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_009140627.1
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 ARR-B
Protein Properties Length: 581aa    MW: 63978.7 Da    PI: 6.5103
Description ARR-B family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009140627.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1G2-like86.62.4e-27191244155
         G2-like   1 kprlrWtpeLHerFveaveqLGGsekAtPktilelmkvkgLtlehvkSHLQkYRl 55 
                     kpr++Wt eLH++Fv av+qL G ekA Pk+il+lm+v+ Lt+e+v+SHLQk+Rl
  XP_009140627.1 191 KPRVVWTVELHKKFVAAVNQL-GFEKAMPKKILDLMNVEKLTRENVASHLQKFRL 244
                     79*******************.9*******************************8 PP
2Response_reg84.43.3e-28201281109
                     EEEESSSHHHHHHHHHHHHHTTCEEEEEESSHHHHHHHHHHHH..ESEEEEESSCTTSEHHHHHHHHHHHTTTSEEEEEESTTTHHHHHHHHHTT CS
    Response_reg   1 vlivdDeplvrellrqalekegyeevaeaddgeealellkekd..pDlillDiempgmdGlellkeireeepklpiivvtahgeeedalealkaG 93 
                     vl vdD+++ +++l+++l + +y +v+++ ++++alell+e++  +Dl++ D++mp+mdG++ll+     e++lp+i+++ah++++++ + +  G
  XP_009140627.1  20 VLAVDDDQTCLRILESLLHRCQY-HVTTTNQAQKALELLRENKnkFDLVISDVDMPDMDGFKLLELVGL-EMDLPVIMLSAHSDPKYVMKGVTHG 112
                     799********************.***************888888*******************87754.558********************** PP

                     ESEEEESS--HHHHHH CS
    Response_reg  94 akdflsKpfdpeelvk 109
                     a d+l Kp+ +eel +
  XP_009140627.1 113 ACDYLLKPVRIEELKN 128
                     *************987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PIRSFPIRSF0363921.3E-1731581IPR017053Response regulator B-type, plant
SuperFamilySSF521721.27E-3517138IPR011006CheY-like superfamily
Gene3DG3DSA:3.40.50.23003.0E-4317165No hitNo description
SMARTSM004484.6E-3318130IPR001789Signal transduction response regulator, receiver domain
PROSITE profilePS5011043.28519134IPR001789Signal transduction response regulator, receiver domain
PfamPF000722.0E-2520128IPR001789Signal transduction response regulator, receiver domain
CDDcd001564.39E-2821133No hitNo description
PROSITE profilePS5129411.056188247IPR017930Myb domain
Gene3DG3DSA:1.10.10.602.4E-29188249IPR009057Homeodomain-like
SuperFamilySSF466892.69E-19189248IPR009057Homeodomain-like
TIGRFAMsTIGR015571.0E-23191244IPR006447Myb domain, plants
PfamPF002494.4E-7193242IPR001005SANT/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: 581 aa     Download sequence    Send to blast
MTVEQQDCVA LDQFPVGMRV LAVDDDQTCL RILESLLHRC QYHVTTTNQA QKALELLREN  60
KNKFDLVISD VDMPDMDGFK LLELVGLEMD LPVIMLSAHS DPKYVMKGVT HGACDYLLKP  120
VRIEELKNIW QHVVRKNRGS NNGDKKDGSG NEGVANSDQN NGRANRKRKD QYNEDEDEER  180
DDNDDPSSQK KPRVVWTVEL HKKFVAAVNQ LGFEKAMPKK ILDLMNVEKL TRENVASHLQ  240
KFRLYLKRIS GNQQAIMANS DLHFLQMSNG LDGFHHRPIP VGTGQFHGGA AAAGMRPFPP  300
NGILGRLNTP SGMSGVRNLS SSPSSGMFLQ NPTDLGKFHH VSSLPLNHID GGNILQGLPM  360
PLEFDQLQTN NNKSIIAGNS MAFPIFPTQQ QSSLPNNNNH LVLEGHPQAP PSAFPGHQIN  420
KRLEHWSNAV SSSSSTLPPP GQNSNSLISH QFDASSSSYS IPFCDSTIPL NPALDHTNPR  480
AFYRATDMDS SANVQPGVYY DSLQMRKSGN YGPTTDAMLS SNNPKEGFTV GQQKLQSGFM  540
GGEAGSLDDI VNSTMKQEQS QGDLSEGDLG YGGFSSLRTC I
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1irz_A4e-27187250164ARR10-B
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bra.289620.0leaf
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Detected immediately after seed germination. {ECO:0000269|PubMed:17363254}.
UniprotTISSUE SPECIFICITY: Detected in the whole plant. Predominantly expressed in leaves. Expressed at the root transition zone (PubMed:17363254). {ECO:0000269|PubMed:15173562, ECO:0000269|PubMed:17363254}.
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
PlantRegMapXP_009140627.1
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_009140627.10.0PREDICTED: two-component response regulator ARR12 isoform X1
SwissprotP625980.0ARR12_ARATH; Two-component response regulator ARR12
TrEMBLM4ETA50.0M4ETA5_BRARP; 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]