniprot/P37340 Protein Model Portal]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=mdtK&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/genome3d/read?uniprot_id=P37340 PSI-PRED (P37340)]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://spock.genes.nig.ac.jp/~genome/cgi-bin/gkeytext.pl.cgi?A&QUERY1=P37340 Genomes TO Protein (P37340)] (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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[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/49176133 GI:49176133]
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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/YP_025307.1 GeneID:945883]
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Escherichia coli str. K-12 substr. MG1655
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[[ASAP]]
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ASAP:ABE-0005561
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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]])
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=YDHE-MONOMER EcoCyc:YDHE-MONOMER]
[http://www.uniprot.org/uniprot/P37340 UniProtKB/Swiss-Prot:P37340]
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Escherichia coli str. K-12 substr. MG1655
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[[EcoCyc]]
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EcoCyc:EG12400
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
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[[EcoGene]]
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EcoGene:EG12400
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]
|-  
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[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/gene NCBI (Gene)] ([[NCBI (Gene)|EcoliWiki Page]])
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[[uniprot:P37340|UniProt:P37340]]
[http://www.ncbi.nlm.nih.gov/gene?term=945883 GeneID:945883]
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Escherichia coli str. K-12 substr. MG1655
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[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])
[[RegulonDB]]
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[http://pfam.sanger.ac.uk/family?acc=PF01554 PFAM:PF01554]
RegulonDB:ECK120002262
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''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]]
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[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=YP_025307 RefSeq:YP_025307]
EchoBASE:EB2300
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''Escherichia coli'' str. K-12 substr. [[:Category:Strain:MG1655|MG1655]]


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==References==
==References==
{{BacktoTop}}
{{BacktoTop}}
 
{{RefHelp}}
<references/>
<references />
__NOTOC__
__NOTOC__
</noinclude>
===Categories===
===Categories===
{{BacktoTop}}
{{BacktoTop}}
[[Category:Proteins]]
[[Category:Proteins]]
[[Category:GO:0042493_!_response to drug]][[Category:GO:0015292_!_uniporter activity]]

Latest revision as of 00:13, 30 June 2019

{{#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

MdtK

Synonyms

multidrug efflux system transporter[1], NorM[2][1], B1663[2][1], MdtK[2][1], YdhE[2][1] , ECK1659, JW1655, norM, ydhE, b1663

Product description

NorE multidrug efflux MATE transporter[2][3]

Multidrug resistance efflux protein, 12 transmembrane helices; overexpression resistance to norfloxacin, TTP, deoxycholate, trimethoprim[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:0042910

xenobiotic transmembrane transporter activity

PMID:18591276[5]

IDA: Inferred from Direct Assay

F

Decreased accumulation of norfloxacin and ethidium bromide compared to vector control.GO:0015238 (obsolete) replaced with GO:0042910 xenobiotic transmembrane transporter activity.

complete

GO:0042910

xenobiotic transmembrane transporter activity

PMID:18591276[5]

ISA: Inferred from Sequence Alignment

GenBank:YP_207551


F

NorM from Neisseria gonorrheaGO:0015238 (obsolete) replaced with GO:0042910 xenobiotic transmembrane transporter activity.

complete

GO:0042910

xenobiotic transmembrane transporter activity

PMID:18591276[5]

IDA: Inferred from Direct Assay

F

Replaced original annotation to GO:0005215 which was made obsolete.

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

plasma membrane

C-terminus localized in the cytoplasm with 12 predicted transmembrane domains

Daley et al. (2005) [6]


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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 

MQKYISEARL LLALAIPVIL AQIAQTAMGF VDTVMAGGYS ATDMAAVAIG TSIWLPAILF
GHGLLLALTP VIAQLNGSGR RERIAHQVRQ GFWLAGFVSV LIMLVLWNAG YIIRSMENID
PALADKAVGY LRALLWGAPG YLFFQVARNQ CEGLAKTKPG MVMGFIGLLV NIPVNYIFIY
GHFGMPELGG VGCGVATAAV YWVMFLAMVS YIKRARSMRD IRNEKGTAKP DPAVMKRLIQ
LGLPIALALF FEVTLFAVVA LLVSPLGIVD VAGHQIALNF SSLMFVLPMS LAAAVTIRVG
YRLGQGSTLD AQTAARTGLM VGVCMATLTA IFTVSLREQI ALLYNDNPEV VTLAAHLMLL
AAVYQISDSI QVIGSGILRG YKDTRSIFYI TFTAYWVLGL PSGYILALTD LVVEPMGPAG
FWIGFIIGLT SAAIMMMLRM RFLQRLPSAI ILQRASR
Length

457

Mol. Wt

49.448 kDa

pI

10.0 (calculated)

Extinction coefficient

62,340 - 62,715 (calc based on 16 Y, 7 W, and 3 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

17..177

PF01554 MatE

PMID:19920124[7]

Domain

244..405

PF01554 MatE

PMID:19920124[7]

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<motif_map/>

tmhmm.php?gene=mdtK&show=pic&.jpg
Click the image to view raw output from TMHMM.

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

Structures

<beststructure> gene=mdtK 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:49176133

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945883

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005561

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P37340

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG12400

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12400

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945883

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002262

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2300

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 1.3 1.4 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 2.3 2.4 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 Long, F et al. (2008) Functional cloning and characterization of the multidrug efflux pumps NorM from Neisseria gonorrhoeae and YdhE from Escherichia coli. Antimicrob. Agents Chemother. 52 3052-60 PubMed
  6. ↑ Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed
  7. ↑ 7.0 7.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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