PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_010558677.1
Organism
Tarenaya hassleriana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Cleomaceae; Tarenaya
Family ARF
Protein Properties Length: 685aa    MW: 75504.5 Da    PI: 6.6894
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_010558677.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.52.2e-22128229199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f k+lt+sd+++ g +++p+ +ae++        +++ +  t+  +d +   W++++iyr++++r++lt+GW++Fv++++L +gD++vF+  + +
  XP_010558677.1 128 FAKTLTQSDANNGGGFSVPRYCAETIfprldysAEPPVQ--TILAKDVHAVIWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFM--RAE 218
                     89****************************986445444..8999*********************************************..448 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                      + l+v+++r+
  XP_010558677.1 219 IGDLCVGIRRA 229
                     9999****996 PP
2Auxin_resp112.83.2e-37287370183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                     a++ a ++ +Fe vY+PrastseF+vk+++v++al++++++GmRfkmafetedss++++ +Gtv++v+ +dp+rWpnS+Wr+L+
  XP_010558677.1 287 AVNLAISGRPFEAVYYPRASTSEFCVKASDVRAALRIPWCLGMRFKMAFETEDSSRISWfMGTVSSVNVSDPIRWPNSPWRLLQ 370
                     67889999**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.4E-37120238IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.01E-29120229IPR015300DNA-binding pseudobarrel domain
CDDcd100171.30E-19126228No hitNo description
PROSITE profilePS5086312.055128230IPR003340B3 DNA binding domain
PfamPF023623.1E-20128229IPR003340B3 DNA binding domain
SMARTSM010191.8E-19128230IPR003340B3 DNA binding domain
PfamPF065071.4E-31287370IPR010525Auxin response factor
PROSITE profilePS5174517.561599679IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007389Biological Processpattern specification process
GO:0009733Biological Processresponse to auxin
GO:0048829Biological Processroot cap development
GO:0051301Biological Processcell division
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 685 aa     Download sequence    Send to blast
MIDVMNSLRD PMKGSQEKCL DPQLWHACAG GMVRMPPVSS KVFYFPQGHA ENAYERVDFG  60
NLPVPAMVLC RVLAIEYKAD AESDEVFAKI RLIPLKSDEL DYEDCDGDAG FGACNNGFDS  120
NNEKTPSFAK TLTQSDANNG GGFSVPRYCA ETIFPRLDYS AEPPVQTILA KDVHAVIWKF  180
RHIYRGTPRR HLLTTGWSNF VNQKKLVAGD SIVFMRAEIG DLCVGIRRAK RGGIGSGSEF  240
SMGWNPVGGS CGYASLLREA DENGNLNRRC YPEDRKGKVT AESVLEAVNL AISGRPFEAV  300
YYPRASTSEF CVKASDVRAA LRIPWCLGMR FKMAFETEDS SRISWFMGTV SSVNVSDPIR  360
WPNSPWRLLQ VAWDEPDLLQ NVKRVNPWLV ELVSNIPAIP FSSYSPPRKK MRLPQHSDYN  420
LINSIPIPSF SSNHLGSGSP LGCVPDNIPV GLQGARHAQY ELSSSDLHHL NMLPPGFFPI  480
RFQGFDRSVP PLGLLPSGNP LRNGGNGEKG SCFLTMGSPS RLLKDDTESK KPHIVLFGKL  540
ILPEEPKPEN ESADTNPEKT PISSGASNQN GTKEISSSDE RSPCSKDHRK DSDAGGLETG  600
HCKVFIESDN VGRTLDLSVL GSYEELCRKL SDMFGIENPE KLSSVLYCDA SGAIKYAGKE  660
PFSEFLKTAR RLTVLTDQGS ENVVR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A5e-78139133388Auxin 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00461DAPTransfer from AT4G30080Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_010558677.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010558677.10.0PREDICTED: auxin response factor 16-like
RefseqXP_010558752.10.0PREDICTED: auxin response factor 16-like
SwissprotQ93YR90.0ARFP_ARATH; Auxin response factor 16
TrEMBLV4MCQ20.0V4MCQ2_EUTSA; Auxin response factor
STRINGXP_010558677.10.0(Tarenaya hassleriana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58027130
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]