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 Rsa1.0_02367.1_g00004.1
Organism
Raphanus sativus
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 ARR-B
Protein Properties Length: 587aa    MW: 64323.1 Da    PI: 6.3808
Description ARR-B family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02367.1_g00004.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1G2-like86.62.5e-27195248155
                  G2-like   1 kprlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 
                              kpr++Wt eLH++Fv av+qL G ekA Pk+il+lm+v+ Lt+e+v+SHLQk+Rl
  Rsa1.0_02367.1_g00004.1 195 KPRVVWTVELHKKFVAAVNQL-GFEKAMPKKILDLMNVEKLTRENVASHLQKFRL 248
                              79*******************.9*******************************8 PP
2Response_reg84.43.4e-28191271109
                              EEEESSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHH..ESEEEEESSCTTSEHHHHHHHHHHHTTTSEEEEEESTTTHH CS
             Response_reg   1 vlivdDeplvrellrqalekegyeevaeaddgeealellkekd..pDlillDiempgmdGlellkeireeepklpiivvtahgeee 84 
                              vl vdD+++ +++l+++l + +y +v+++ ++++alell+e++  +Dl++ D++mp+mdG++ll+     e++lp+i+++ah++++
  Rsa1.0_02367.1_g00004.1  19 VLAVDDDQTCLRILESLLHRCQY-HVTTTNQAQKALELLRENKnkFDLVISDVDMPDMDGFKLLELVGL-EMDLPVIMLSAHSDPK 102
                              799********************.***************888888*******************87754.558************* PP

                              HHHHHHHTTESEEEESS--HHHHHH CS
             Response_reg  85 dalealkaGakdflsKpfdpeelvk 109
                              ++ + +  Ga d+l Kp+ +eel +
  Rsa1.0_02367.1_g00004.1 103 YVMKGVTHGACDYLLKPVRIEELKN 127
                              **********************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PIRSFPIRSF0363921.8E-1721587IPR017053Response regulator B-type, plant
SuperFamilySSF521721.99E-3516136IPR011006CheY-like superfamily
Gene3DG3DSA:3.40.50.23002.0E-4216171No hitNo description
SMARTSM004484.6E-3317129IPR001789Signal transduction response regulator, receiver domain
PROSITE profilePS5011043.28518133IPR001789Signal transduction response regulator, receiver domain
PfamPF000722.1E-2519127IPR001789Signal transduction response regulator, receiver domain
CDDcd001564.59E-2820132No hitNo description
Gene3DG3DSA:1.10.10.602.5E-29192253IPR009057Homeodomain-like
PROSITE profilePS5129411.056192251IPR017930Myb domain
SuperFamilySSF466892.69E-19193252IPR009057Homeodomain-like
TIGRFAMsTIGR015571.0E-23195248IPR006447Myb domain, plants
PfamPF002494.4E-7197246IPR001005SANT/Myb domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000160Biological Processphosphorelay signal transduction system
GO:0009414Biological Processresponse to water deprivation
GO:0010082Biological Processregulation of root meristem growth
GO:0010380Biological Processregulation of chlorophyll biosynthetic process
GO:0031537Biological Processregulation of anthocyanin metabolic process
GO:0048367Biological Processshoot system development
GO:0080022Biological Processprimary root development
GO:0080036Biological Processregulation of cytokinin-activated signaling pathway
GO:0080113Biological Processregulation of seed growth
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 587 aa     Download sequence    Send to blast
MTVEQDCVAL DQFPVGMRVL AVDDDQTCLR ILESLLHRCQ YHVTTTNQAQ KALELLRENK  60
NKFDLVISDV DMPDMDGFKL LELVGLEMDL PVIMLSAHSD PKYVMKGVTH GACDYLLKPV  120
RIEELKNIWQ HVVRSRFDKN RGSNNGGDKK DGSGNEGVAN SDQNNGRANR KRKDQYNEDE  180
DEERDDNDDP SSQKKPRVVW TVELHKKFVA AVNQLGFEKA MPKKILDLMN VEKLTRENVA  240
SHLQKFRLYL KRISGNQQAI MANSDLHFLQ MSNGLDGFHH RPIPAGSGQF HGGAAAAAGM  300
RPFPPNGILG RLNTPSGIGG VRSLSSSPST GMFLQNPTDL GKFHHVSTLP LNHIDGGNIL  360
QGLPMPLEFD QLQTNNSKSI IPGNSMAAFP SFPSTQQSSL PNNNGHLVLQ GHPQAPPSAF  420
PGHQINKRLE HWSNAVSSSS STLPPPAQNS NSIMSHQFDD GSSSYSIPFC DSTIPLTPAM  480
DTTNPRAFYR TTDLDSNANV QPGGVYYDSM QMRQSGNYGP TTDAMLSSNA KEGFIVGQQK  540
LQSGFVGAEA GSLDDIVNST MKQEQSQGDL SEGDLGYGGF SSLRTCL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1irz_A2e-27191254164ARR10-B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that binds specifically to the DNA sequence 5'-[AG]GATT-3'. Functions as a response regulator involved in His-to-Asp phosphorelay signal transduction system. Phosphorylation of the Asp residue in the receiver domain activates the ability of the protein to promote the transcription of target genes. Could directly activate some type-A response regulators in response to cytokinins. Involved in the root-meristem size determination through the regulation of cell differentiation (PubMed:17363254). Involved in activating SHY2 during meristem growth and controls PIN expression via activation of SHY2 (PubMed:20605455). {ECO:0000250|UniProtKB:Q940D0, ECO:0000269|PubMed:17363254, ECO:0000269|PubMed:20605455}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_02367.1_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_018478453.10.0PREDICTED: two-component response regulator ARR12
SwissprotP625980.0ARR12_ARATH; Two-component response regulator ARR12
TrEMBLA0A078HC850.0A0A078HC85_BRANA; Two-component response regulator
TrEMBLA0A3P6CIE10.0A0A3P6CIE1_BRACM; Two-component response regulator
STRINGBra032035.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM19812879
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G25180.10.0response regulator 12
