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Displaying bHLH Family from Rice


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.


Protein Name
accepted / suggested
Gene Locus Synonym/
Gene Name
Clone in TFome Genome Browser
OsbHLH1 LOC_Os01g01840 View in Browser
OsbHLH2 LOC_Os01g01870 View in Browser
OsbHLH3 LOC_Os01g02110 pUT1665 View in Browser
OsbHLH4 LOC_Os01g06640 View in Browser
OsbHLH5 LOC_Os01g09900 View in Browser
OsbHLH6 LOC_Os01g09930 View in Browser
OsbHLH7 LOC_Os01g09990 pUT1679 View in Browser
OsbHLH8 LOC_Os01g11910 View in Browser
OsbHLH9 LOC_Os01g13460 View in Browser
OsbHLH10 LOC_Os01g18290 View in Browser
OsbHLH11 LOC_Os01g18870 View in Browser
OsbHLH13 LOC_Os01g38610 View in Browser
OsbHLH14 LOC_Os01g39330 View in Browser
OsbHLH15 LOC_Os01g39480 View in Browser
OsbHLH16 LOC_Os01g39580 View in Browser
OsbHLH17 LOC_Os01g50940 View in Browser
OsbHLH19 LOC_Os01g56690 View in Browser
OsbHLH21 LOC_Os01g61480 View in Browser
OsbHLH22 LOC_Os01g67480 pUT1677 View in Browser
OsbHLH23 LOC_Os01g68700 View in Browser
OsbHLH24 LOC_Os01g70310 pUT1858 View in Browser
OsbHLH25 LOC_Os01g72370 View in Browser
OsbHLH26 LOC_Os02g02480 pUT1617 View in Browser
OsbHLH27 LOC_Os02g02820 View in Browser
OsbHLH28 LOC_Os02g12820 View in Browser
OsbHLH30 LOC_Os02g15760 View in Browser
OsbHLH31 LOC_Os02g23823 pUT1613 View in Browser
OsbHLH32 LOC_Os02g34320 View in Browser
OsbHLH33 LOC_Os02g34370 View in Browser
OsbHLH34 LOC_Os02g35660 View in Browser
OsbHLH35 LOC_Os02g39140 View in Browser
OsbHLH36 LOC_Os02g46560 View in Browser
OsbHLH37 LOC_Os02g47660 View in Browser
OsbHLH38 LOC_Os02g48060 View in Browser
OsbHLH39 LOC_Os02g49480 View in Browser
OsbHLH40 LOC_Os02g51320 View in Browser
OsbHLH41 LOC_Os02g52190 View in Browser
OsbHLH42 LOC_Os02g55250 View in Browser
OsbHLH43 LOC_Os02g56140 View in Browser
OsbHLH44 LOC_Os03g03000 View in Browser
OsbHLH45 LOC_Os03g04310 pUT1612 View in Browser
OsbHLH46 LOC_Os03g07540 View in Browser
OsbHLH47 LOC_Os03g08930 pUT1675 View in Browser
OsbHLH48 LOC_Os03g10770 View in Browser
OsbHLH49 LOC_Os03g12760 View in Browser
OsbHLH50 LOC_Os03g12940 View in Browser
OsbHLH51 LOC_Os03g15440 View in Browser
OsbHLH55 LOC_Os03g42100 View in Browser
OsbHLH56 LOC_Os03g43810 View in Browser
OsbHLH57 LOC_Os03g46790 View in Browser
OsbHLH58 LOC_Os03g46860 pUT1671 View in Browser
OsbHLH59 LOC_Os03g51580 View in Browser
OsbHLH60 LOC_Os03g51910 View in Browser
OsbHLH61 LOC_Os12g40710 View in Browser
OsbHLH63 LOC_Os03g55550 View in Browser
OsbHLH64 LOC_Os03g56950 View in Browser
OsbHLH65 LOC_Os03g58330 pUT1676 View in Browser
OsbHLH66 LOC_Os03g58830 pUT1610 View in Browser
OsbHLH67 LOC_Os03g59670 View in Browser
OsbHLH68 LOC_Os04g23440 View in Browser
OsbHLH69 LOC_Os04g23550 View in Browser
OsbHLH70 LOC_Os04g28280 View in Browser
OsbHLH71 LOC_Os04g31290 View in Browser
OsbHLH72 LOC_Os04g35010 View in Browser
OsbHLH73 LOC_Os04g41229 View in Browser
