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 Tp7g27920
Organism
Thellungiella parvula
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassicaceae incertae sedis; Schrenkiella
Family ARF
Protein Properties Length: 671aa    MW: 74056.8 Da    PI: 6.9325
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp7g27920genomethellungiellaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.51.5e-24120221199
                EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
         B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                f k+lt+sd+++ g +++p+ +ae++        +++ +  t+  +d +g +W++++iyr++++r++lt+GW++Fv++++L +gD++vF+  + +++ l+
  Tp7g27920 120 FAKTLTQSDANNGGGFSVPRYCAETIfprldynAEPPVQ--TILAKDVHGDVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIVFM--RAESGDLC 215
                89****************************985444444..8999*********************************************..4489999* PP

                EEEE-S CS
         B3  94 vkvfrk 99 
                v+++r+
  Tp7g27920 216 VGIRRA 221
                ****97 PP
2Auxin_resp113.61.8e-37279362183
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                 aa+ a ++ +FevvY+PrastseF+vk+ + ++a++++++ GmRfkmafetedss++++ +Gtv++v+ +dp+rWpnS+Wr+L+
   Tp7g27920 279 AATLAISGRPFEVVYYPRASTSEFCVKALDARTAMRIPWCSGMRFKMAFETEDSSRISWfMGTVSAVNVSDPIRWPNSPWRLLQ 362
                 67788899**************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.57E-29111221IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-38112227IPR015300DNA-binding pseudobarrel domain
CDDcd100175.22E-22118220No hitNo description
SMARTSM010191.7E-22120222IPR003340B3 DNA binding domain
PfamPF023621.6E-22120221IPR003340B3 DNA binding domain
PROSITE profilePS5086313.267120222IPR003340B3 DNA binding domain
PfamPF065073.2E-31279362IPR010525Auxin response factor
PROSITE profilePS5174518.27585665IPR000270PB1 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: 671 aa     Download sequence    Send to blast
MINVMNPMKS GSEKGLDPQL WHACAGGMVR MPPMNSKVFY FPQGHAENAY DCVDFGNMPI  60
PPMVLCRVLG IKYMADAESD EVFAKLRLIP LKDDHFVDHE YGDGEDGNGF ESNSEKTPSF  120
AKTLTQSDAN NGGGFSVPRY CAETIFPRLD YNAEPPVQTI LAKDVHGDVW KFRHIYRGTP  180
RRHLLTTGWS NFVNQKKLVA GDSIVFMRAE SGDLCVGIRR AKRGGIGNGP EYSAGWNPIG  240
GSCGYSSLLR EEESNSLRRS NCSLADRKGK VTAESVIEAA TLAISGRPFE VVYYPRASTS  300
EFCVKALDAR TAMRIPWCSG MRFKMAFETE DSSRISWFMG TVSAVNVSDP IRWPNSPWRL  360
LQVAWDEPDL LQNVKRVNPW LVELVSNVHP IPLTSFSPPR KKMRLPQHPD YNNLINSIPV  420
PSFPSNPLIR SSPLSSVLDN VPVGLQGARH NAHQYYGLSS SDLHHYYLNR PPPPPPPSST  480
LPLSPPLGLR NIDSRNEKGF CFLTMGTAPC NDTESKKSHI VLFGKLILPE EQTSEKGSTD  540
TANIEKTQIS SGGSNQNCVA GRELSSSDEG SPCSNKIHDA SGLETGHCKV FMESDDVGRT  600
LDLSVLGSYE ELSRKLSDMF GIQKSEMLSS VLYRDASGAI KYAGNEPFSE FLKTARRLTI  660
LTEQGSESVV I
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A3e-76938343388Auxin 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
PlantRegMapTp7g27920
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0597920.0AY059792.1 Arabidopsis thaliana putative transcription factor (At4g30080) mRNA, complete cds.
GenBankAY0911980.0AY091198.1 Arabidopsis thaliana putative transcription factor (At4g30080) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006412761.10.0auxin response factor 16
SwissprotQ93YR90.0ARFP_ARATH; Auxin response factor 16
TrEMBLV4MCQ20.0V4MCQ2_EUTSA; Auxin response factor
STRINGXP_006412761.10.0(Eutrema salsugineum)
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]