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Conserved domains on  [gi|357131118|ref|XP_003567189|]
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transcription factor bHLH123 [Brachypodium distachyon]

Protein Classification

bHLH family transcription factor( domain architecture ID 14413057)

basic helix-loop-helix (bHLH) family transcription factor regulates the transcription of genes that are involved in fruit dehiscence, cell development (carpel, anther and epidermal), phytochrome signaling, flavonoid biosynthesis, hormone signaling and stress responses

Graphical summary

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List of domain hits

 Name Accession Description Interval E-value
bHLH_AtbHLH_like cd11393
basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana genes coding transcription ...
 276-326 2.92e-20

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana genes coding transcription factors and similar proteins; bHLH proteins are the second largest class of plant transcription factors that regulate transcription of genes that are involve in many essential physiological and developmental process. bHLH proteins are transcriptional regulators that are found in organisms from yeast to humans. The Arabidopsis bHLH proteins that have been characterized so far have roles in regulation of fruit dehiscence, cell development (carpel, anther and epidermal), phytochrome signaling, flavonoid biosynthesis, hormone signaling and stress responses.


:

Pssm-ID: 381399 [Multi-domain]  Cd Length: 53  Bit Score: 83.38  E-value: 2.92e-20
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 357131118 276 LPTFKVRKEKLGDRITALQQLVSPFGKTDTASVLHEANEYIKFLHDQVASL 326
Cdd:cd11393    2 SIAERKRREKINERIRALRSLVPNGGKTDKASILDEAIEYIKFLQEQVKVL 52
 
Name Accession Description Interval E-value
bHLH_AtbHLH_like cd11393
basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana genes coding transcription ...
 276-326 2.92e-20

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana genes coding transcription factors and similar proteins; bHLH proteins are the second largest class of plant transcription factors that regulate transcription of genes that are involve in many essential physiological and developmental process. bHLH proteins are transcriptional regulators that are found in organisms from yeast to humans. The Arabidopsis bHLH proteins that have been characterized so far have roles in regulation of fruit dehiscence, cell development (carpel, anther and epidermal), phytochrome signaling, flavonoid biosynthesis, hormone signaling and stress responses.


Pssm-ID: 381399 [Multi-domain]  Cd Length: 53  Bit Score: 83.38  E-value: 2.92e-20
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 357131118 276 LPTFKVRKEKLGDRITALQQLVSPFGKTDTASVLHEANEYIKFLHDQVASL 326
Cdd:cd11393    2 SIAERKRREKINERIRALRSLVPNGGKTDKASILDEAIEYIKFLQEQVKVL 52
HLH smart00353
helix loop helix domain;
280-325 4.00e-04

helix loop helix domain;


Pssm-ID: 197674 [Multi-domain]  Cd Length: 53  Bit Score: 37.97  E-value: 4.00e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 357131118   280 KVRKEKLGDRITALQQLVSPFG---KTDTASVLHEANEYIKFLHDQVAS 325
Cdd:smart00353   5 RRRRRKINEAFDELRSLLPTLPknkKLSKAEILRLAIEYIKSLQEELQK 53
 
Name Accession Description Interval E-value
bHLH_AtbHLH_like cd11393
basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana genes coding transcription ...
 276-326 2.92e-20

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana genes coding transcription factors and similar proteins; bHLH proteins are the second largest class of plant transcription factors that regulate transcription of genes that are involve in many essential physiological and developmental process. bHLH proteins are transcriptional regulators that are found in organisms from yeast to humans. The Arabidopsis bHLH proteins that have been characterized so far have roles in regulation of fruit dehiscence, cell development (carpel, anther and epidermal), phytochrome signaling, flavonoid biosynthesis, hormone signaling and stress responses.


