Displaying bHLH Family from Brachypodium  
Information about bHLH family
The basic/helix-loop-helix (bHLH) proteins are a superfamily of transcription factors that bind as dimers to specific DNA target sites and that have been wellcharacterized in nonplant eukaryotes as important regulatory components in diverse biological processes. Based on evidence that the bHLH protein PIF3 is a direct phytochrome reaction partner in the photoreceptor signaling network we have undertaken a comprehensive computational analysis of the Arabidopsis genome sequence databases to define the scope and features of the bHLH family. Using a set of criteria derived from a previously defined consensus motif we identified 147 bHLH protein-encoding genes making this one of the largest transcription factor families in Arabidopsis. Phylogenetic analysis of the bHLH domain sequences permits classification of these genes into 21 subfamilies. The evolutionary and potential functional relationships implied by this analysis are supported by other criteria including the chromosomal distribution of these genes relative to duplicated genome segments the conservation of variant exon/intron structural patterns and the predicted DNA binding activities within subfamilies. Considerable diversity in DNA binding site specificity among family members is predicted and marked divergence in protein sequence outside of the conserved bHLH domain is observed. Together with the established propensity of bHLH factors to engage in varying degrees of homodimerization and heterodimerization these observations suggest that the Arabidopsis bHLH proteins have the potential to participate in an extensive set of combinatorial interactions endowing them with the capacity to be involved in the regulation of a multiplicity of transcriptional programs. We provide evidence from yeast two-hybrid and in vitro binding assays that two related phytochrome-interacting members in the Arabidopsis family PIF3 and PIF4 can form both homodimers and heterodimers and that all three dimeric configurations can bind specifically to the G-box DNA sequence motif CACGTG. These data are consistent in principle with the operation of this combinatorial mechanism in Arabidopsis.
(Taken from AGRIS)

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Protein Name
[Suggested/Accepted]
Synonym/
Gene Name
Gene Id
[ Brachypodium.org ]
DNA Binding Preferences
Binding SiteNFM
Targeting
TFs
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in TFome
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BdbHLH1Bradi1g04280
BdbHLH2Bradi1g05037
BdbHLH3Bradi1g05430
BdbHLH4Bradi1g06670
BdbHLH5Bradi1g07936
BdbHLH6Bradi1g09177
BdbHLH7Bradi1g09960
BdbHLH8Bradi1g10170
BdbHLH9Bradi1g12770
BdbHLH10Bradi1g12780
BdbHLH11Bradi1g13980
BdbHLH12Bradi1g14600
BdbHLH13Bradi1g18400
BdbHLH14Bradi1g22960
BdbHLH15Bradi1g25230
BdbHLH16Bradi1g25470
BdbHLH17Bradi1g30000
BdbHLH18Bradi1g35990
BdbHLH19Bradi1g37540
BdbHLH20Bradi1g38650
BdbHLH21Bradi1g42440
BdbHLH22Bradi1g43650
BdbHLH23Bradi1g45260
BdbHLH24Bradi1g46100
BdbHLH25Bradi1g46700
BdbHLH26Bradi1g47350
BdbHLH27Bradi1g48400
BdbHLH28Bradi1g54070
BdbHLH29Bradi1g54690
BdbHLH30Bradi1g55427
BdbHLH31Bradi1g58230
BdbHLH32Bradi1g67500
BdbHLH33Bradi1g69110
BdbHLH34Bradi1g69190
BdbHLH35Bradi1g70860
BdbHLH36Bradi1g71990
BdbHLH37Bradi1g76030
BdbHLH38Bradi1g77070
BdbHLH39Bradi2g00720
BdbHLH40Bradi2g00730
BdbHLH41Bradi2g00740
BdbHLH42Bradi2g01000
BdbHLH43Bradi2g03830
BdbHLH44Bradi2g05950
BdbHLH45Bradi2g07050
BdbHLH46Bradi2g08080
BdbHLH47Bradi2g11100
BdbHLH48Bradi2g11260
BdbHLH49Bradi2g18200
BdbHLH50Bradi2g22810
BdbHLH51Bradi2g23520
BdbHLH52Bradi2g34600
BdbHLH53Bradi2g39970
BdbHLH54Bradi2g41390
BdbHLH55Bradi2g41670
BdbHLH56Bradi2g47730
BdbHLH57Bradi2g54030
BdbHLH58Bradi2g57800
BdbHLH59Bradi2g58630
BdbHLH60Bradi2g59497
BdbHLH61Bradi2g60970
BdbHLH62Bradi2g61050
BdbHLH63Bradi3g01540
BdbHLH64Bradi3g01901
BdbHLH65Bradi3g01910
BdbHLH66Bradi3g08280
BdbHLH67Bradi3g09670
BdbHLH68Bradi3g11520
BdbHLH69Bradi3g13300
BdbHLH70Bradi3g14590
BdbHLH71Bradi3g21460
BdbHLH72Bradi3g33170
BdbHLH73Bradi3g34200
BdbHLH74Bradi3g36610
BdbHLH75Bradi3g38250
BdbHLH76Bradi3g38360
BdbHLH77Bradi3g38510
BdbHLH78Bradi3g38890
BdbHLH79Bradi3g38970
BdbHLH80Bradi3g39927
BdbHLH81Bradi3g40860
BdbHLH82Bradi3g41510
BdbHLH83Bradi3g41930
BdbHLH84Bradi3g41940
BdbHLH85Bradi3g41950
BdbHLH86Bradi3g43250
BdbHLH87Bradi3g45360
BdbHLH88Bradi3g45370
BdbHLH89Bradi3g46200
BdbHLH90Bradi3g48070
BdbHLH91Bradi3g52150
BdbHLH92Bradi3g52790
BdbHLH93Bradi3g53060
BdbHLH94Bradi3g54070
BdbHLH95Bradi3g54640
BdbHLH96Bradi3g56340
BdbHLH97Bradi3g58360
BdbHLH98Bradi3g59290
BdbHLH99Bradi4g00920
BdbHLH100Bradi4g02670
BdbHLH101Bradi4g03070
BdbHLH102Bradi4g06567
BdbHLH103Bradi4g12615
BdbHLH104Bradi4g17460
BdbHLH105Bradi4g19577
BdbHLH106Bradi4g29370
BdbHLH107Bradi4g29990
BdbHLH108Bradi4g30350
BdbHLH109Bradi4g32060
BdbHLH110Bradi4g32470
BdbHLH111Bradi4g32650
BdbHLH112Bradi4g32934
BdbHLH113Bradi4g32967
BdbHLH114Bradi4g33670
BdbHLH115Bradi4g34350
BdbHLH116Bradi4g34870
BdbHLH117Bradi4g35400
BdbHLH118Bradi5g01900
BdbHLH119Bradi5g05110
BdbHLH120Bradi5g06620
BdbHLH121Bradi5g07720
BdbHLH122Bradi5g19950
BdbHLH123Bradi5g20397
BdbHLH124Bradi5g21950
124 results found