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Protein

DNA-binding transcriptional activator HyfR

Gene

hyfR

Organism
Escherichia coli (strain K12)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

A transcriptional activator of its own operon; when overexpressed operon expression is strongly enhanced by low pH (under pH 6.0), strongly inhibited by O2 but only weakly stimulated by fumarate (PubMed:12426353, PubMed:14702328). Expression in situ is very weak (PubMed:12426353, PubMed:14702328).1 Publication2 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Nucleotide bindingi375 – 382ATPPROSITE-ProRule annotation8
Nucleotide bindingi438 – 447ATPPROSITE-ProRule annotation10
DNA bindingi641 – 660H-T-H motifBy similarityAdd BLAST20

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • DNA binding Source: EcoliWiki
  • sequence-specific DNA binding Source: InterPro
  • transcription factor binding Source: InterPro

GO - Biological processi

  • DNA-templated transcription, initiation Source: EcoliWiki
  • phosphorelay signal transduction system Source: UniProtKB-KW
  • regulation of DNA-templated transcription, initiation Source: EcoCyc

Keywordsi

Molecular functionActivator, DNA-binding
Biological processTranscription, Transcription regulation, Two-component regulatory system
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciEcoCyc:G7308-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA-binding transcriptional activator HyfR
Alternative name(s):
Hydrogenase-4 transcriptional activator1 Publication
Gene namesi
Name:hyfR1 Publication
Ordered Locus Names:b2491, JW2476
OrganismiEscherichia coli (strain K12)
Taxonomic identifieri83333 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacteralesEnterobacteriaceaeEscherichia
Proteomesi
  • UP000000318 Componenti: Chromosome
  • UP000000625 Componenti: Chromosome

Organism-specific databases

EcoGeneiEG14219. hyfR.

Subcellular locationi

GO - Cellular componenti

Pathology & Biotechi

Disruption phenotypei

No effect on expression of the hyf operon.1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000812991 – 670DNA-binding transcriptional activator HyfRAdd BLAST670

Proteomic databases

PaxDbiP71229.
PRIDEiP71229.

Expressioni

Inductioni

Induced during anaerobic growth in the presence of formate; part of a hyfR-focB transcript, it is not clear where the hyfR promoter is located, nor if the upstream operon (hyfABCDEFGHIJ) includes these last 2 genes.1 Publication

Interactioni

GO - Molecular functioni

Protein-protein interaction databases

BioGridi4261431. 6 interactors.
DIPiDIP-9993N.
IntActiP71229. 13 interactors.
MINTiMINT-1219276.
STRINGi316385.ECDH10B_2657.

Structurei

3D structure databases

ProteinModelPortaliP71229.
SMRiP71229.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini169 – 311GAFAdd BLAST143
Domaini347 – 576Sigma-54 factor interactionPROSITE-ProRule annotationAdd BLAST230

Motif

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Motifi207 – 221Cys-rich segment, might bind a metal cluster1 PublicationAdd BLAST15

Domaini

A Cys-rich motif in the N-terminus (residues 207-221) may bind a metal cofactor or iron-sulfur cluster and be responsible for sensing redox or other signals.1 Publication

Phylogenomic databases

eggNOGiENOG4108JUA. Bacteria.
COG3604. LUCA.
HOGENOMiHOG000058488.
InParanoidiP71229.
KOiK12146.
PhylomeDBiP71229.