Pssm-ID: 381399 [Multi-domain]  Cd Length: 53  Bit Score: 83.38  E-value: 2.92e-20
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 357131118 276 LPTFKVRKEKLGDRITALQQLVSPFGKTDTASVLHEANEYIKFLHDQVASL 326
Cdd:cd11393    2 SIAERKRREKINERIRALRSLVPNGGKTDKASILDEAIEYIKFLQEQVKVL 52
bHLH_AtIND_like cd11454
basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein INDEHISCENT (IND) ...
 282-326 9.00e-08

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein INDEHISCENT (IND) and similar proteins; The family includes several bHLH transcription factors from Arabidopsis thaliana, such as IND, HEC proteins (HEC1, HEC2 and HEC3) and UNE12. IND, also termed AtbHLH40, or EN 120, is a bHLH transcription regulator required for seed dispersal. It is involved in the differentiation of all three cell types required for fruit dehiscence. HEC1 (also termed AtbHLH88, or protein HECATE 1, or EN 118), HEC2 (also termed AtbHLH37, or protein HECATE 2, or EN 117) and HEC3 (also termed AtbHLH43, or protein HECATE 3, or EN 119) are required for the female reproductive tract development and fertility. Both IND and HEC proteins have been implicated in regulation of auxin signaling. They heterodimerize with SPATULA (SPT) bHLH transcription factor to regulate reproductive tract development in plant. UNE12, also termed AtbHLH59, or protein UNFERTILIZED EMBRYO SAC 12, or EN 93, is required for ovule fertilization.


Pssm-ID: 381460  Cd Length: 63  Bit Score: 48.54  E-value: 9.00e-08
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 357131118 282 RKEKLGDRITALQQLVSPFGKTDTASVLHEANEYIKFLHDQVASL 326
Cdd:cd11454   12 RRERISERIRILQRLVPGGTKMDTASMLDEAIHYVKFLQLQVKLL 56
bHLH_AtNAI1_like cd11452
basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein NAI1 and similar ...
 282-326 2.90e-06

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein NAI1 and similar proteins; NAI1, also termed AtbHLH20, or EN 27, is a bHLH transcription activator that regulates the expression of at least NAI2, PYK10 and PBP1. It is required for and mediates the formation of endoplasmic reticulum bodies (ER bodies). It plays a role in the symbiotic interactions with the endophytes of the Sebacinaceae fungus family, such as Piriformospora indica and Sebacina.


Pssm-ID: 381458 [Multi-domain]  Cd Length: 75  Bit Score: 44.76  E-value: 2.90e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 357131118 282 RKEKLGDRITALQQLVSPFGKTDTASVLHEANEYIKFLHDQVASL 326
Cdd:cd11452   13 RREKLSQRFIALSALVPGLKKMDKASVLGDAIKHIKQLQERVKEL 57
bHLH_AtPIF_like cd11445
basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana phytochrome interacting ...
 282-323 5.31e-06

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana phytochrome interacting factors (PIFs) and similar proteins; The family includes several bHLH transcription factors from Arabidopsis thaliana, such as PIFs, ALC, PIL1, SPATULA, and UNE10. PIFs (PIF1, PIF3, PIF4, PIF5, PIF6 and PIF7) have been shown to control light-regulated gene expression. They directly bind to the photoactivated phytochromes and are degraded in response to light signals. ALC, also termed AtbHLH73, or protein ALCATRAZ, or EN 98, is required for the dehiscence of fruit, especially for the separation of the valve cells from the replum. It promotes the differentiation of a strip of labile non-lignified cells sandwiched between layers of lignified cells. PIL1, also termed AtbHLH124, or protein phytochrome interacting factor 3-like 1, or EN 110, is involved in responses to transient and long-term shade. It is required for the light-mediated inhibition of hypocotyl elongation and necessary for rapid light-induced expression of the photomorphogenesis- and circadian-related gene APRR9. PIL1 seems to play a role in multiple PHYB responses, such as flowering transition and petiole elongation. SPATULA, also termed AtbHLH24, or EN 99, plays a role in floral organogenesis. It promotes the growth of carpel margins and of pollen tract tissues derived from them. UNE10, also termed AtbHLH16, or protein UNFERTILIZED EMBRYO SAC 10, or EN 99, is required during the fertilization of ovules by pollen.


