dppD:Gene Product(s): Difference between revisions

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!align=left {{table heading style}} |Structures
!align=left {{table heading style}} |Structures
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<beststructure>dppD
<beststructure>
562</beststructure>
gene=dppD
 
taxon=562,83333
</beststructure>
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|-
!align=left {{table heading style}} |Models
!align=left {{table heading style}} |Models
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View models at:
View models at:
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=dppD&sub=keywordSearc EcoliPredict]
* [http://dragon.bio.purdue.edu/ecolpredict2/localsearch/cgi-bin/search3.cgi?q=recA EcoliPredict]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=dppD&organism=562&organismtext= ModBase]
* [http://modbase.compbio.ucsf.edu/modbase-cgi/model_search.cgi?searchmode=default&displaymode=moddetail&searchproperties=ALL&searchvalue=recA&organism=562&organismtext= ModBase]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://bioinf.cs.ucl.ac.uk/psipred/ PSI-PRED]
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)
* [http://www.ebi.ac.uk/msd-srv/pqs/ Protein Quaternary Structure] (PQS)

Revision as of 22:30, 25 August 2009

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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

DppD

Synonyms

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

Product description

DppD[2][3];

Component of dipeptide ABC transporter[2][3]

Dipeptide/heme transport, ATP-binding protein; also transports 5-aminolevulinic acid[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(s) Evidence Code with/from Aspect Notes Status
GO:0005524

ATP binding

PMID:7536291[5]

ISS: Inferred from Sequence or Structural Similarity

F

Seeded from EcoCyc 12.5 [6]

complete

GO:0005737

cytoplasm

PMID:7536291[5]

ISS: Inferred from Sequence or Structural Similarity

C

Seeded from EcoCyc [7]

complete

GO:0006857

oligopeptide transport

PMID:1702779[8]

IGI: Inferred from Genetic Interaction

P

Seeded from EcoCyc 12.5 [6]

complete

GO:0015198

oligopeptide transporter activity

PMID:1702779[8]

IGI: Inferred from Genetic Interaction

F

Seeded from EcoCyc 12.5 [6]

complete

GO:0015421

oligopeptide-transporting ATPase activity

PMID:7536291[5]

ISS: Inferred from Sequence or Structural Similarity

F

Seeded from EcoCyc [7]

complete

GO:0042936

dipeptide transporter activity

PMID:1702779[8]

IGI: Inferred from Genetic Interaction

F

Seeded from EcoCyc [7]

complete

GO:0042938

dipeptide transport

PMID:1702779[8]

IGI: Inferred from Genetic Interaction

P

Seeded from EcoCyc [7]

complete

GO:0043190

ATP-binding cassette (ABC) transporter complex

PMID:7536291[5]

ISS: Inferred from Sequence or Structural Similarity

C

Seeded from EcoCyc [7]

complete

GO:0009063

amino acid catabolic process

P

Seeded from EcoCyc 11.1[3].

required fields missing

GO:0000166

nucleotide binding

GO_REF:0000002
GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR003593
InterPro:IPR013563
SP_KW:KW-0547

F

Seeded from EcoCyc [7]

complete

GO:0005886

plasma membrane

GO_REF:0000004
GO_REF:0000004
GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997
SP_KW:KW-1003
SP_SL:SL-0037

C

Seeded from EcoCyc [7]

complete

GO:0006810

transport

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0813

P

Seeded from EcoCyc [7]

complete

GO:0015031

protein transport

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0653

P

Seeded from EcoCyc [7]

complete

GO:0015197

peptide transporter activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR010066

F

Seeded from EcoCyc [7]

complete

GO:0015833

peptide transport

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR010066
InterPro:IPR013563

P

Seeded from EcoCyc [7]

complete

GO:0016020

membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc [7]

complete

GO:0016887

ATPase activity

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003439
InterPro:IPR017871

F

Seeded from EcoCyc [7]

complete

GO:0017111

nucleoside-triphosphatase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003593

F

Seeded from EcoCyc [7]

complete

GO:0000166

nucleotide binding

GO_REF:0000002
GO_REF:0000002
GO_REF:0000004

IEA: Inferred from Electronic Annotation

InterPro:IPR003593
InterPro:IPR013563
SP_KW:KW-0547

F

Seeded from EcoCyc

complete

GO:0005524

ATP binding

GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000002
GO_REF:0000004
PMID:7536291[5]

ISS: Inferred from Sequence or Structural Similarity

InterPro:IPR003439
InterPro:IPR010066
InterPro:IPR013563
InterPro:IPR017871
SP_KW:KW-0067

F

Seeded from EcoCyc

complete

GO:0005737

cytoplasm

PMID:7536291[5]

ISS: Inferred from Sequence or Structural Similarity

C

Seeded from EcoCyc

complete

GO:0005886

plasma membrane

GO_REF:0000004
GO_REF:0000004
GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997
SP_KW:KW-1003
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:0006857

oligopeptide transport

GO_REF:0000004
PMID:1702779[8]

IGI: Inferred from Genetic Interaction

SP_KW:KW-0571

P

Seeded from EcoCyc

complete

GO:0015031

protein transport

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0653

P

Seeded from EcoCyc

complete

GO:0015197

peptide transporter activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR010066

F

Seeded from EcoCyc

complete

GO:0015198

oligopeptide transporter activity

GO_REF:0000004
PMID:1702779[8]

IGI: Inferred from Genetic Interaction

SP_KW:KW-0571

F

Seeded from EcoCyc

complete

GO:0015421

oligopeptide-transporting ATPase activity

PMID:7536291[5]

ISS: Inferred from Sequence or Structural Similarity

F

Seeded from EcoCyc

complete

GO:0015833

peptide transport

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR010066
InterPro:IPR013563

P

Seeded from EcoCyc

complete

GO:0016020

membrane

GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

Seeded from EcoCyc

complete

GO:0016887

ATPase activity

GO_REF:0000002
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003439
InterPro:IPR017871

F

Seeded from EcoCyc

complete

GO:0017111

nucleoside-triphosphatase activity

GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003593

F

Seeded from EcoCyc

complete

GO:0042936

dipeptide transporter activity

PMID:1702779[8]

IGI: Inferred from Genetic Interaction

F

Seeded from EcoCyc

complete

GO:0042938

dipeptide transport

PMID:1702779[8]

IGI: Inferred from Genetic Interaction

P

Seeded from EcoCyc

complete

GO:0043190

ATP-binding cassette (ABC) transporter complex

PMID:7536291[5]

ISS: Inferred from Sequence or Structural Similarity

C

Seeded from EcoCyc

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

Protein

Subunits of dipeptide ABC transporter

could be indirect


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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 Notes

cytoplasm

From EcoCyc[3]

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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.

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
Length

327

Mol. Wt

35.844 kDa

pI

6.6 (calculated)

Extinction coefficient

13,410 - 14,160 (calc based on 9 Y, W, and 6 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

Domain

4 - 254

ABC transporter

UniProt:P0AAG0

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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=dppD 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

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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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 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. ↑ 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 5.3 5.4 5.5 5.6 5.7 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
  6. ↑ 6.0 6.1 6.2 EcoCyc (release 12.5; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  7. ↑ 7.00 7.01 7.02 7.03 7.04 7.05 7.06 7.07 7.08 7.09 7.10 7.11 7.12 7.13 EcoCyc (release 13.0; 2009) Keseler, IM et al. (2009) Nucleic Acids Res. 37(Database issue):D464-70
  8. ↑ 8.0 8.1 8.2 8.3 8.4 8.5 8.6 8.7 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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