Plant Transcription factor database - Universität Potsdam
version: 3.0

Arabidopsis thaliana bHLH Family

Description

Buck & Atchley. 2003: The basic helix-loop-helix (bHLH) family of proteins is a group of functionally diverse transcription factors found in both plants and animals. These proteins evolved early in eukaryotic cells before the split of animals and plants, but appear to function in lsquoplant-specificrsquo or lsquoanimal-specificrsquo processes. In animals bHLH proteins are involved in regulation of a wide variety of essential developmental processes. On the contrary, bHLH proteins have not been extensively studied in plants. Those that have been characterized function in anthocyanin biosynthesis, phytochrome signaling, globulin expression, fruit dehiscence, carpel and epidermal development.

Members of this family
  SHOULD possess HLH domain

Domain alignments

Benchmark against A. thaliana

The Sensitivity and Positive Predictive Value (PPV) were assessed for this family. The data reported by Bailey et al. 2003 for A. thaliana were taken as gold standard.

The gold standard reported 154 members for this family, 122 of which are present in ArabTFDB, giving a PPV of 0.92. Thirty-two additional members not present in ArabTFDB might be false negatives, giving a Sensitivity of 0.80.

This family is also present in:

References

There are 177 gene models in this family



Gene modelDescriptionDomains
AT1G01260.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G01260.2 basic helix-loop-helix (bHLH) family protein HLH
AT1G02340.1 HFR1 (LONG HYPOCOTYL IN FAR-RED); DNA binding / transcription factor HLH
AT1G03040.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G05805.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G06170.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G06170.2 basic helix-loop-helix (bHLH) family protein HLH
AT1G09530.1 PAP3/PIF3/POC1 (PHYTOCHROME INTERACTING FACTOR 3); DNA binding / protein binding / transcription factor/ transcription regulator HLH
AT1G09530.2 PAP3/PIF3/POC1 (PHYTOCHROME INTERACTING FACTOR 3); DNA binding / transcription factor/ transcription regulator HLH
AT1G10120.1 DNA binding / transcription factor HLH
AT1G10585.1 transcription factor HLH
AT1G10586.1 transcription regulator HLH
AT1G10610.1 DNA binding / transcription factor HLH
AT1G12540.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G12860.1 basic helix-loop-helix (bHLH) family protein / F-box family protein F-box HLH
AT1G18400.1 BEE1 (BR ENHANCED EXPRESSION 1); transcription factor HLH
AT1G22490.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G25310.1 MEE8 (maternal effect embryo arrest 8); DNA binding / transcription factor HLH
AT1G25330.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G26260.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G26260.2 basic helix-loop-helix (bHLH) family protein HLH
AT1G26260.3 basic helix-loop-helix (bHLH) family protein HLH
AT1G27740.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G30670.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G32640.1 ATMYC2 (JASMONATE INSENSITIVE 1); DNA binding / transcription factor HLH
AT1G35460.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G49770.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G51070.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G51140.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G59640.1 ZCW32 (BIGPETAL, BIGPETALUB); DNA binding / transcription factor HLH
AT1G59640.2 ZCW32 (BIGPETAL, BIGPETALUB); DNA binding / transcription factor HLH
AT1G61660.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G61660.2 basic helix-loop-helix (bHLH) family protein HLH
AT1G62975.1 basic helix-loop-helix (bHLH) family protein (bHLH125) HLH
AT1G63650.1 EGL3 (ENHANCER OF GLABRA3); DNA binding / transcription factor HLH
AT1G63650.2 EGL3 (ENHANCER OF GLABRA3); DNA binding HLH
AT1G66470.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G68240.1 transcription factor HLH
AT1G68240.2 contains InterPro domain Basic helix-loop-helix dimerisation region bHLH; (InterPro:IPR001092); contains InterPro domain Helix-loop-helix DNA-binding; (InterPro:IPR011598) HLH
AT1G68810.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G68920.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G68920.2 basic helix-loop-helix (bHLH) family protein HLH
AT1G68920.3 basic helix-loop-helix (bHLH) family protein HLH
