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 27494.m000045
Common NameRCOM_0022630
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family ARF
Protein Properties Length: 590aa    MW: 65624.3 Da    PI: 6.9236
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
27494.m000045genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.94.7e-24128229199
                    EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                    f k+lt+sd+++ g +++p+ +ae++        +++ +  t+  +d +g++W++++iyr++++r++lt+GW++Fv++++L +gD++vF +   ++
  27494.m000045 128 FAKTLTQSDANNGGGFSVPRYCAETIfprldysAEPPVQ--TILAKDVHGETWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFLR--ADN 219
                    89****************************986445444..8999*********************************************3..478 PP

                    E..EEEEE-S CS
             B3  90 felvvkvfrk 99 
                    + l+v+++r+
  27494.m000045 220 GDLCVGIRRA 229
                    888****996 PP
2Auxin_resp119.42.8e-39282365183
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                    aa+ a+++++Fe+vY+Prast+eF+v+++ v++a+++++++GmRfkm fetedss++++ +Gt+++v+ +dp+rWpnS+Wr+L+
  27494.m000045 282 AATLAANGQPFEIVYYPRASTPEFCVRASAVRAAMQIQWCPGMRFKMPFETEDSSRISWfMGTISSVQVADPIRWPNSPWRLLQ 365
                    68899*****************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.106.4E-38120232IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.27E-30121232IPR015300DNA-binding pseudobarrel domain
CDDcd100172.05E-22127228No hitNo description
SMARTSM010191.1E-22128230IPR003340B3 DNA binding domain
PROSITE profilePS5086313.38128230IPR003340B3 DNA binding domain
PfamPF023622.4E-22128229IPR003340B3 DNA binding domain
PfamPF065077.3E-34282365IPR010525Auxin response factor
PROSITE profilePS5174520.544504584IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 590 aa     Download sequence    Send to blast
MMRDFGVIKP QREQLRVTEK CLDSQLWHAC AGGMVQMPPL NSRVFYFPQG HAEHAQGNVD  60
FGRCQISAMI PCKVSAIKYL ADPETDEVYA KIRLIPLIDR DVFLENSGDD CDDGLYNGAE  120
SQEKPASFAK TLTQSDANNG GGFSVPRYCA ETIFPRLDYS AEPPVQTILA KDVHGETWKF  180
RHIYRGTPRR HLLTTGWSNF VNQKKLVAGD SIVFLRADNG DLCVGIRRAK RGIGGGNECP  240
SGWNSFGGYA AGFLREDESK LMRRNGNGDN KSKVRVESVI QAATLAANGQ PFEIVYYPRA  300
STPEFCVRAS AVRAAMQIQW CPGMRFKMPF ETEDSSRISW FMGTISSVQV ADPIRWPNSP  360
WRLLQVAWDE PDLLQNVKRV SPWLVELVAN MPAVHLSPFS PPRKKLRIPQ TPDFSLIGQL  420
QMPSFTSNTL NLNSPLCCVS DNITARIQGA RHAQFGLSSA DLHINKLQSG SVSASHQTTT  480
LENSSDEGSP SYKEHWKTDL GLETGHCKVF MESEDVGRTL DLSVLGSYEE LYGKLANMFE  540
IENSDMLSSV LYRDAAGAIK RTGDEPFSEF LKTARRLTIL TDSGSENIAR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A3e-81838637388Auxin response factor 5
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that bind specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269|PubMed:12036261}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap27494.m000045
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_015583792.10.0LOW QUALITY PROTEIN: auxin response factor 16-like
SwissprotQ93YR90.0ARFP_ARATH; Auxin response factor 16
TrEMBLB9T7250.0B9T725_RICCO; Auxin response factor
STRINGXP_002534044.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF63734138
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin response factor 16
Publications ? help Back to Top
  1. Yang ZB, et al.
    TAA1-regulated local auxin biosynthesis in the root-apex transition zone mediates the aluminum-induced inhibition of root growth in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2889-904
    [PMID:25052716]
  2. Bennett T,van den Toorn A,Willemsen V,Scheres B
    Precise control of plant stem cell activity through parallel regulatory inputs.
    Development, 2014. 141(21): p. 4055-64
    [PMID:25256342]
  3. Zhang GZ, et al.
    Ectopic expression of UGT75D1, a glycosyltransferase preferring indole-3-butyric acid, modulates cotyledon development and stress tolerance in seed germination of Arabidopsis thaliana.
    Plant Mol. Biol., 2016. 90(1-2): p. 77-93
    [PMID:26496910]
  4. Ye Y, et al.
    Germostatin resistance locus 1 encodes a PHD finger protein involved in auxin-mediated seed dormancy and germination.
    Plant J., 2016. 85(1): p. 3-15
    [PMID:26611158]
  5. Liu Z, et al.
    Repression of callus initiation by the miRNA-directed interaction of auxin-cytokinin in Arabidopsis thaliana.
    Plant J., 2016. 87(4): p. 391-402
    [PMID:27189514]
  6. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  7. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  8. Lin JS, et al.
    MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 68
    [PMID:29449855]