dinF:Gene Product(s): Difference between revisions

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!{{table heading style}} |Standard name
!align=left {{table heading style}} |Standard name
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DinF product  
DinF product  
|-
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!{{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
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DNA-damage-inducible SOS response protein product<ref name='LIB:Riley_2006'/>, DNA-damage-inducible protein F product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, DinF product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, B4044 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
DNA-damage-inducible SOS response protein product<ref name='LIB:Riley_2006'/>, DNA-damage-inducible protein F product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, DinF product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, B4044 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
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!{{table heading style}} |Product description
!align=left {{table heading style}} |Product description
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DinF MATE Transporter<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>
DinF MATE Transporter<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>


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!{{table heading style}} |EC number (for enzymes)
!align=left {{table heading style}} |EC number (for enzymes)
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|- {{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(s)!!Evidence Code!!with/from!!Aspect!!Notes!!Status
|-
|
|
[[Category:GO:0006855_!_multidrug_transport]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0006855_!_multidrug_transport GO:0006855]
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multidrug transport
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR002528
|
P
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
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complete
|-
|
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[[Category:GO:0015238_!_drug_transporter_activity]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0015238_!_drug_transporter_activity GO:0015238]
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drug transporter activity
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR002528
|
F
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
|
|
[[Category:GO:0015297_!_antiporter_activity]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0015297_!_antiporter_activity GO:0015297]
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antiporter activity
|
GO_REF:0000002
|
IEA: Inferred from Electronic Annotation
|
InterPro:IPR002528
|
F
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
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complete
|-
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|
[[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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GO_REF:0000002
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IEA: Inferred from Electronic Annotation
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InterPro:IPR002528
|
C
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
|
complete
|-
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|
[[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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GO_REF:0000004
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IEA: Inferred from Electronic Annotation
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SP_KW:KW-0397
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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
|
GO_REF:0000004
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IEA: Inferred from Electronic Annotation
|
SP_KW:KW-0472
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C
|
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
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complete
|-  
|-  
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required fields missing   
required fields missing   
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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
|
GO_REF:0000004
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IEA: Inferred from Electronic Annotation
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SP_KW:KW-0812
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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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!{{table heading style}} |Sequence
!align=left {{table heading style}} |Sequence
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[http://biocyc.org/ECOLI/sequence-aa?object=DINF-MONOMER at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=DINF-MONOMER at EcoCyc]  
<pre>MPPGVAVCFS SLFIRLVCMA FLTSSDKALW HLALPMIFSN ITVPLLGLVD TAVIGHLDSP
<pre>MPPGVAVCFS SLFIRLVCMA FLTSSDKALW HLALPMIFSN ITVPLLGLVD TAVIGHLDSP
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WLGNHALWLA LTVFLALRGL SLAAIWRRHW RNGTWFAAT</pre>  
WLGNHALWLA LTVFLALRGL SLAAIWRRHW RNGTWFAAT</pre>  
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!{{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
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49.65 kDa (calc) <ref name='LIB:EcoCyc10.6'/>  
49.65 kDa (calc) <ref name='LIB:EcoCyc10.6'/>  
|-
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!{{table heading style}} |pI
!align=left {{table heading style}} |pI
|
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|-
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!{{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
|
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86400 - 87025 (calc based on 10 Y, 13 W, and 5 C residues)  
86400 - 87025 (calc based on 10 Y, 13 W, and 5 C residues)  
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Domain
Domain
|
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5 - 22
427 - 446
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Predicted membrane-spanning helix.
Predicted membrane-spanning helix.
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Domain
Domain
|
|
29 - 51
5 - 22
|
|
Predicted membrane-spanning helix.
Predicted membrane-spanning helix.
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Domain
Domain
|
|
61 - 83
29 - 51
|
|
Predicted membrane-spanning helix.
Predicted membrane-spanning helix.
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Domain
Domain
|
|
107 - 129
61 - 83
|
|
Predicted membrane-spanning helix.
Predicted membrane-spanning helix.
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Domain
Domain
|
|
149 - 171
107 - 129
|
|
Predicted membrane-spanning helix.
Predicted membrane-spanning helix.
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Domain
Domain
|
|
178 - 200
149 - 171
|
|
Predicted membrane-spanning helix.
Predicted membrane-spanning helix.
Line 472: Line 345:
Domain
Domain
|
|
205 - 227
178 - 200
|
|
Predicted membrane-spanning helix.
Predicted membrane-spanning helix.
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Domain
Domain
|
|
427 - 446
205 - 227
|
|
Predicted membrane-spanning helix.
Predicted membrane-spanning helix.
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!Database!!Accession!!Notes
!|Database!!Accession!!Notes
|-
|-  
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[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])  
[http://ecocyc.org EcoCyc] ([[EcoCyc|EcoliWiki Page]])  
|
|
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=DINF-MONOMER EcoCyc:DINF-MONOMER]
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=DINF-MONOMER EcoCyc:DINF-MONOMER]
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|
   
