dppD: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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DppD product  
DppD product  
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!{{table heading style}} |Synonyms
!align=left {{table heading style}} |Synonyms
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dipeptide transporter product<ref name='LIB:Riley_2006'/>, ATP-binding component of ABC superfamily product<ref name='LIB:Riley_2006'/>, B3541 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, DppD product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>  
dipeptide transporter product<ref name='LIB:Riley_2006'/>, ATP-binding component of ABC superfamily product<ref name='LIB:Riley_2006'/>, B3541 product<ref name='LIB:EcoCyc10.6'/><ref name='LIB:Riley_2006'/>, DppD 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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DppD<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>;  
DppD<ref name='LIB:EcoCyc10.6'/><ref name='LIB:EcoCyc11.1'/>;  


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[[Category:GO:0009063_!_amino_acid_catabolic_process]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0009063_!_amino_acid_catabolic_process GO:0009063]  
[[Category:GO:0043190_!_ATP-binding_cassette_(ABC)_transporter_complex]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0043190_!_ATP-binding_cassette_(ABC)_transporter_complex GO:0043190]
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amino acid catabolic process
ATP-binding cassette (ABC) transporter complex
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[[PMID:7536291]]<ref name=PMID:7536291/>
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ISS: Inferred from Sequence or Structural Similarity
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P
C
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Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
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required fields missing 
complete
|-  
|-  
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[[Category:GO:0043190_!_ATP-binding_cassette_(ABC)_transporter_complex]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0043190_!_ATP-binding_cassette_(ABC)_transporter_complex GO:0043190]
[[Category:GO:0009063_!_amino_acid_catabolic_process]][http://gowiki.tamu.edu/wiki/index.php/Category:GO:0009063_!_amino_acid_catabolic_process GO:0009063]  
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ATP-binding cassette (ABC) transporter complex
amino acid catabolic process
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[[PMID:7536291]]<ref name=PMID:7536291/>
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ISS: Inferred from Sequence or Structural Similarity
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C
P
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Seeded from EcoCyc 12.5 <ref name = 'LIB:EcoCyc12.5'/>
Seeded from EcoCyc 11.1<ref name='LIB:EcoCyc11.1'/>.
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complete
required fields missing 


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Protein
Protein
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could be indirect   
could be indirect   
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!|Compartment!!Description!!Evidence!!Notes
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cytoplasm
cytoplasm
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From EcoCyc<ref name='LIB:EcoCyc11.1'/>   
From EcoCyc<ref name='LIB:EcoCyc11.1'/>   
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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=DPPD-MONOMER at EcoCyc]  
[http://biocyc.org/ECOLI/sequence-aa?object=DPPD-MONOMER at EcoCyc]  
<pre>MALLNVDKLS VHFGDESAPF RAVDRISYSV KQGEVVGIVG ESGSGKSVSS LAIMGLIDYP
<pre>MALLNVDKLS VHFGDESAPF RAVDRISYSV KQGEVVGIVG ESGSGKSVSS LAIMGLIDYP
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EPALNMLADG RQSKCHYPLD DAGRPTL</pre>  
EPALNMLADG RQSKCHYPLD DAGRPTL</pre>  
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!{{table heading style}} |Mol. Wt
!align=left {{table heading style}} |Mol. Wt
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35.84 kDa (calc) <ref name='LIB:EcoCyc10.6'/>  
35.84 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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!{{table heading style}} |Extinction coefficient
!align=left {{table heading style}} |Extinction coefficient
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13410 - 14160 (calc based on 9 Y, 0 W, and 6 C residues)  
13410 - 14160 (calc based on 9 Y, 0 W, and 6 C residues)  
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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]])  
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[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=DPPD-MONOMER EcoCyc:DPPD-MONOMER]
[http://biocyc.org/ECOLI/NEW-IMAGE?type=NIL&object=DPPD-MONOMER EcoCyc:DPPD-MONOMER]
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[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])  
[http://uniprot.org/ UniProt] ([[UniProt|EcoliWiki Page]])  
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[[uniprot:P0AAG0|UniProt:P0AAG0]]
[[uniprot:P0AAG0|UniProt:P0AAG0]]
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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=PF00005 PFAM:PF00005]
[http://pfam.sanger.ac.uk/family?acc=PF00005 PFAM:PF00005]
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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]])  
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[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_417998 RefSeq:NP_417998]
[http://www.ncbi.nlm.nih.gov/entrez/viewer.fcgi?db=nucleotide&val=NP_417998 RefSeq:NP_417998]
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[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])  
[http://modbase.compbio.ucsf.edu ModBase] ([[ModBase|EcoliWiki Page]])  
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[http://salilab.org/modbase/searchbyid?databaseID=P0AAG0 ModBase:P0AAG0]
[http://salilab.org/modbase/searchbyid?databaseID=P0AAG0 ModBase:P0AAG0]
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Revision as of 01:39, 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

