ybbO: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

YbbO

Synonyms

predicted oxidoreductase with NAD(P)-binding Rossmann-fold domain[1], B0493[2][1], YbbO[2][1] , ECK0487, JW0482, b0493

Product description

predicted oxidoreductase with NAD(P)-binding Rossmann-fold 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:0003824

catalytic activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016040

F

Seeded from EcoCyc (v14.0)

complete

GO:0005488

binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016040

F

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002198

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002347

P

Seeded from EcoCyc (v14.0)

complete

GO:0008152

metabolic process

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR016040

P

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002198

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002347

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR020904

F

Seeded from EcoCyc (v14.0)

complete

GO:0016491

oxidoreductase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

F

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002347

P

Seeded from EcoCyc (v14.0)

complete

GO:0055114

oxidation reduction

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0560

P

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

rhsC

PMID:16606699[5]

Experiment(s):EBI-1136892

Protein

glpD

PMID:16606699[5]

Experiment(s):EBI-1136892

Protein

ybfO

PMID:16606699[5]

Experiment(s):EBI-1136892

Protein

groL

PMID:16606699[5]

Experiment(s):EBI-1136892

Protein

allB

PMID:16606699[5]

Experiment(s):EBI-1136892

Protein

rpoC

PMID:16606699[5]

Experiment(s):EBI-1136892

Protein

dadA

PMID:16606699[5]

Experiment(s):EBI-1136892

Protein

ytfN

PMID:16606699[5]

Experiment(s):EBI-1136892

Protein

phnI

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

ihfA

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

hns

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rpoA

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

hupA

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

hupB

PMID:19402753[6]

LCMS(ID Probability):99.6

Protein

rob

PMID:19402753[6]

LCMS(ID Probability):99.6

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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 

MTHKATEILT GKVMQKSVLI TGCSSGIGLE SALELKRQGF HVLAGCRKPD DVERMNSMGF
TGVLIDLDSP ESVDRAADEV IALTDNCLYG IFNNAGFGMY GPLSTISRAQ MEQQFSANFF
GAHQLTMRLL PAMLPHGEGR IVMTSSVMGL ISTPGRGAYA ASKYALEAWS DALRMELRHS
GIKVSLIEPG PIRTRFTDNV NQTQSDKPVE NPGIAARFTL GPEAVVDKVR HAFISEKPKM
RYPVTLVTWA VMVLKRLLPG RVMDKILQG
Length

269

Mol. Wt

29.41 kDa

pI

9.1 (calculated)

Extinction coefficient

18,450 - 18,825 (calc based on 5 Y, 2 W, and 3 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

16..178

PF00106 short chain dehydrogenase

PMID:19920124[7]

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

Structures

<beststructure> gene=ybbO 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:16128477

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945337

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0001709

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0AFP4

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G6269

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG13262

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945337

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002877

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3050

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 5.5 5.6 5.7 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  6. ↑ 6.0 6.1 6.2 6.3 6.4 6.5 6.6 Hu, P et al. (2009) Global functional atlas of Escherichia coli encompassing previously uncharacterized proteins. PLoS Biol. 7 e96 PubMed
  7. ↑ Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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