csdE: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

YgdK

Synonyms

predicted Fe-S metabolism protein[1], B2811[2][1], YgdK[2][1] , ECK2807, JW2782, ygdK, b2811

Product description

CsdE[2][3];

Component of cysteine sulfinate desulfinase[3]

Binds and stimulates CsdA activity[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:0005515

protein binding

PMID:15901727[5]

IPI: Inferred from Physical Interaction

UniProtKB:Q46925

F

Seeded from EcoCyc (v14.0)

complete

GO:0005515

protein binding

PMID:16606699[6]

IPI: Inferred from Physical Interaction

UniProtKB:P18843

F

Seeded from EcoCyc (v14.0)

complete

GO:0005515

protein binding

PMID:20054882[7]

IPI: Inferred from Physical Interaction

UniProtKB:Q46927

F

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

Subunits of cysteine sulfinate desulfinase

could be indirect

Protein

nadE

PMID:16606699[6]

Experiment(s):EBI-1144036
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Notes

Localization

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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 

MTNPQFAGHP FGTTVTAETL RNTFAPLTQW EDKYRQLIML GKQLPALPDE LKAQAKEIAG
CENRVWLGYT VAENGKMHFF GDSEGRIVRG LLAVLLTAVE GKTAAELQAQ SPLALFDELG
LRAQLSASRS QGLNALSEAI IAATKQV
Length

147

Mol. Wt

15.94 kDa

pI

6.3 (calculated)

Extinction coefficient

13,980 - 14,105 (calc based on 2 Y, 2 W, and 1 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

20..145

PF02657 Fe-S metabolism associated domain

PMID:19920124[8]

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

Structures

<beststructure> gene=csdE 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:16130718

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947274

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0009220

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AGF2

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G7455

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13083

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947274

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120004018

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2892

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. ↑ 3.0 3.1 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. ↑ Loiseau, L et al. (2005) Analysis of the heteromeric CsdA-CsdE cysteine desulfurase, assisting Fe-S cluster biogenesis in Escherichia coli. J. Biol. Chem. 280 26760-9 PubMed
  6. ↑ 6.0 6.1 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ Trotter, V et al. (2009) The CsdA cysteine desulphurase promotes Fe/S biogenesis by recruiting Suf components and participates to a new sulphur transfer pathway by recruiting CsdL (ex-YgdL), a ubiquitin-modifying-like protein. Mol. Microbiol. 74 1527-42 PubMed
  8. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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