   
|-
|-  
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[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])  
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])  
|
|
[[uniprot:P28303|UniProt:P28303]]
[[uniprot:P28303|UniProt:P28303]]
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|
   
   
|-
|-  
|
|
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])  
[http://pfam.sanger.ac.uk/ PFAM] ([[PFAM|EcoliWiki Page]])  
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[http://pfam.sanger.ac.uk/family?acc=PF01554 PFAM:PF01554]
[http://pfam.sanger.ac.uk/family?acc=PF01554 PFAM:PF01554]
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|
   
   
|-
|-  
|
|
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])  
[http://www.ncbi.nlm.nih.gov/RefSeq/ RefSeq] ([[RefSeq|EcoliWiki Page]])  
|
|
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_418468 RefSeq:NP_418468]
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_418468 RefSeq:NP_418468]
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Revision as of 01:37, 15 November 2008

{{#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

Standard name

DinF product

Synonyms

DNA-damage-inducible SOS response protein product[1], DNA-damage-inducible protein F product[2][1], DinF product[2][1], B4044 product[2][1]

Product description

DinF MATE Transporter[2][3]

EC number (for enzymes)
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See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Notes

Function

[back to top]


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(s) Evidence Code with/from Aspect Notes Status
GO:0006281

DNA repair

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0015292

uniporter activity

F

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0009432

SOS response

P

Seeded from EcoCyc 11.1[3].

required fields missing

edit table

Interactions

Partner Type Partner Notes
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See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Notes

Localization

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


Notes

Structure and Physical Properties

[back to top]


Physical Properties

Sequence

at EcoCyc 

MPPGVAVCFS SLFIRLVCMA FLTSSDKALW HLALPMIFSN ITVPLLGLVD TAVIGHLDSP
VYLGGVAVGA TATSFLFMLL LFLRMSTTGL TAQAYGAKNP QALARTLVQP LLLALGAGAL
IALLRTPIID LALHIVGGSE AVLEQARRFL EIRWLSAPAS LANLVLLGWL LGVQYARAPV
ILLVVGNILN IVLDVWLVMG LHMNVQGAAL ATVIAEYATL LIGLLMVRKI LKLRGISGEM
LKTAWRGNFR RLLALNRDIM LRSLLLQLCF GAITVLGARL GSDIIAVNAV LMTLLTFTAY
ALDGFAYAVE AHSGQAYGAR DGSQLLDVWR AACRQSGIVA LLFSVVYLLA GEHIIALLTS
LTQIQQLADR YLIWQVILPV VGVWCYLLDG MFIGATRATE MRNSMAVAAA GFALTLLTLP
WLGNHALWLA LTVFLALRGL SLAAIWRRHW RNGTWFAAT
Mol. Wt

49.65 kDa (calc) [2]

pI
Extinction coefficient

86400 - 87025 (calc based on 10 Y, 13 W, and 5 C residues)

edit table

See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Domains/Motifs/Modification Sites

Type Residues Description Notes

Domain

259 - 281

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

Domain

285 - 307

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

Domain

339 - 361

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

Domain

371 - 393

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

Domain

406 - 423

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

Domain

427 - 446

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

Domain

5 - 22

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

Domain

29 - 51

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

Domain

61 - 83

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

Domain

107 - 129

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

Domain

149 - 171

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

Domain

178 - 200

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

Domain

205 - 227

Predicted membrane-spanning helix.

TMD predicted by TMHMM[4]

edit table

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

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

Structure

Structures

<beststructure>dinF 562</beststructure>

Models

View models at:

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

Notes

Gene Product Resources

[back to top]


Resource type Source Notes/Reference
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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Notes

Accessions in Other Databases

[back to top]


Database Accession Notes

EcoCyc (EcoliWiki Page)

EcoCyc:DINF-MONOMER

UniProt (EcoliWiki Page)

UniProt:P28303

PFAM (EcoliWiki Page)

PFAM:PF01554

RefSeq (EcoliWiki Page)

RefSeq:NP_418468


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

Notes

Links

[back to top]


Name URL Comments
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See Help:Links_table for how to enter or edit information in this section of EcoliWiki.



References

[back to top]


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  1. ↑ 1.0 1.1 1.2 1.3 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. ↑ 3.0 3.1 3.2 3.3 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ 4.00 4.01 4.02 4.03 4.04 4.05 4.06 4.07 4.08 4.09 4.10 4.11 4.12 Krogh, A et al. (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305 567-80 PubMed


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