PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID PGSC0003DMP400014412
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family bHLH
Protein Properties Length: 436aa    MW: 49379.6 Da    PI: 6.3178
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400014412genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH36.39.9e-12171214654
                           HHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
                   HLH   6 nerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 
                            ++Er+RR+++N+++  Lr l+Pk +      Kl+ a+iL  A+eY+ +L
  PGSC0003DMP400014412 171 LMAERKRRKKLNERLYALRALVPKiS------KLDRASILGDAIEYVMEL 214
                           589*********************66......**************9988 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.44165214IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000835.89E-12167219No hitNo description
SuperFamilySSF474591.96E-16168228IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.5E-9171215IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003533.3E-15171220IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.107.0E-16172228IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009555Biological Processpollen development
GO:0048657Biological Processanther wall tapetum cell differentiation
GO:0005634Cellular Componentnucleus
GO:0000978Molecular FunctionRNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 436 aa     Download sequence    Send to blast
MMNSTFSNGV QENTSKPFPT EGDGDGDGDD HIKDSQNHYQ QTVSPAATSD HLSYEFPLKR  60
KQLDTCSMNF LPPFSTYSTP EVDNNTGGNM LFNQSTSDAT HFSENRYMSE MDAYLQKQMM  120
RSSSTQAGID DESVKHDNGR SNSGSDSDQN EEEDDPKYRR RNGKGPQSKN LMAERKRRKK  180
LNERLYALRA LVPKISKLDR ASILGDAIEY VMELEKQVKD LQLELEEHSD DDGGGRNPDQ  240
IHPVVLSHNG TKNRPKSENG KLTNGTHREI STNSNGSADP SRKNQEVEEN DKLQQMEPQV  300
EVAQLDGNEF FVKVFREHKA GGFVRTLEAL NSLGLEVTNV NATRHTCLVS SIFKVEKRDN  360
EMVQADHVRD TLLELTRNPS RGWSEMGRAS SDNNNNNNAN GTTDYHQHQH HDHHLDNNNQ  420
HKQTNSHHFH RHHHH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A1e-111732241263Transcription factor MYC2
5gnj_B1e-111732241263Transcription factor MYC2
5gnj_E1e-111732241263Transcription factor MYC2
5gnj_F1e-111732241263Transcription factor MYC2
5gnj_G1e-111732241263Transcription factor MYC2
5gnj_I1e-111732241263Transcription factor MYC2
5gnj_M1e-111732241263Transcription factor MYC2
5gnj_N1e-111732241263Transcription factor MYC2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1158179RRRNGKGPQSKNLMAERKRRKK
2173180ERKRRKKL
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor. Plays a crucial role in tapetum development. Required for male fertility and pollen differentiation, especially during the post-meiotic transcriptional regulation of microspore development within the developing anther (PubMed:12535353). Binds E-box regions in the AHL16/TEK promoter. {ECO:0000269|PubMed:12535353, ECO:0000269|PubMed:24804694}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400014412
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754470.0HG975447.1 Solanum pennellii chromosome ch08, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006351594.10.0PREDICTED: transcription factor ABORTED MICROSPORES isoform X2
SwissprotQ9ZVX23e-83AMS_ARATH; Transcription factor ABORTED MICROSPORES
TrEMBLM1AEQ00.0M1AEQ0_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000211650.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA96722227
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G16910.13e-74bHLH family protein
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  2. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  3. Jiang J,Zhang Z,Cao J
    Pollen wall development: the associated enzymes and metabolic pathways.
    Plant Biol (Stuttg), 2013. 15(2): p. 249-63
    [PMID:23252839]
  4. Xu J, et al.
    ABORTED MICROSPORES Acts as a Master Regulator of Pollen Wall Formation in Arabidopsis.
    Plant Cell, 2014. 26(4): p. 1544-1556
    [PMID:24781116]
  5. Qian H, et al.
    Trace concentrations of imazethapyr (IM) affect floral organs development and reproduction in Arabidopsis thaliana: IM-induced inhibition of key genes regulating anther and pollen biosynthesis.
    Ecotoxicology, 2015. 24(1): p. 163-71
    [PMID:25348600]
  6. Xiong SX, et al.
    The transcription factors MS188 and AMS form a complex to activate the expression of CYP703A2 for sporopollenin biosynthesis in Arabidopsis thaliana.
    Plant J., 2016. 88(6): p. 936-946
    [PMID:27460657]
  7. Ferguson AC, et al.
    Biphasic regulation of the transcription factor ABORTED MICROSPORES (AMS) is essential for tapetum and pollen development in Arabidopsis.
    New Phytol., 2017. 213(2): p. 778-790
    [PMID:27787905]
  8. Lou Y, et al.
    Positive regulation of AMS by TDF1 and the formation of a TDF1-AMS complex are required for anther development in Arabidopsis thaliana.
    New Phytol., 2018. 217(1): p. 378-391
    [PMID:28940573]
  9. Bi H,Fan W,Zhang P
    C4 Protein of Sweet Potato Leaf Curl Virus Regulates Brassinosteroid Signaling Pathway through Interaction with AtBIN2 and Affects Male Fertility in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 1689
    [PMID:29021807]