ybjD: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

YbjD

Synonyms

conserved protein with nucleoside triphosphate hydrolase domain[1], YbjD[2][1], B0876[2][1] , ECK0867, JW0860, b0876

Product description

conserved protein with a nucleotide triphosphate hydrolase domain[2][3]

Function unknown[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:0000166

nucleotide binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0547

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0067

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

rplB

PMID:16606699[5]

Experiment(s):EBI-1138226

Protein

yegW

PMID:16606699[5]

Experiment(s):EBI-1138226

Protein

lon

PMID:16606699[5]

Experiment(s):EBI-1138226
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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 

MILERVEIVG FRGINRLSLM LEQNNVLIGE NAWGKSSLLD ALTLLLSPES DLYHFERDDF
WFPPGDINGR EHHLHIILTF RESLPGRHRV RRYRPLEACW TPCTDGYHRI FYRLEGESAE
DGSVMTLRSF LDKDGHPIDV EDINDQARHL VRLMPVLRLR DARFMRRIRN GTVPNVPNVE
VTARQLDFLA RELSSHPQNL SDGQIRQGLS AMVQLLEHYF SEQGAGQARY RLMRRRASNE
QRSWRYLDII NRMIDRPGGR SYRVILLGLF ATLLQAKGTL RLDKDARPLL LIEDPETRLH
PIMLSVAWHL LNLLPLQRIA TTNSGELLSL TPVEHVCRLV RESSRVAAWR LGPSGLSTED
SRRISFHIRF NRPSSLFARC WLLVEGETET WVINELARQC GHHFDAEGIK VIEFAQSGLK
PLVKFARRMG IEWHVLVDGD EAGKKYAATV RSLLNNDREA EREHLTALPA LDMEHFMYRQ
GFSDVFHRMA QIPENVPMNL RKIISKAIHR SSKPDLAIEV AMEAGRRGVD SVPTLLKKMF
SRVLWLARGR AD
Length

552

Mol. Wt

63.59 kDa

pI

9.6 (calculated)

Extinction coefficient

69,900 - 70,525 (calc based on 10 Y, 10 W, and 5 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

83..269

PF11398 Protein of unknown function (DUF2813)

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=ybjD 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:16128844

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945498

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002980

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P75828

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6459

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13425

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945498

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003059

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3199

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 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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