Pssm-ID: 381451  Cd Length: 64  Bit Score: 43.51  E-value: 5.31e-06
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|..
gi 357131118 282 RKEKLGDRITALQQLVSPFGKTDTASVLHEANEYIKFLHDQV 323
Cdd:cd11445   13 RRDRINEKMKALQELIPNCNKTDKASMLDEAIEYLKSLQLQV 54
bHLH_AtILR3_like cd11446
basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein IAA-leucine ...
 280-359 7.19e-05

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein IAA-leucine resistant 3 (ILR3) and similar proteins; ILR3, also termed AtbHLH105, or EN 133, is a bHLH transcription factor that plays a role in resistance to amide-linked indole-3-acetic acid (IAA) conjugates such as IAA-Leu and IAA-Phe. It may regulate gene expression in response to metal homeostasis changes.


Pssm-ID: 381452 [Multi-domain]  Cd Length: 76  Bit Score: 40.78  E-value: 7.19e-05
                         10        20        30        40        50        60        70        80
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 357131118 280 KVRKEKLGDRITALQQLVSPFG--KTDTASVLHEANEYIKFLHDQVASltypyLKNVNqmQQFQQKGSENAKEagepKKD 357
Cdd:cd11446    6 KLRRDKLNERFMELSNVLEPGRppKTDKATILGDAIRMLKQLRGEVQK-----LKEEN--SSLQEESKELKAE----KNE 74


                 ..
gi 357131118 358 LR 359
Cdd:cd11446   75 LR 76
bHLH_AtTT8_like cd11451
basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein transparent testa 8 ...
 280-326 7.73e-05

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein transparent testa 8 (TT8) and similar proteins; The family includes several bHLH transcription factors from Arabidopsis thaliana, such as TT8, EGL1, and GL3. TT8, also termed AtbHLH42, or EN 32, is involved in the control of flavonoid pigmentation and plays a key role in regulating leucoanthocyanidin reductase (BANYULS) and dihydroflavonol-4-reductase (DFR). EGL1, also termed AtbHLH2, or EN 30, or AtMYC146, or protein enhancer of GLABRA 3, is involved in epidermal cell fate specification and regulates negatively stomata formation but promotes trichome formation. GL3, also termed AtbHLH1, or AtMYC6, or protein shapeshifter, or EN 31, is involved in epidermal cell fate specification. It regulates negatively stomata formation, but, in association with TTG1 and MYB0/GL1, promotes trichome formation, branching and endoreplication.


Pssm-ID: 381457  Cd Length: 75  Bit Score: 40.87  E-value: 7.73e-05
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*..
gi 357131118 280 KVRKEKLGDRITALQQLVSPFGKTDTASVLHEANEYIKFLHDQVASL 326
Cdd:cd11451   11 RRRREKLNERFITLRSMVPFVTKMDKVSILGDAIEYLKQLQRRVEEL 57
bHLH_AtAMS_like cd11443
basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein aborted microspores ...
 282-326 1.52e-04

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein aborted microspores (AMS) and similar proteins; The family includes several bHLH transcription factors from Arabidopsis thaliana, such as AMS, ICE1 and SCREAM2. AMS, also termed AtbHLH21, or EN 48, plays a crucial role in tapetum development and it is required for male fertility and pollen differentiation. ICE1, also termed inducer of CBF expression 1, or AtbHLH116, or EN 45, or SCREAM, acts as a transcriptional activator that regulates the cold-induced transcription of CBF/DREB1 genes. It binds specifically to the MYC recognition sites (5'-CANNTG-3') found in the CBF3/DREB1A promoter. SCREAM2, also termed AtbHLH33, or EN 44, mediates stomatal differentiation in the epidermis probably by controlling successive roles of SPCH, MUTE, and FAMA.


