ybcJ: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

YbcJ

Synonyms

predicted RNA-binding protein[1], YbcJ[2][1], B0528[2][1] , ECK0521, JW5070, b0528

Product description

putative RNA-binding protein[2]; predicted RNA-binding protein[3]

Ribosome-associated protein, function unknown; putative RNA binding protein[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:0003723

RNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002942

F

Seeded from EcoCyc (v14.0)

complete

GO:0003723

RNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0694

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

pnp

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

pssA

PMID:15690043[5]

Experiment(s):EBI-878757

Protein

rhlB

PMID:15690043[5]

Experiment(s):EBI-878757

Protein

rplA

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

rplC

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

rplI

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

rpoA

PMID:15690043[5]

Experiment(s):EBI-878757

Protein

rpoC

PMID:15690043[5]

Experiment(s):EBI-878757

Protein

rpsA

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

rpsB

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

rpsC

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

srmB

PMID:15690043[5]

Experiment(s):EBI-878757

Protein

yajQ

PMID:15690043[5]

Experiment(s):EBI-878757

Protein

ycbY

PMID:15690043[5]

Experiment(s):EBI-878757

Protein

rluC

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-890236

Protein

rluB

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

yfiF

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

ygiF

PMID:15690043[5]

Experiment(s):EBI-878757

Protein

yhiR

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

aceF

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

deaD

PMID:15690043[5]

Experiment(s):EBI-878757

Protein

dnaJ

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

lpdA

PMID:15690043[5]

Experiment(s):EBI-878757

Protein

aidB

PMID:15690043[5]

Experiment(s):EBI-878757

Protein

rnr

PMID:15690043[5]

Experiment(s):EBI-878757, EBI-881754

Protein

eno

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

hupA

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

hupB

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rne

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rplD

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rplF

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rplK

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rplL

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rplM

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rplQ

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rplR

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rplS

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rplT

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rplU

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rplV

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rplX

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rpmG

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rpsE

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rpsF

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

rpsI

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

yibL

PMID:15690043[5]

Experiment(s):EBI-881754, EBI-887431

Protein

yihI

PMID:15690043[5]

Experiment(s):EBI-881754

Protein

adhE

PMID:19402753[6]

MALDI(Z-score):20.164404

Protein

rpmG

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

eno

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplK

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

dnaJ

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):28.474606

Protein

hupB

PMID:19402753[6]

LCMS(ID Probability):99.4

Protein

rpsA

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):28.270072

Protein

rplP

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsF

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsN

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplT

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpmB

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsT

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplI

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):30.385625

Protein

rplR

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

hybC

PMID:19402753[6]

MALDI(Z-score):27.785239

Protein

rplS

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):2.146331

Protein

rplU

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplX

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rplM

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

ihfA

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpsD

PMID:19402753[6]

LCMS(ID Probability):99.3 MALDI(Z-score):28.004333

Protein

rplF

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):15.842353

Protein

rplB

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):20.914227

Protein

rplQ

PMID:19402753[6]

LCMS(ID Probability):99.2

Protein

rpoA

PMID:19402753[6]

MALDI(Z-score):35.894115

Protein

rpsC

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):33.954940

Protein

rplA

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):32.533390

Protein

prs

PMID:19402753[6]

MALDI(Z-score):26.749891

Protein

rplD

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):8.510244

Protein

yihI

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rlmL

PMID:19402753[6]

MALDI(Z-score):27.059128

Protein

srmB

PMID:19402753[6]

MALDI(Z-score):26.839928

Protein

aidB

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):38.246624

Protein

ygiF

PMID:19402753[6]

MALDI(Z-score):38.881696

Protein

hrpA

PMID:19402753[6]

MALDI(Z-score):18.662063

Protein

pnp

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):27.259636

Protein

rnr

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):28.162485

Protein

yfiF

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):36.415270

Protein

yhiR

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):35.708365

Protein

rne

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):13.497979

Protein

yibL

PMID:19402753[6]

LCMS(ID Probability):99.6 MALDI(Z-score):13.923336

Protein

pssA

PMID:19402753[6]

MALDI(Z-score):25.268877

Protein

rhlB

PMID:19402753[6]

MALDI(Z-score):37.343590

Protein

pcnB

PMID:19402753[6]

MALDI(Z-score):29.263305

Protein

deaD

PMID:19402753[6]

LCMS(ID Probability):81.3 MALDI(Z-score):27.822436

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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 

MIHRMSNMAT FSLGKHPHVE LCDLLKLEGW SESGAQAKIA IAEGQVKVDG AVETRKRCKI
VAGQTVSFAG HSVQVVA
Length

77

Mol. Wt

8.258 kDa

pI

8.7 (calculated)

Extinction coefficient

5,500 - 5,750 (calc based on 0 Y, 1 W, and 2 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
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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=ybcJ 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:90111146

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945158

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001816

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AAS7

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG12879

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12879

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945158

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002418

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2717

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. ↑ 5.00 5.01 5.02 5.03 5.04 5.05 5.06 5.07 5.08 5.09 5.10 5.11 5.12 5.13 5.14 5.15 5.16 5.17 5.18 5.19 5.20 5.21 5.22 5.23 5.24 5.25 5.26 5.27 5.28 5.29 5.30 5.31 5.32 5.33 5.34 5.35 5.36 5.37 5.38 5.39 5.40 5.41 5.42 5.43 5.44 5.45 5.46 Butland, G et al. (2005) Interaction network containing conserved and essential protein complexes in Escherichia coli. Nature 433 531-7 PubMed
  6. ↑ 6.00 6.01 6.02 6.03 6.04 6.05 6.06 6.07 6.08 6.09 6.10 6.11 6.12 6.13 6.14 6.15 6.16 6.17 6.18 6.19 6.20 6.21 6.22 6.23 6.24 6.25 6.26 6.27 6.28 6.29 6.30 6.31 6.32 6.33 6.34 6.35 6.36 6.37 6.38 6.39 6.40 6.41 6.42 6.43 6.44 6.45 6.46 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed

Categories

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