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 PGSC0003DMP400048339
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family ARF
Protein Properties Length: 362aa    MW: 40053.6 Da    PI: 7.9897
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400048339genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.75.4e-24110212199
                           EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                           f+k+ltpsd+++ g +++p+ +a+++        +++ +   l+++d +g +We+++iyr++++r++lt+GW++Fv++++L +gD+ vF
  PGSC0003DMP400048339 110 FVKILTPSDANNGGGFSVPRFCADSIfprlnfeAEPPVQ--NLSIRDIKGGVWEFRHIYRGTPRRHLLTTGWSKFVNSKQLVAGDSAVF 196
                           89*********************999*****86555555..7*********************************************** PP

                           EE-SS.SEE..EEEEE-S CS
                    B3  83 kldgr.sefelvvkvfrk 99 
                           ++  r  + +l+v+v+r+
  PGSC0003DMP400048339 197 MR--RtANDQLYVGVRRA 212
                           *4..4477779****996 PP

2Auxin_resp84.62e-28257340183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                           +a+ a+ + +Fev  nPr  +++Fvvk++ ve al+++++vG+R+kma+etedss++ + +Gtv++v  +++  W++S+Wr+L+
  PGSC0003DMP400048339 257 VAEMAARGVPFEVSCNPRDDWADFVVKAQAVEMALNIPWTVGTRVKMAVETEDSSRTACfQGTVSSVILTESGPWRGSPWRMLQ 340
                           5788999***************************************************99**********************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.6E-32101216IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.72E-29104218IPR015300DNA-binding pseudobarrel domain
CDDcd100178.66E-20109211No hitNo description
PfamPF023627.4E-22110212IPR003340B3 DNA binding domain
SMARTSM010193.2E-18110213IPR003340B3 DNA binding domain
PROSITE profilePS5086312.379110213IPR003340B3 DNA binding domain
PfamPF065074.6E-26258340IPR010525Auxin response factor
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:0010208Biological Processpollen wall assembly
GO:0048830Biological Processadventitious root development
GO:0052543Biological Processcallose deposition in cell wall
GO:0005634Cellular Componentnucleus
GO:0000987Molecular Functioncore promoter proximal region sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 362 aa     Download sequence    Send to blast
MQAPTASDRE VDPIVWRAIA GKSVQIPPVG SRVYYFPQGH AEHATFTSPG VLSPGIPAFI  60
LCRVLSVRFL AESDTDEAFA KIFLHPISPS EVDEVTVSEE EEVEDKIVSF VKILTPSDAN  120
NGGGFSVPRF CADSIFPRLN FEAEPPVQNL SIRDIKGGVW EFRHIYRGTP RRHLLTTGWS  180
KFVNSKQLVA GDSAVFMRRT ANDQLYVGVR RAIKRNDNSQ KWTSSFLMRE HINSGGSPDV  240
SWGIRKGRMT MEAVAAVAEM AARGVPFEVS CNPRDDWADF VVKAQAVEMA LNIPWTVGTR  300
VKMAVETEDS SRTACFQGTV SSVILTESGP WRGSPWRMLQ DRQVRVATEL VVGQRTALKQ  360
L*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A2e-591534055367Auxin 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
PlantRegMapPGSC0003DMP400048339
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9755230.0HG975523.1 Solanum lycopersicum chromosome ch11, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006364958.10.0PREDICTED: auxin response factor 17
SwissprotQ84WU61e-113ARFQ_ARATH; Auxin response factor 17
TrEMBLM1CNT20.0M1CNT2_SOLTU; Auxin response factor
STRINGPGSC0003DMT4000714490.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA95601924
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G77850.11e-108auxin response factor 17
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  2. Shi ZH, et al.
    Overexpression of AtTTP affects ARF17 expression and leads to male sterility in Arabidopsis.
    PLoS ONE, 2015. 10(3): p. e0117317
    [PMID:25822980]
  3. de Lucas M, et al.
    Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
    Plant Cell, 2016. 28(10): p. 2616-2631
    [PMID:27650334]
  4. 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]
  5. Wang B, et al.
    Fine regulation of ARF17 for anther development and pollen formation.
    BMC Plant Biol., 2017. 17(1): p. 243
    [PMID:29258431]
  6. 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]
  7. 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]