Pssm-ID: 381449 [Multi-domain]  Cd Length: 72  Bit Score: 39.67  E-value: 1.52e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 357131118 282 RKEKLGDRITALQQLVSPFGKTDTASVLHEANEYIKFLHDQVASL 326
Cdd:cd11443   10 RRKKLNDRLYMLRSVVPKITKMDRASILGDAIDYVKELLQEINEL 54
bHLH_AtBIM_like cd11453
basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana BES1-interacting Myc-like ...
 282-330 2.74e-04

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana BES1-interacting Myc-like proteins (BIMs) and similar proteins; The family includes Arabidopsis thaliana BIM1 and its homologs (BIM2 and BIM3), which are bHLH transcription factors that interact with BES1 to regulate transcription of Brassinosteroid (BR)-induced gene. BR regulates many growth and developmental processes such as cell elongation, vascular development, senescence stress responses, and photomorphogenesis. BIM1 heterodimerize with BES1 and bind to E-box sequences present in many BR-induced promoters to regulated BR-induced genes.


Pssm-ID: 381459  Cd Length: 77  Bit Score: 39.38  E-value: 2.74e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|.
gi 357131118 282 RKEKLGDRITALQQLVsPFG--KTDTASVLHEANEYIKFLHDQVASLTYPY 330
Cdd:cd11453   14 RRSKINERLQALRDLI-PHSdqKRDKASFLLEVIEYIQALQEKVAKLEEQV 63
bHLH_SF cd00083
basic Helix Loop Helix (bHLH) domain superfamily; bHLH proteins are transcriptional regulators ...
 280-321 3.97e-04

basic Helix Loop Helix (bHLH) domain superfamily; bHLH proteins are transcriptional regulators that are found in organisms from yeast to humans. Members of the bHLH superfamily have two highly conserved and functionally distinct regions. The basic part is at the amino end of the bHLH that may bind DNA to a consensus hexanucleotide sequence known as the E box (CANNTG). Different families of bHLH proteins recognize different E-box consensus sequences. At the carboxyl-terminal end of the region is the HLH region that interacts with other proteins to form homo- and heterodimers. bHLH proteins function as a diverse set of regulatory factors because they recognize different DNA sequences and dimerize with different proteins. The bHLH proteins can be divided to cell-type specific and widely expressed proteins. The cell-type specific members of bHLH superfamily are involved in cell-fate determination and act in neurogenesis, cardiogenesis, myogenesis, and hematopoiesis.


Pssm-ID: 381392 [Multi-domain]  Cd Length: 46  Bit Score: 37.88  E-value: 3.97e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 357131118 280 KVRKEKLGDRITALQQLV---SPFGKTDTASVLHEANEYIKFLHD 321
Cdd:cd00083    2 RRRRDKINDAFEELKRLLpelPDSKKLSKASILQKAVEYIRELQS 46
HLH smart00353
helix loop helix domain;
280-325 4.00e-04

helix loop helix domain;


Pssm-ID: 197674 [Multi-domain]  Cd Length: 53  Bit Score: 37.97  E-value: 4.00e-04
                           10        20        30        40
                   ....*....|....*....|....*....|....*....|....*....
gi 357131118   280 KVRKEKLGDRITALQQLVSPFG---KTDTASVLHEANEYIKFLHDQVAS 325
Cdd:smart00353   5 RRRRRKINEAFDELRSLLPTLPknkKLSKAEILRLAIEYIKSLQEELQK 53
bHLH_AtAIB_like cd11449
basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein ABA-INDUCIBLE ...
 282-351 4.31e-04

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana protein ABA-INDUCIBLE bHLH-TYPE (AIB) and similar proteins; The family includes several bHLH transcription factors from Arabidopsis thaliana, such as AIB and MYC proteins (MYC2, MYC3 and MYC4). AIB, also termed AtbHLH17, or EN 35, is a transcription activator that regulates positively abscisic acid (ABA) response. MYC2, also termed protein jasmonate insensitive 1, or R-homologous Arabidopsis protein 1 (RAP-1), or AtbHLH6, or EN 38, or Z-box binding factor 1 protein, is a transcriptional activator involved in abscisic acid (ABA), jasmonic acid (JA), and light signaling pathways. MYC3, also termed protein altered tryptophan regulation 2, or AtbHLH5, or transcription factor ATR2, or EN 36, is a transcription factor involved in tryptophan, jasmonic acid (JA) and other stress-responsive gene regulation. MYC4, also termed AtbHLH4, or EN 37, is a transcription factor involved in jasmonic acid (JA) gene regulation. MYC2, together with MYC3 and MYC4, controls additively subsets of JA-dependent responses.


