hyfR: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

HyfR

Synonyms

DNA-binding transcriptional activator, formate sensing[1], B2491[2][1], HyfR[2][1] , ECK2487, JW2476, b2491

Product description

HyfR transcriptional activator[2][3]

Formate-sensing regulator for hyf operon[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:0000160

two-component signal transduction system (phosphorelay)

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0902

P

Seeded from EcoCyc (v14.0)

complete

GO:0000166

nucleotide binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003593

F

Seeded from EcoCyc (v14.0)

complete

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: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:IPR002197

F

Seeded from EcoCyc (v14.0)

complete

GO:0005524

ATP binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002078

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

GO:0005622

intracellular

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002078

C

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:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002078

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:IPR002197

P

Seeded from EcoCyc (v14.0)

complete

GO:0008134

transcription factor binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR002078

F

Seeded from EcoCyc (v14.0)

complete

GO:0017111

nucleoside-triphosphatase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR003593

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

PMID:12426353[5]

IDA: Inferred from Direct Assay

F

complete

GO:0006352

transcription initiation, DNA-dependent

PMID:14702328[6]

IMP: Inferred from Mutant Phenotype

P

GO replaces obsoleteGO:0016986

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

infB

PMID:16606699[7]

Experiment(s):EBI-1143023

Protein

rplB

PMID:16606699[7]

Experiment(s):EBI-1143023

Protein

groL

PMID:16606699[7]

Experiment(s):EBI-1143023

Protein

pgi

PMID:16606699[7]

Experiment(s):EBI-1143023

Protein

sdhA

PMID:16606699[7]

Experiment(s):EBI-1143023

Protein

dnaJ

PMID:16606699[7]

Experiment(s):EBI-1143023
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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 

MFAPPQGITI EAVNGMLAER LAQKHGKASL LRAFIPLPPP FSPVQLIELH VLKSNFYYRY
HDDGSDVTAT TEYQGEMVDY SRHAVLLGSS GMAELRFIRT HGSRFTSQDC TLFNWLARII
TPVLQSWLND EEQQVALRLL EKDRDHHRVL VDITNAVLSH LDLDDLIADV AREIHHFFGL
ASVSMVLGDH RKNEKFSLWC SDLSASHCAC LPRCMPGESV LLTQTLQTRQ PTLTHRADDL
FLWQRDPLLL LLASNGCESA LLIPLTFGNH TPGALLLAHT SSTLFSEENC QLLQHIADRI
AIAVGNADAW RSMTDLQESL QQENHQLSEQ LLSNLGIGDI IYQSQAMEDL LQQVDIVAKS
DSTVLICGET GTGKEVIARA IHQLSPRRDK PLVKINCAAI PASLLESELF GHDKGAFTGA
INTHRGRFEI ADGGTLFLDE IGDLPLELQP KLLRVLQERE IERLGGSRTI PVNVRVIAAT
NRDLWQMVED RQFRSDLFYR LNVFPLELPP LRDRPEDIPL LAKHFTQKMA RHMNRAIDAI
PTEALRQLMS WDWPGNVREL ENVIERAVLL TRGNSLNLHL NVRQSRLLPT LNEDSALRSS
MAQLLHPTTP ENDEEERQRI VQVLRETNGI VAGPRGAATR LGMKRTTLLS RMQRLGISVR EVL
Length

663

Mol. Wt

74.571 kDa

pI

6.4 (calculated)

Extinction coefficient

54,430 - 55,555 (calc based on 7 Y, 8 W, and 9 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

169..311

PF01590 GAF domain

PMID:19920124[8]

Domain

619..662

PF02954 Bacterial regulatory protein, Fis family

PMID:19920124[8]

Domain

347..514

PF00158 Sigma-54 interaction 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=hyfR 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:90111447

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948886

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008204

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P71229

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:G7308

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG14219

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948886

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120003880

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB3971

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. ↑ Skibinski, DA et al. (2002) Regulation of the hydrogenase-4 operon of Escherichia coli by the sigma(54)-dependent transcriptional activators FhlA and HyfR. J. Bacteriol. 184 6642-53 PubMed
  6. ↑ Self, WT et al. (2004) Expression and regulation of a silent operon, hyf, coding for hydrogenase 4 isoenzyme in Escherichia coli. J. Bacteriol. 186 580-7 PubMed
  7. ↑ 7.0 7.1 7.2 7.3 7.4 7.5 Arifuzzaman, M et al. (2006) Large-scale identification of protein-protein interaction of Escherichia coli K-12. Genome Res. 16 686-91 PubMed
  8. ↑ 8.0 8.1 8.2 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

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