Family and domain databases

Gene3Di3.30.450.40. 1 hit.
InterProiView protein in InterPro
IPR003593. AAA+_ATPase.
IPR003018. GAF.
IPR029016. GAF_dom-like.
IPR009057. Homeobox-like.
IPR002197. HTH_Fis.
IPR027417. P-loop_NTPase.
IPR002078. Sigma_54_int.
IPR025662. Sigma_54_int_dom_ATP-bd_1.
IPR025943. Sigma_54_int_dom_ATP-bd_2.
IPR025944. Sigma_54_int_dom_CS.
PfamiView protein in Pfam
PF01590. GAF. 1 hit.
PF02954. HTH_8. 1 hit.
PF00158. Sigma54_activat. 1 hit.
SMARTiView protein in SMART
SM00382. AAA. 1 hit.
SM00065. GAF. 1 hit.
SUPFAMiSSF46689. SSF46689. 1 hit.
SSF52540. SSF52540. 1 hit.
SSF55781. SSF55781. 1 hit.
PROSITEiView protein in PROSITE
PS00675. SIGMA54_INTERACT_1. 1 hit.
PS00676. SIGMA54_INTERACT_2. 1 hit.
PS00688. SIGMA54_INTERACT_3. 1 hit.
PS50045. SIGMA54_INTERACT_4. 1 hit.

Sequencei

Sequence statusi: Complete.

P71229-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MAMSDEAMFA PPQGITIEAV NGMLAERLAQ KHGKASLLRA FIPLPPPFSP
60 70 80 90 100
VQLIELHVLK SNFYYRYHDD GSDVTATTEY QGEMVDYSRH AVLLGSSGMA
110 120 130 140 150
ELRFIRTHGS RFTSQDCTLF NWLARIITPV LQSWLNDEEQ QVALRLLEKD
160 170 180 190 200
RDHHRVLVDI TNAVLSHLDL DDLIADVARE IHHFFGLASV SMVLGDHRKN
210 220 230 240 250
EKFSLWCSDL SASHCACLPR CMPGESVLLT QTLQTRQPTL THRADDLFLW
260 270 280 290 300
QRDPLLLLLA SNGCESALLI PLTFGNHTPG ALLLAHTSST LFSEENCQLL
310 320 330 340 350
QHIADRIAIA VGNADAWRSM TDLQESLQQE NHQLSEQLLS NLGIGDIIYQ
360 370 380 390 400
SQAMEDLLQQ VDIVAKSDST VLICGETGTG KEVIARAIHQ LSPRRDKPLV
410 420 430 440 450
KINCAAIPAS LLESELFGHD KGAFTGAINT HRGRFEIADG GTLFLDEIGD
460 470 480 490 500
LPLELQPKLL RVLQEREIER LGGSRTIPVN VRVIAATNRD LWQMVEDRQF
510 520 530 540 550
RSDLFYRLNV FPLELPPLRD RPEDIPLLAK HFTQKMARHM NRAIDAIPTE
560 570 580 590 600
ALRQLMSWDW PGNVRELENV IERAVLLTRG NSLNLHLNVR QSRLLPTLNE
610 620 630 640 650
DSALRSSMAQ LLHPTTPEND EEERQRIVQV LRETNGIVAG PRGAATRLGM
660 670
KRTTLLSRMQ RLGISVREVL
Length:670
Mass (Da):75,305
Last modified:February 1, 1997 - v1
Checksum:i0EA738D2D6BA96B6
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M63654 Genomic DNA. Translation: AAB88573.1.
U00096 Genomic DNA. Translation: AAC75544.2.
AP009048 Genomic DNA. Translation: BAA16380.1.
PIRiB65025.
RefSeqiNP_416986.4. NC_000913.3.
WP_001251544.1. NZ_LN832404.1.

Genome annotation databases

EnsemblBacteriaiAAC75544; AAC75544; b2491.
BAA16380; BAA16380; BAA16380.
GeneIDi948886.
KEGGiecj:JW2476.
eco:b2491.
PATRICifig|1411691.4.peg.4248.

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.

Entry informationi

Entry nameiHYFR_ECOLI
AccessioniPrimary (citable) accession number: P71229
Secondary accession number(s): P76567, P76976, P76977
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: February 1, 1997
Last modified: July 5, 2017
This is version 139 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Escherichia coli
    Escherichia coli (strain K12): entries and cross-references to EcoGene