ybiH: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

YbiH

Synonyms

predicted DNA-binding transcriptional regulator[1], B0796[2][1], YbiH[2][1] , ECK0785, JW0780, b0796

Product description

predicted DNA-binding transcriptional regulator[2][3]

Putative transcriptional repressor, 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:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012287

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001647

F

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

PMID:15556475[5]

ISS: Inferred from Sequence or Structural Similarity

UniProtKB:P0ACS9

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR001647

P

Seeded from EcoCyc (v14.0)

complete

GO:0030528

transcription regulator activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011075

F

Seeded from EcoCyc (v14.0)

complete

GO:0030528

transcription regulator activity

PMID:15556475[5]

ISS: Inferred from Sequence or Structural Similarity

UniProtKB:P0ACS9

F

Seeded from EcoCyc (v14.0)

complete

GO:0045449

regulation of transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011075

P

Seeded from EcoCyc (v14.0)

complete

GO:0045449

regulation of transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR012287

P

Seeded from EcoCyc (v14.0)

complete

GO:0045449

regulation of transcription

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0805

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

ahpC

PMID:16606699[6]

Experiment(s):EBI-1138006

Protein

ydcP

PMID:16606699[6]

Experiment(s):EBI-1138006

Protein

argG

PMID:16606699[6]

Experiment(s):EBI-1138006

Protein

dnaB

PMID:16606699[6]

Experiment(s):EBI-1138006

Protein

dnaK

PMID:16606699[6]

Experiment(s):EBI-1138006

Protein

speG

PMID:16606699[6]

Experiment(s):EBI-1138006
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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 

MDCAMNNPAM TIKGEQAKKQ LIAAALAQFG EYGMNATTRE IAAQAGQNIA AITYYFGSKE
DLYLACAQWI ADFIGEQFRP HAEEAERLFA QPQPDRAAIR ELILRACRNM IKLLTQDDTV
NLSKFISREQ LSPTAAYHLV HEQVISPLHS HLTRLIAAWT GCDANDTRMI LHTHALIGEI
LAFRLGKETI LLRTGWTAFD EEKTELINQT VTCHIDLILQ GLSQRSL
Length

227

Mol. Wt

25.437 kDa

pI

6.3 (calculated)

Extinction coefficient

23,950 - 24,575 (calc based on 5 Y, 3 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

17..62

PF00440 Bacterial regulatory proteins, tetR family

PMID:19920124[7]

Domain

95..218

PF09209 Domain of unknown function (DUF1956)

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=ybiH 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:162135896

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:945421

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0002711

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P0ACU0

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG12406

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG12406

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:945421

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120002268

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB2306

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 Pérez-Rueda, E et al. (2004) Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaea. Comput Biol Chem 28 341-50 PubMed
  6. ↑ 6.0 6.1 6.2 6.3 6.4 6.5 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  7. ↑ 7.0 7.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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