PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_00947.1_g00004.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family bHLH
Protein Properties Length: 313aa    MW: 34768.3 Da    PI: 7.1244
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00947.1_g00004.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH35.32.1e-1184127855
                              HHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                      HLH   8 rErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                               Er RR+++++ f++L  llP++     +K +K++i+ +Av  IksL+
  Rsa1.0_00947.1_g00004.1  84 TERERRKKMRDMFAKLHALLPQL----PPKADKSTIVDEAVSSIKSLE 127
                              6*********************6....39*****************96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088813.24376126IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.44E-1378137IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.4E-1380138IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000837.54E-1281131No hitNo description
SMARTSM003533.6E-784132IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000109.7E-984127IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
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: 313 aa     Download sequence    Send to blast
MSIQFNMTNA QELGQDSTMW GISNSDDSHG GCKRIDKQPP LLCPSHPSEI PTSDKKASKG  60
KKRTQRNEKN HVEESPDHEI HIWTERERRK KMRDMFAKLH ALLPQLPPKA DKSTIVDEAV  120
SSIKSLEKTL HSLQMKKLEK LQYSSASNTT TTTAFPYDPC SSPTTLLTPI SNQPQILPVG  180
AASADPYSRE ALLANQISSS SMNLPYPCND PTAEFDTWST RNAVLNICGN EAFFSLCCPK  240
DKSGVFTNVC YLLEKYNIDV MSANVSSNVF RSTYMIQAQV KPSYENQLLG DGFGAGEIFK  300
QAAQELALYF SSP
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
PlantRegMapRsa1.0_00947.1_g00004.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018464501.10.0PREDICTED: transcription factor bHLH95-like
SwissprotQ9FXA31e-149BH095_ARATH; Transcription factor bHLH95
TrEMBLA0A397ZAF80.0A0A397ZAF8_BRACM; Uncharacterized protein
TrEMBLM4FHU20.0M4FHU2_BRARP; Uncharacterized protein
STRINGBra040671.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM50742549
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49770.11e-151bHLH 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]