DppD product

Synonyms

dipeptide transporter product[1], ATP-binding component of ABC superfamily product[1], B3541 product[2][1], DppD product[2][1]

Product description

DppD[2][3];

Component of ; dipeptide ABC 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:0005524

ATP binding

PMID:7536291[4]

ISS: Inferred from Sequence or Structural Similarity

F

Seeded from EcoCyc 12.5 [5]

complete

GO:0005737

cytoplasm

PMID:7536291[4]

ISS: Inferred from Sequence or Structural Similarity

C

Seeded from EcoCyc 12.5 [5]

complete

GO:0006857

oligopeptide transport

PMID:1702779[6]

IGI: Inferred from Genetic Interaction

P

Seeded from EcoCyc 12.5 [5]

complete

GO:0015198

oligopeptide transporter activity

PMID:1702779[6]

IGI: Inferred from Genetic Interaction

F

Seeded from EcoCyc 12.5 [5]

complete

GO:0015421

oligopeptide-transporting ATPase activity

PMID:7536291[4]

ISS: Inferred from Sequence or Structural Similarity

F

Seeded from EcoCyc 12.5 [5]

complete

GO:0042936

dipeptide transporter activity

PMID:1702779[6]

IGI: Inferred from Genetic Interaction

F

Seeded from EcoCyc 12.5 [5]

complete

GO:0042938

dipeptide transport

PMID:1702779[6]

IGI: Inferred from Genetic Interaction

P

Seeded from EcoCyc 12.5 [5]

complete

GO:0043190

ATP-binding cassette (ABC) transporter complex

PMID:7536291[4]

ISS: Inferred from Sequence or Structural Similarity

C

Seeded from EcoCyc 12.5 [5]

complete

GO:0009063

amino acid catabolic process

P

Seeded from EcoCyc 11.1[3].

required fields missing

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Interactions

Partner Type Partner Notes

Protein

Subunits of dipeptide ABC transporter

could be indirect

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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

cytoplasm

From EcoCyc[3]

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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 

MALLNVDKLS VHFGDESAPF RAVDRISYSV KQGEVVGIVG ESGSGKSVSS LAIMGLIDYP
GRVMAEKLEF NGQDLQRISE KERRNLVGAE VAMIFQDPMT SLNPCYTVGF QIMEAIKVHQ
GGNKSTRRQR AIDLLNQVGI PDPASRLDVY PHQLSGGMSQ RVMIAMAIAC RPKLLIADEP
TTALDVTIQA QIIELLLELQ QKENMALVLI THDLALVAEA AHKIIVMYAG QVVETGDAHA
IFHAPRHPYT QALLRALPEF AQDKERLASL PGVVPGKYDR PNGCLLNPRC PYATDRCRAE
EPALNMLADG RQSKCHYPLD DAGRPTL
Mol. Wt

35.84 kDa (calc) [2]

pI
Extinction coefficient

13410 - 14160 (calc based on 9 Y, 0 W, and 6 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

4 - 254

ABC transporter

UniProt:P0AAG0

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

Structure

Structures

<beststructure>dppD 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:DPPD-MONOMER

UniProt (EcoliWiki Page)

UniProt:P0AAG0

PFAM (EcoliWiki Page)

PFAM:PF00005

RefSeq (EcoliWiki Page)

RefSeq:NP_417998

ModBase (EcoliWiki Page)

ModBase:P0AAG0


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

Notes

Links

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Name URL Comments
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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 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. ↑ 4.0 4.1 4.2 4.3 Abouhamad, WN & Manson, MD (1994) The dipeptide permease of Escherichia coli closely resembles other bacterial transport systems and shows growth-phase-dependent expression. Mol. Microbiol. 14 1077-92 PubMed
  5. ↑ 5.0 5.1 5.2 5.3 5.4 5.5 5.6 5.7 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  6. ↑ 6.0 6.1 6.2 6.3 Olson, ER et al. (1991) Identification and characterization of dppA, an Escherichia coli gene encoding a periplasmic dipeptide transport protein. J. Bacteriol. 173 234-44 PubMed


Categories

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