AT1G69010.1 BIM2 (BES1-INTERACTING MYC-LIKE PROTEIN 2); DNA binding / transcription factor HLH
AT1G71200.1 basic helix-loop-helix (bHLH) family protein HLH
AT1G72210.1 basic helix-loop-helix (bHLH) family protein (bHLH096) HLH
AT1G73830.1 BEE3 (BR ENHANCED EXPRESSION 3); DNA binding / transcription factor HLH
AT1G74500.1 bHLH family protein HLH
AT2G14760.1 basic helix-loop-helix protein / bHLH protein HLH
AT2G16910.1 AMS (ABORTED MICROSPORES); DNA binding / transcription factor HLH
AT2G18300.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G18300.2 basic helix-loop-helix (bHLH) family protein HLH
AT2G20180.1 PIL5 (PHYTOCHROME INTERACTING FACTOR 3-LIKE 5); transcription factor HLH
AT2G20180.2 PIL5 (PHYTOCHROME INTERACTING FACTOR 3-LIKE 5); transcription factor HLH
AT2G22750.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G22750.2 basic helix-loop-helix (bHLH) family protein HLH
AT2G22760.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G22770.1 NAI1; DNA binding / transcription factor HLH
AT2G24260.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G28160.1 ATBHLH029/BHLH029/FIT1/FRU (FE-DEFICIENCY INDUCED TRANSCRIPTION FACTOR 1); DNA binding / transcription factor HLH
AT2G31210.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G31215.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G31220.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G34820.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G40200.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G41130.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G41240.1 BHLH100; DNA binding / transcription factor HLH
AT2G41240.2 BHLH100; DNA binding / transcription factor HLH
AT2G42280.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G42300.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G43010.1 PIF4 (PHYTOCHROME INTERACTING FACTOR 4); DNA binding / transcription factor HLH
AT2G43010.2 PIF4 (PHYTOCHROME INTERACTING FACTOR 4); DNA binding / transcription factor HLH
AT2G43140.1 DNA binding / transcription factor HLH
AT2G46510.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G46810.1 basic helix-loop-helix (bHLH) family protein HLH
AT2G46970.1 PIL1 (PHYTOCHROME INTERACTING FACTOR 3-LIKE 1); transcription factor HLH
AT3G06120.1 MUTE (MUTE); DNA binding / transcription factor HLH
AT3G07340.1 basic helix-loop-helix (bHLH) family protein HLH
AT3G19860.1 basic helix-loop-helix (bHLH) family protein HLH
AT3G19860.2 basic helix-loop-helix (bHLH) family protein HLH
AT3G21330.1 basic helix-loop-helix (bHLH) family protein HLH
AT3G22100.1 basic helix-loop-helix (bHLH) family protein HLH
AT3G23210.1 basic helix-loop-helix (bHLH) family protein HLH
AT3G23690.1 basic helix-loop-helix (bHLH) family protein HLH
AT3G24140.1 FMA (FAMA); DNA binding / transcription activator/ transcription factor HLH
AT3G25710.1 basic helix-loop-helix (bHLH) family protein HLH
AT3G26744.1 ICE1 (INDUCER OF CBF EXPRESSION 1); DNA binding / transcription factor HLH
AT3G26744.2 ICE1 (INDUCER OF CBF EXPRESSION 1); DNA binding HLH
AT3G26744.4 ICE1 (INDUCER OF CBF EXPRESSION 1); DNA binding HLH
AT3G47640.1 basic helix-loop-helix (bHLH) family protein HLH
AT3G50330.1 HEC2 (HECATE 2); DNA binding / transcription factor HLH
AT3G56770.1 basic helix-loop-helix (bHLH) family protein HLH
AT3G56970.1 BHLH038/ORG2 (OBP3-RESPONSIVE GENE 2); DNA binding / transcription factor HLH
AT3G56980.1 BHLH039/ORG3 (OBP3-RESPONSIVE GENE 3); DNA binding / transcription factor HLH
AT3G57800.1 basic helix-loop-helix (bHLH) family protein HLH
AT3G57800.2 basic helix-loop-helix (bHLH) family protein HLH
AT3G59060.1 PIL6 (PHYTOCHROME-INTERACTING FACTOR 5); DNA binding / transcription factor HLH
AT3G59060.2 PIL6 (PHYTOCHROME-INTERACTING FACTOR 5); DNA binding / transcription factor HLH
AT3G59060.3 PIL6 (PHYTOCHROME-INTERACTING FACTOR 5); DNA binding / transcription factor HLH
AT3G59060.4 PIL6 (PHYTOCHROME-INTERACTING FACTOR 5); DNA binding / transcription factor HLH
AT3G61950.1 basic helix-loop-helix (bHLH) family protein HLH
AT3G61950.2 basic helix-loop-helix (bHLH) family protein HLH
AT3G62090.1 PIL2 (PHYTOCHROME INTERACTING FACTOR 3-LIKE 2); transcription factor HLH
AT3G62090.2 PIL2 (PHYTOCHROME INTERACTING FACTOR 3-LIKE 2) HLH
AT4G00050.1 UNE10 (unfertilized embryo sac 10); DNA binding / transcription factor HLH
AT4G00120.1 EDA33/IND (INDEHISCENT); DNA binding / transcription factor HLH
AT4G00480.1 ATMYC1 (Arabidopsis thaliana myc-related transcription factor 1); DNA binding / transcription factor HLH