Publications ? help Back to Top
  1. Takahashi N, et al.
    Cytokinins control endocycle onset by promoting the expression of an APC/C activator in Arabidopsis roots.
    Curr. Biol., 2013. 23(18): p. 1812-7
    [PMID:24035544]
  2. Cortleven A, et al.
    A novel protective function for cytokinin in the light stress response is mediated by the Arabidopsis histidine kinase2 and Arabidopsis histidine kinase3 receptors.
    Plant Physiol., 2014. 164(3): p. 1470-83
    [PMID:24424319]
  3. Kim HJ,Kieber JJ,Schaller GE
    The rice F-box protein KISS ME DEADLY2 functions as a negative regulator of cytokinin signalling.
    Plant Signal Behav, 2013. 8(12): p. e26434
    [PMID:24675172]
  4. Choi SH, et al.
    Gene duplication of type-B ARR transcription factors systematically extends transcriptional regulatory structures in Arabidopsis.
    Sci Rep, 2014. 4: p. 7197
    [PMID:25425016]
  5. Jiang L, et al.
    Strigolactones spatially influence lateral root development through the cytokinin signaling network.
    J. Exp. Bot., 2016. 67(1): p. 379-89
    [PMID:26519957]
  6. Cortleven A, et al.
    Cytokinin Regulates the Etioplast-Chloroplast Transition through the Two-Component Signaling System and Activation of Chloroplast-Related Genes.
    Plant Physiol., 2016. 172(1): p. 464-78
    [PMID:27388681]
  7. Kobayashi K, et al.
    Shoot Removal Induces Chloroplast Development in Roots via Cytokinin Signaling.
    Plant Physiol., 2017. 173(4): p. 2340-2355
    [PMID:28193764]
  8. Zhang TQ, et al.
    A Two-Step Model for de Novo Activation of WUSCHEL during Plant Shoot Regeneration.
    Plant Cell, 2017. 29(5): p. 1073-1087
    [PMID:28389585]
  9. Meng WJ, et al.
    Type-B ARABIDOPSIS RESPONSE REGULATORs Specify the Shoot Stem Cell Niche by Dual Regulation of WUSCHEL.
    Plant Cell, 2017. 29(6): p. 1357-1372
    [PMID:28576846]
  10. Kobayashi K,Iwase A
    Simultaneous but spatially different regulation of non-photosynthetic callus formation and photosynthetic root development after shoot removal.
    Plant Signal Behav, 2017. 12(6): p. e1338999
    [PMID:28594268]
  11. Dai X, et al.
    ARR12 promotes de novo shoot regeneration in Arabidopsis thaliana via activation of WUSCHEL expression.
    J Integr Plant Biol, 2017. 59(10): p. 747-758
    [PMID:28681564]
  12. Zhang F,May A,Irish VF
    Type-B ARABIDOPSIS RESPONSE REGULATORs Directly Activate WUSCHEL.
    Trends Plant Sci., 2017. 22(10): p. 815-817
    [PMID:28886911]
  13. Yan Z, et al.
    Type B Response Regulators Act As Central Integrators in Transcriptional Control of the Auxin Biosynthesis Enzyme TAA1.
    Plant Physiol., 2017. 175(3): p. 1438-1454
    [PMID:28931628]
  14. Bustillo-Avendaño E, et al.
    Regulation of Hormonal Control, Cell Reprogramming, and Patterning during De Novo Root Organogenesis.
    Plant Physiol., 2018. 176(2): p. 1709-1727
    [PMID:29233938]