OsbHLH74 LOC_Os04g47040 View in Browser
OsbHLH75 LOC_Os04g47059 View in Browser
OsbHLH76 LOC_Os04g47080 View in Browser
OsbHLH77 LOC_Os04g50090 View in Browser
OsbHLH78 LOC_Os04g51070 View in Browser
OsbHLH79 LOC_Os04g52770 View in Browser
OsbHLH82 LOC_Os05g01256 pUT1616 View in Browser
OsbHLH83 LOC_Os05g04740 View in Browser
OsbHLH84 LOC_Os05g06520 View in Browser
OsbHLH85 LOC_Os05g07120 View in Browser
OsbHLH86 LOC_Os05g11070 View in Browser
OsbHLH87 LOC_Os05g38140 View in Browser
OsbHLH90 LOC_Os05g50900 View in Browser
OsbHLH91 LOC_Os05g51820 View in Browser
OsbHLH92 LOC_Os06g06900 View in Browser
OsbHLH93 LOC_Os06g08500 View in Browser
OsbHLH94 LOC_Os06g09370 View in Browser
OsbHLH95 LOC_Os06g10820 View in Browser
OsbHLH96 LOC_Os06g12210 View in Browser
OsbHLH97 LOC_Os06g16400 pUT1748 View in Browser
OsbHLH98 LOC_Os06g30090 View in Browser
OsbHLH99 LOC_Os06g33450 View in Browser
OsbHLH100 LOC_Os06g37410 View in Browser
OsbHLH101 LOC_Os06g50900 View in Browser
OsbHLH102 LOC_Os07g05010 View in Browser
OsbHLH103 LOC_Os07g09590 View in Browser
OsbHLH105 LOC_Os07g35870 View in Browser
OsbHLH106 LOC_Os07g36460 View in Browser
OsbHLH107 LOC_Os07g39940 View in Browser
OsbHLH109 LOC_Os08g01700 View in Browser
OsbHLH110 LOC_Os08g04390 pUT1615 View in Browser
OsbHLH111 LOC_Os08g33590 View in Browser
OsbHLH112 LOC_Os08g36740 View in Browser
OsbHLH113 LOC_Os08g37290 View in Browser
OsbHLH114 LOC_Os08g37730 pUT1670 View in Browser
OsbHLH115 LOC_Os08g38080 View in Browser
OsbHLH116 LOC_Os08g38210 pUT1674 View in Browser
OsbHLH117 LOC_Os08g39630 View in Browser
OsbHLH118 LOC_Os08g41320 pUT1678 View in Browser
OsbHLH119 LOC_Os08g42470 View in Browser
OsbHLH120 LOC_Os08g43070 View in Browser
OsbHLH121 LOC_Os09g24490 View in Browser
OsbHLH122 LOC_Os09g25040 View in Browser
OsbHLH123 LOC_Os09g28210 View in Browser
OsbHLH124 LOC_Os09g28900 View in Browser
OsbHLH125 LOC_Os09g29360 View in Browser
OsbHLH126 LOC_Os09g29830 pUT1672 View in Browser
OsbHLH127 LOC_Os09g29930 View in Browser
OsbHLH128 LOC_Os09g31300 View in Browser
OsbHLH129 LOC_Os09g32510 View in Browser
OsbHLH130 LOC_Os09g33580 View in Browser
OsbHLH131 LOC_Os09g34330 View in Browser
OsbHLH132 LOC_Os10g01530 View in Browser
OsbHLH133 LOC_Os10g23050 View in Browser
OsbHLH135 LOC_Os10g39750 View in Browser
OsbHLH136 LOC_Os10g40740 View in Browser
OsbHLH137 LOC_Os10g42430 View in Browser
OsbHLH138 LOC_Os11g15210 View in Browser
OsbHLH139 LOC_Os11g32100 View in Browser
OsbHLH141 LOC_Os11g39000 View in Browser
OsbHLH142 LOC_Os11g41640 View in Browser
OsbHLH143 LOC_Os12g31430 View in Browser
OsbHLH144 LOC_Os12g32400 View in Browser
OsbHLH145 LOC_Os12g39850 View in Browser
OsbHLH146 LOC_Os12g40590 View in Browser
OsbHLH147 LOC_Os12g40630 View in Browser
OsbHLH148 LOC_Os03g53020 pUT1684 View in Browser
OsbHLH149 LOC_Os12g40730 View in Browser
OsbHLH150 LOC_Os12g41650 View in Browser
OsbHLH151 LOC_Os12g43620 View in Browser