AT4G00870.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G01460.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G02590.1 UNE12 (unfertilized embryo sac 12); DNA binding / transcription factor HLH
AT4G02590.2 UNE12 (unfertilized embryo sac 12); DNA binding HLH
AT4G02590.3 UNE12 (unfertilized embryo sac 12) HLH
AT4G05170.1 DNA binding / transcription factor HLH
AT4G09180.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G09820.1 TT8 (TRANSPARENT TESTA 8); DNA binding / transcription factor HLH
AT4G14410.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G14410.2 basic helix-loop-helix (bHLH) family protein HLH
AT4G16430.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G17880.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G20970.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G21330.1 DYT1 (DYSFUNCTIONAL TAPETUM 1); DNA binding / transcription factor HLH
AT4G25400.1 basix helix-loop-helix (bHLH) family protein HLH
AT4G25410.1 basix helix-loop-helix (bHLH) family protein HLH
AT4G28790.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G28790.2 basic helix-loop-helix (bHLH) family protein HLH
AT4G28800.1 transcription factor HLH
AT4G28811.1 transcription regulator HLH
AT4G28815.1 transcription regulator HLH
AT4G29930.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G29930.2 basic helix-loop-helix (bHLH) family protein HLH
AT4G29930.3 basic helix-loop-helix (bHLH) family protein HLH
AT4G29930.4 basic helix-loop-helix (bHLH) family protein HLH
AT4G30980.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G33880.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G34530.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G36060.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G36060.2 basic helix-loop-helix (bHLH) family protein HLH
AT4G36540.1 BEE2 (BR ENHANCED EXPRESSION 2); DNA binding / transcription factor HLH
AT4G36540.2 BEE2 (BR ENHANCED EXPRESSION 2); DNA binding / transcription factor HLH
AT4G36930.1 SPT (SPATULA); DNA binding / transcription factor HLH
AT4G37850.1 basic helix-loop-helix (bHLH) family protein HLH
AT4G38070.1 bHLH family protein HLH
AT5G01310.1 basic helix-loop-helix (bHLH) family protein HIT HLH Macro
AT5G04150.1 BHLH101; DNA binding / transcription factor HLH
AT5G08130.1 BIM1 (BES1-interacting Myc-like protein 1); DNA binding / transcription factor HLH
AT5G08130.2 BIM1 (BES1-interacting Myc-like protein 1) HLH
AT5G09750.1 HEC3 (HECATE 3); DNA binding / transcription factor HLH
AT5G10570.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G37800.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G38860.1 BIM3 (BES1-INTERACTING MYC-LIKE PROTEIN 3); DNA binding / transcription factor HLH
AT5G41315.1 GL3 (GLABRA 3); transcription factor HLH
AT5G43175.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G43650.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G46690.1 BHLH071 (BETA HLH PROTEIN 71); DNA binding / transcription factor HLH
AT5G46760.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G46830.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G48560.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G50915.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G50915.2 basic helix-loop-helix (bHLH) family protein HLH
AT5G51780.1 basix helix-loop-helix (bHLH) family protein HLH
AT5G51790.1 basix helix-loop-helix (bHLH) family protein HLH
AT5G53210.1 SPCH (SPEECHLESS); DNA binding / transcription factor HLH
AT5G54680.1 ILR3 (IAA-LEUCINE RESISTANT3); DNA binding / transcription factor HLH
AT5G56960.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G57150.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G57150.2 basic helix-loop-helix (bHLH) family protein HLH
AT5G57150.3 basic helix-loop-helix (bHLH) family protein HLH
AT5G58010.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G61270.1 PIF7 (PHYTOCHROME-INTERACTING FACTOR7); DNA binding / transcription factor HLH
AT5G61270.2 PIF7 (PHYTOCHROME-INTERACTING FACTOR7); DNA binding / transcription factor HLH
AT5G62610.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G65320.1 basic helix-loop-helix (bHLH) family protein HLH
AT5G65640.1 BHLH093 (BETA HLH PROTEIN 93); DNA binding / transcription factor HLH
AT5G65640.2 BHLH093 (BETA HLH PROTEIN 93) HLH
AT5G67060.1 HEC1 (HECATE 1); transcription factor HLH
AT5G67110.1 ALC (ALCATRAZ); DNA binding / transcription factor HLH
AT5G67110.2 ALC (ALCATRAZ) HLH