Pssm-ID: 381455 [Multi-domain]  Cd Length: 78  Bit Score: 38.53  E-value: 4.31e-04
                         10        20        30        40        50        60        70
                 ....*....|....*....|....*....|....*....|....*....|....*....|....*....|
gi 357131118 282 RKEKLGDRITALQQLVSPFGKTDTASVLHEANEYIKFLHDQVASLTypylknvNQMQQFQQKGSENAKEA 351
Cdd:cd11449   16 RREKLNQRFYALRAVVPNVSKMDKASLLGDAISYINELKSKVQDME-------TEKKEMKRQESEKKTEA 78
bHLH_AtMYC1_like cd18918
basic Helix-Loop-Helix (bHLH) domain found in Arabidopsis thaliana MYC1 and similar proteins; ...
 277-328 6.25e-04

basic Helix-Loop-Helix (bHLH) domain found in Arabidopsis thaliana MYC1 and similar proteins; MYC1, also termed AtbHLH12, or EN 58, acts as a transcription activator, when associated with MYB75/PAP1 or MYB90/PAP2.


Pssm-ID: 381488 [Multi-domain]  Cd Length: 70  Bit Score: 38.08  E-value: 6.25e-04
                         10        20        30        40        50
                 ....*....|....*....|....*....|....*....|....*....|..
gi 357131118 277 PTFKVRKEKLGDRITALQQLVSPFGKTDTASVLHEANEYIKFLHDQVASLTY 328
Cdd:cd18918    3 ATERERREKLNEKFSDLRNLIPNPTKNDRASILSDAIKYINELQRTVEELKS 54
bHLH_AtFIT_like cd11450
basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana Fe-deficiency induced ...
 282-326 8.08e-04

basic helix-loop-helix (bHLH) domain found in Arabidopsis thaliana Fe-deficiency induced transcription factor 1 (FIT) and similar proteins; The family includes bHLH transcription factors from Arabidopsis thaliana, such as FIT and DYT1. FIT, also termed FER-like iron deficiency-induced transcription factor, or FER-like regulator of iron uptake, or AtbHLH29, or EN 43, is a bHLH transcription factor that is required for the iron deficiency response in plant. It regulates FRO2 at the level of mRNA accumulation and IRT1 at the level of protein accumulation. DYT1, also termed AtbHLH22, or protein dysfunctional tapetum 1, or EN 49, is a bHLH transcription factor involved in the control of tapetum development. It is required for male fertility and pollen differentiation, especially during callose deposition.


Pssm-ID: 381456 [Multi-domain]  Cd Length: 76  Bit Score: 37.89  E-value: 8.08e-04
                         10        20        30        40
                 ....*....|....*....|....*....|....*....|....*
gi 357131118 282 RKEKLGDRITALQQLVSPFGKTDTASVLHEANEYIKFLHDQVASL 326
Cdd:cd11450   14 RRQKLNQRLFALRSVVPNITKMDKASIIKDAISYIQELQYQEKKL 58
 
Blast search parameters
Data Source: Precalculated data, version = cdd.v.3.21
Preset Options:Database: CDSEARCH/cdd   Low complexity filter: no  Composition Based Adjustment: yes   E-value threshold: 0.01

References:

  • Wang J et al. (2023), "The conserved domain database in 2023", Nucleic Acids Res.51(D)384-8.
  • Lu S et al. (2020), "The conserved domain database in 2020", Nucleic Acids Res.48(D)265-8.
  • Marchler-Bauer A et al. (2017), "CDD/SPARCLE: functional classification of proteins via subfamily domain architectures.", Nucleic Acids Res.45(D)200-3.
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