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 Potri.001G305100.1
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family bHLH
Protein Properties Length: 286aa    MW: 31949.9 Da    PI: 6.3496
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.001G305100.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH40.74.2e-1389136455
                         HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                 HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                         +h   Er RR+++++ f++L  llP++     +K +K++i+ +A++YIk Lq
  Potri.001G305100.1  89 THIWTERERRKKMRTMFSNLHALLPQL----PPKADKSTIVDEAMNYIKTLQ 136
                         78889*********************6....39******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF474597.07E-1685154IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088813.92285135IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000837.22E-1488140No hitNo description
Gene3DG3DSA:4.10.280.104.9E-1588147IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000102.5E-1089136IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003538.9E-993141IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd048734.77E-4221269No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009793Biological Processembryo development ending in seed dormancy
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 286 aa     Download sequence    Send to blast
MSEEGEHESF LWDNQTWDLS NSDNLGGSEE KIGKNIKLPG SSSNSQAEIG IKEQENKAEK  60
RGQMHKSNGK GSVGEVKEGK GGGESDHETH IWTERERRKK MRTMFSNLHA LLPQLPPKAD  120
KSTIVDEAMN YIKTLQHTLQ KLQKEKLERL QGATTFGYEP SLIAPQMQAD SREAFLADQV  180
SSSNLAISTT KSLPSVSRYP VLFQTWTSSN VVLNICGDEA QISICSPKNP GLFTTICYVL  240
EKHNVEVLSA HVSSDCSRSM YMIQAHVSDH FLFVTTSFLF FWQFD*
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during seed development (PubMed:18567831). Exclusively expressed in the endosperm of developing seeds (PubMed:18849529). {ECO:0000269|PubMed:18567831, ECO:0000269|PubMed:18849529}.
UniprotTISSUE SPECIFICITY: Siliques. Not detected in roots, rosette leaves or flowers. Expressed in endosperm cells. {ECO:0000269|PubMed:12679534, ECO:0000269|PubMed:18567831}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that controls embryo growth (PubMed:18567831, PubMed:18849529, PubMed:23318634). Regulates endosperm breakdown and embryonic epidermal development. Regulates the expression of SBT2.4/ALE1 (PubMed:18849529, PubMed:23318634). Involved in embryonic cuticle formation upstream of SBT2.4/ALE1 (PubMed:23318634). Does not seem to be a general regulator of endosperm patterning. May control specific signaling pathways that coordinate embryo invasion and breakdown of surrounding endosperm tissues (PubMed:18849529). Required for the production the embryo sheath, an extracuticular endosperm-derived structure at the surface of the embryo. Acts upstream of KRS (PubMed:28696222). {ECO:0000269|PubMed:18567831, ECO:0000269|PubMed:18849529, ECO:0000269|PubMed:23318634, ECO:0000269|PubMed:28696222}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.001G305100.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2375860.0AC237586.1 Populus trichocarpa clone POP031-J10, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024452137.10.0transcription factor bHLH95 isoform X2
SwissprotQ9FXA34e-63BH095_ARATH; Transcription factor bHLH95
TrEMBLA0A3N7EF190.0A0A3N7EF19_POPTR; Uncharacterized protein
STRINGPOPTR_0001s31250.11e-141(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF47733358
Representative plantOGRP12261548
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49770.14e-52bHLH 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. Zhang Y, et al.
    Reduced function of the RNA-binding protein FPA rescues a T-DNA insertion mutant in the Arabidopsis ZHOUPI gene by promoting transcriptional read-through.
    Plant Mol. Biol., 2016. 91(4-5): p. 549-61
    [PMID:27164978]
  3. Fourquin C, et al.
    Mechanical stress mediated by both endosperm softening and embryo growth underlies endosperm elimination in Arabidopsis seeds.
    Development, 2016. 143(18): p. 3300-5
    [PMID:27287798]
  4. Du Q,Wang H
    Retarded Embryo Development 1 (RED1) regulates embryo development, seed maturation and plant growth in Arabidopsis.
    J Genet Genomics, 2016. 43(7): p. 439-49
    [PMID:27477025]
  5. Moussu S, et al.
    ZHOUPI and KERBEROS Mediate Embryo/Endosperm Separation by Promoting the Formation of an Extracuticular Sheath at the Embryo Surface.
    Plant Cell, 2017. 29(7): p. 1642-1656
    [PMID:28696222]