General references

Buck, MJ; Atchley, WR. 2003. Phylogenetic analysis of plant basic helix-loop-helix proteins. J. Mol. Evol. 56(6):742-50 PUBMEDID:12911037
Heim, MA; Jakoby, M; Werber, M; Martin, C; Weisshaar, B; Bailey, PC. 2003. The basic helix-loop-helix transcription factor family in plants: a genome-wide study of protein structure and functional diversity. Mol. Biol. Evol. 20(5):735-47 PUBMEDID:12679534
Littlewood, TD; Evan, GI. 1995. Transcription factors 2: helix-loop-helix. Protein Profile 2(6):621-702 PUBMEDID:7553065
Massari, ME; Murre, C. 2000. Helix-loop-helix proteins: regulators of transcription in eucaryotic organisms. Mol. Cell. Biol. 20(2):429-40 PUBMEDID:10611221
Quattrocchio, F; Wing, JF; van der Woude, K; Mol, JN; Koes, R. 1998. Analysis of bHLH and MYB domain proteins: species-specific regulatory differences are caused by divergent evolution of target anthocyanin genes. Plant J. 13(4):475-88 PUBMEDID:9680994

Specific references

Bailey, PC; Martin, C; Toledo-Ortiz, G; Quail, PH; Huq, E; Heim, MA; Jakoby, M; Werber, M; Weisshaar, B. 2003. Update on the basic helix-loop-helix transcription factor gene family in Arabidopsis thaliana. Plant Cell 15(11):2497-502 PUBMEDID:14600211
Toledo-Ortiz, G; Huq, E; Quail, PH. 2003. The Arabidopsis basic/helix-loop-helix transcription factor family. Plant Cell 15(8):1749-70 PUBMEDID:12897250