PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID evm.model.supercontig_53.88
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Caricaceae; Carica
Family ARF
Protein Properties Length: 698aa    MW: 76937.5 Da    PI: 6.7407
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm.model.supercontig_53.88genomeASGPBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.11.7e-23121222199
                                  EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT-- CS
                           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLk 75 
                                  f k+lt+sd+++ g +++p+ +ae++        +++ +  t+  +d +g++W++++iyr++++r++lt+GW++Fv++++L 
  evm.model.supercontig_53.88 121 FAKTLTQSDANNGGGFSVPRYCAETIfprldynAEPPVQ--TILAKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLV 200
                                  89****************************985444444..8999************************************* PP

                                  TT-EEEEEE-SSSEE..EEEEE-S CS
                           B3  76 egDfvvFkldgrsefelvvkvfrk 99 
                                  +gD++vF   + +++ l+v+++r+
  evm.model.supercontig_53.88 201 AGDSIVFF--RAENGDLRVGIRRA 222
                                  ********..3488889****996 PP

2Auxin_resp113.91.5e-37283366183
                   Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrs 81 
                                  aa+ a+++++FevvY+Prast+eF+vk++ v++a+++++++Gm+fkmafetedss++++ +G v++v+ +dp++WpnS+Wr+
  evm.model.supercontig_53.88 283 AATLAAKGQPFEVVYYPRASTPEFCVKASAVRAAMQIQWCPGMKFKMAFETEDSSRISWfMGAVASVQVVDPINWPNSPWRL 364
                                  68899****************************************************************************9 PP

                   Auxin_resp  82 Lk 83 
                                  L+
  evm.model.supercontig_53.88 365 LE 366
                                  96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019366.02E-30109227IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-37114226IPR015300DNA-binding pseudobarrel domain
CDDcd100171.57E-21120221No hitNo description
SMARTSM010194.4E-23121223IPR003340B3 DNA binding domain
PROSITE profilePS5086313.324121223IPR003340B3 DNA binding domain
PfamPF023621.7E-21121222IPR003340B3 DNA binding domain
PfamPF065075.2E-32283365IPR010525Auxin response factor
PROSITE profilePS5174512.568611691IPR000270PB1 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: 698 aa     Download sequence    Send to blast
MDSIKDPMRK NSENLLDPQL WHACAGSMVQ IPPLNSKVFY FPQGHSENAH GIVDLRHVRI  60
PPLILCRVSA IKYMADTETD EVYAKIRLVP LRETGFGYIG DDHDVFDGST GVDSSDKPVS  120
FAKTLTQSDA NNGGGFSVPR YCAETIFPRL DYNAEPPVQT ILAKDVHGEV WKFRHIYRGT  180
PRRHLLTTGW SNFVNQKKLV AGDSIVFFRA ENGDLRVGIR RAKRGTGNGL EYSSGWNPVG  240
GNCSSSSGGY SGFSREDESK LMRRNCSDGD LRGRVRAESV VEAATLAAKG QPFEVVYYPR  300
ASTPEFCVKA SAVRAAMQIQ WCPGMKFKMA FETEDSSRIS WFMGAVASVQ VVDPINWPNS  360
PWRLLEVTWD EPDLLQNVKR VSPWLVELVT NIPTLHLSPF SPPRKKMRVP QHPDFSLLTQ  420
VPVPSFSSNT LRSSSPLSCI SDMIPAGIQG ARHAQYGSSF SDLYFNNLQP GLFPVDFQQQ  480
QQQQQQQQLD HAAPPSRSIN GNSVRTSKIN ESLSCSLTIG NPTSSLKENS EVKTPHFFLF  540
GKLILTQPQN CESSSGDTMG NGSLDGNLEK TTISSDGSGS ATNQIGTQEN SSDEGSPWCK  600
DDQKTDVGFE ADHCKVFMKS DDVGRNLDLS VLSSYQELYG KLANMYGMEN SEMVGAVLYR  660
DAAGCLRQTG NEPFSVFLKT ARKLMIVPDS SSDNVGR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A2e-741538750388Auxin 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
PlantRegMapevm.model.supercontig_53.88
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_021897845.10.0auxin response factor 16-like
SwissprotQ93YR90.0ARFP_ARATH; Auxin response factor 16
TrEMBLA0A061FPV20.0A0A061FPV2_THECC; Auxin response factor
STRINGevm.model.supercontig_53.880.0(Carica papaya)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58027130
Representative plantOGRP5261578
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]