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 WALNUT_00004830-RA
Organism
Juglans regia
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Juglandaceae; Juglans
Family ARF
Protein Properties Length: 800aa    MW: 88707.1 Da    PI: 7.1403
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
WALNUT_00004830-RAgenomeJHUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.46.5e-24166267199
                         EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                         f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   
  WALNUT_00004830-RA 166 FCKTLTASDTSTHGGFSVPRRAAEDCfpaldyK-QQRPSQELVAKDLHGVEWRFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL-- 253
                         99****************************963.3445679************************************************.. PP

                         SSSEE..EEEEE-S CS
                  B3  86 grsefelvvkvfrk 99 
                         + +++el+++++r+
  WALNUT_00004830-RA 254 RGENGELRLGIRRA 267
                         4499999****996 PP
2Auxin_resp116.91.7e-38292373182
          Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                         +a+a+stks+F v+Y+Pra+++eFv++++k+ k+++++v++G+Rfkm+fe++ds+err+sG+v+g+sdld++rWpnS+Wr+L
  WALNUT_00004830-RA 292 VANAISTKSTFPVFYSPRATHAEFVISYQKYIKSITNPVTIGTRFKMRFEMDDSPERRCSGVVTGMSDLDSYRWPNSRWRCL 373
                         689******************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.15E-43158273IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.0E-40159276IPR015300DNA-binding pseudobarrel domain
CDDcd100171.03E-22164266No hitNo description
PfamPF023626.1E-22166267IPR003340B3 DNA binding domain
SMARTSM010192.4E-23166268IPR003340B3 DNA binding domain
PROSITE profilePS5086313.211166268IPR003340B3 DNA binding domain
PfamPF065071.2E-32292373IPR010525Auxin response factor
SuperFamilySSF542775.04E-10665751No hitNo description
PfamPF023099.6E-6670757IPR033389AUX/IAA domain
PROSITE profilePS5174522.236672756IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 800 aa     Download sequence    Send to blast
MEIDLNYAVT EVEKNAYCNG DCGKGGCVCC LSSSTSSCSS ISFTAPVSSS IYLELWHACA  60
GPLTSLPKKG NVVVYFPQGH LEQAASASPF SPMEMPTFDL QPQIFCRVVN VQLLANREND  120
EVYTQVTLLP QPELVGKNLN GKELRELGVD EDGAGGSPTK STPHMFCKTL TASDTSTHGG  180
FSVPRRAAED CFPALDYKQQ RPSQELVAKD LHGVEWRFRH IYRGQPRRHL LTTGWSIFVS  240
QKNLVSGDAV LFLRGENGEL RLGIRRAARP RNGLPDSIVG NENSLSKVLS RVANAISTKS  300
TFPVFYSPRA THAEFVISYQ KYIKSITNPV TIGTRFKMRF EMDDSPERRC SGVVTGMSDL  360
DSYRWPNSRW RCLMVRWDED IASGHQDRVS PWEIDPSVSL PPLSIQSSPR LKKLRTSLRE  420
TAPANPVTAG GGGFLDFEES VRSPKVLQGQ ENVGFVSPFY GCDTVNRPLD FETHSPVYQN  480
RVSTAIGKSN IGEFLKAHPA TFTGFVESDR FPKVLQGQEI CPLRSLTRKS EFNLDAWGKL  540
NPGCNSFNLY QEPKPNFYPL QTESLPTIYF PYNDIYQVGQ NPRTRSYATN LPRENVSFNP  600
SSTQTGVVTN EFGLRKLSNE HRPAENVSAA PTLGATMRNT IDEKFNGNVP GCKLFGFSLT  660
GETPKSQVSG KRSCTKVHKQ GSLVGRAIDL SRLNGYGDLL NELERLFSME GLLQDPDKGW  720
RILYTDSEND VMVVGDDPWH EFCNVVSKIH IYTQEEVEKM TIGMISDDTQ SCLEQAPVVM  780
VASKSSSVGQ PDSSPTVIRV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-1224739615354Auxin response factor 1
4ldy_B1e-1224739615354Auxin response factor 1
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}.
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_018819532.10.0PREDICTED: auxin response factor 4 isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A2I4EJF60.0A0A2I4EJF6_JUGRE; Auxin response factor
STRINGEMJ061420.0(Prunus persica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF52363252
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.10.0auxin response factor 4
Publications ? help Back to Top
  1. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  2. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  3. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  4. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  5. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  6. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]