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 XP_009110614.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family bHLH
Protein Properties Length: 433aa    MW: 48005.8 Da    PI: 6.2719
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009110614.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH36.68.3e-12252294754
                     HHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
             HLH   7 erErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 
                     ++ErrRR+++N+++  Lr+++Pk +      K++ a+iL  A++Y+k+L
  XP_009110614.1 252 MAERRRRKKLNDRLYMLRSVVPKiS------KMDRASILGDAIDYLKEL 294
                     79*********************66......****************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.866245294IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474591.2E-16248312IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.9E-9251294IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003534.2E-14251300IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000836.32E-13252298No hitNo description
Gene3DG3DSA:4.10.280.101.1E-15252307IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd048732.42E-6362422No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010444Biological Processguard mother cell differentiation
GO:0050826Biological Processresponse to freezing
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 433 aa     Download sequence    Send to blast
MNGNGTWLHD AGEPSQANDN DESRTWVRNT EENWFSNPQP LNPLHNNQND FRFNSGAFPS  60
NPSENLLLLL QQEQQQQQQQ SFLTTKACMA SLLNIPTSNT NNNINSNPFD ELGFSSGFLG  120
QTNQTPLSMS FSGMSSPPDF LSSRSIPPPE NSSFTPLEFA GVANGVFENR AKVLKPLEVL  180
ASSTSQPTLF QKRAAMRQSS SSKTCNSESS SEMRRSSYEP DIDDASTGII DIISDEHNNK  240
GKKKGMPAKN LMAERRRRKK LNDRLYMLRS VVPKISKMDR ASILGDAIDY LKELLQRIND  300
LHTELESTAP PSSSSLNPLT PTTQTLSYRV KEELCPSSSF PSPRGEQARI EVKLREGKAV  360
NIHMFCGRRP GLLLSTMRAL DNLGLDVQQA VVSCFNGFAL DVFRAEQCQE GHDVVPEQIK  420
AVLLDTVGYT GLV
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1241259KKKGMPAKNLMAERRRRKK
2253260ERRRRKKL
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.171230.0seed
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed constitutively in roots, leaves, stems, and flowers. Broad expression within stomatal cell lineages of leaf epidermis, except in mature guard-cells. {ECO:0000269|PubMed:12679534, ECO:0000269|PubMed:18641265}.
Functional Description ? help Back to Top
Source Description
UniProtMediates stomatal differentiation in the epidermis probably by controlling successive roles of SPCH, MUTE, and FAMA (PubMed:18641265). Functions as a dimer with SPCH during stomatal initiation (PubMed:18641265, PubMed:28507175). {ECO:0000269|PubMed:18641265, ECO:0000269|PubMed:28507175}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009110614.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1180110.0AK118011.1 Arabidopsis thaliana At1g12860 mRNA for putative bHLH transcription factor (bHLH033), complete cds, clone: RAFL19-21-N13.
GenBankBT0053770.0BT005377.1 Arabidopsis thaliana At1g12860 mRNA, complete cds.
GenBankEU3696700.0EU369670.1 Arabidopsis thaliana bHLH protein (SCREAM2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009110613.10.0PREDICTED: transcription factor SCREAM2-like
RefseqXP_009110614.10.0PREDICTED: transcription factor SCREAM2-like
RefseqXP_018509489.10.0PREDICTED: transcription factor SCREAM2-like
SwissprotQ9LPW30.0SCRM2_ARATH; Transcription factor SCREAM2
TrEMBLM4DJS10.0M4DJS1_BRARP; Uncharacterized protein
STRINGBra016749.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G12860.11e-158bHLH family protein
Publications ? help Back to Top
  1. Tarasov VA,Khadeeva NV,Mel'nik VA,Ezhova TA,Shestakov SV
    The Atlg12860 gene of Arabidopsis thaliana determines cathelicidin-like antimicrobial activity.
    Dokl. Biol. Sci., 2009.
    [PMID:19760875]
  2. 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]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. Emmerstorfer A, et al.
    Over-expression of ICE2 stabilizes cytochrome P450 reductase in Saccharomyces cerevisiae and Pichia pastoris.
    Biotechnol J, 2015. 10(4): p. 623-35
    [PMID:25641738]
  5. Lee HG,Seo PJ
    The MYB96-HHP module integrates cold and abscisic acid signaling to activate the CBF-COR pathway in Arabidopsis.
    Plant J., 2015. 82(6): p. 962-77
    [PMID:25912720]
  6. Raissig MT,Abrash E,Bettadapur A,Vogel JP,Bergmann DC
    Grasses use an alternatively wired bHLH transcription factor network to establish stomatal identity.
    Proc. Natl. Acad. Sci. U.S.A., 2016. 113(29): p. 8326-31
    [PMID:27382177]
  7. Fu ZW,Wang YL,Lu YT,Yuan TT
    Nitric oxide is involved in stomatal development by modulating the expression of stomatal regulator genes in Arabidopsis.
    Plant Sci., 2016. 252: p. 282-289
    [PMID:27717464]
  8. de Marcos A, et al.
    A Mutation in the bHLH Domain of the SPCH Transcription Factor Uncovers a BR-Dependent Mechanism for Stomatal Development.
    Plant Physiol., 2017. 174(2): p. 823-842
    [PMID:28507175]