ydgA:Gene Product(s)

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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

YdgA

Synonyms

conserved protein[1], B1614[2][1], YdgA[2][1] , ECK1609, JW1606, b1614

Product description

conserved protein[2][3]

Required for swarming phenotype, function unknown; slightly upregulated by beryllium[4]

EC number (for enzymes)


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Notes

Function

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<protect> 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:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997

C

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0016020

membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0472

C

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

Protein

dusC

PMID:16606699[5]

Experiment(s):EBI-1140280

Protein

nohB

PMID:16606699[5]

Experiment(s):EBI-1140280

Protein

fusA

PMID:16606699[5]

Experiment(s):EBI-1140280

Protein

sdhA

PMID:16606699[5]

Experiment(s):EBI-1140280

Protein

nrdB

PMID:16606699[5]

Experiment(s):EBI-1140280
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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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<protect> 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 

MNKSLVAVGV IVALGVVWTG GAWYTGKKIE THLEDMVAQA NAQLKLTAPE SNLEVSYQNY
HRGVFSSQLQ LLVKPIAGKE NPWIKSGQSV IFNESVDHGP FPLAQLKKLN LIPSMASIQT
TLVNNEVSKP LFDMAKGETP FEINSRIGYS GDSSSDISLK PLNYEQKDEK VAFSGGEFQL
NADRDGKAIS LSGEAQSGRI DAVNEYNQKV QLTFNNLKTD GSSTLASFGE RVGNQKLSLE
KMTISVEGKE LALLEGMEIS GKSDLVNDGK TINSQLDYSL NSLKVQNQDL GSGKLTLKVG
QIDGEAWHQF SQQYNAQTQA LLAQPEIANN PELYQEKVTE AFFSALPLML KGDPVITIAP
LSWKNSQGES ALNLSLFLKD PATTKEAPQT LAQEVDRSVK SLDAKLTIPV DMATEFMTQV
AKLEGYQEDQ AKKLAKQQVE GASAMGQMFR LTTLQDNTIT TSLQYANGQI TLNGQKMSLE
DFVGMFAMPA LNVPAVPAIP QQ
Length

502

Mol. Wt

54.689 kDa

pI

4.9 (calculated)

Extinction coefficient

43,890 (calc based on 11 Y, 5 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

motif

1-19

UniProt Manual:Signal Peptides

UniProt:P77804

Domain

1..482

PF06097 Bacterial protein of unknown function (DUF945)

PMID:19920124[6]

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

Structures

<beststructure> gene=ydgA taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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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:16129572

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:946172

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0005402

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P77804

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6865

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12457

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:946172

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003454

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2351

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. ↑ 5.0 5.1 5.2 5.3 5.4 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  6. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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