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 XP_009114661.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family ARF
Protein Properties Length: 307aa    MW: 35201.9 Da    PI: 10.0213
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009114661.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B349.11e-157703398
                    -SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
              B3 33 sktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                    s+ ++ +d++  +W++k+++r++++r++ t+GWk+F++ + L +gD+vvF +   +++e ++++++
  XP_009114661.1  7 SQWIVAKDLHDHVWKFKHTFRGTPQRHLSTSGWKQFARKKSLAVGDSVVFLR--GENGESRIRIRK 70
                    4568899********************************************3..377777888876 PP
2Auxin_resp821.3e-2796175183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     a++a++tk++F+v+Y+P++  s+F+v+++kv +a+++k+  G+Rf m+fe+ d++e+ +sGt+v v+d  ++ W++S+Wr+L+
  XP_009114661.1  96 ASNAINTKCMFDVFYRPKS--SKFIVNCKKVIDAVNMKFNTGSRFTMKFEGRDFNEIIYSGTIVKVED-FSIYWKDSEWRNLQ 175
                     6899*************96..9**********************************************.567*********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086311.364172IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.105.2E-21285IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.14E-15471IPR015300DNA-binding pseudobarrel domain
PfamPF023627.7E-13770IPR003340B3 DNA binding domain
CDDcd100173.81E-13770No hitNo description
PfamPF065077.6E-2696175IPR010525Auxin response factor
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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 307 aa     Download sequence    Send to blast
MSQQAPSQWI VAKDLHDHVW KFKHTFRGTP QRHLSTSGWK QFARKKSLAV GDSVVFLRGE  60
NGESRIRIRK AAPQQSNISS SVISEESMHH GLVATASNAI NTKCMFDVFY RPKSSKFIVN  120
CKKVIDAVNM KFNTGSRFTM KFEGRDFNEI IYSGTIVKVE DFSIYWKDSE WRNLQVQWDE  180
AATISRPNKV SPWEIEPLIR KNKRQREINE IVSYAGLAMS KPYYNDQMVQ STKENSTTNA  240
SSSFRLFGVD LTASTKARDV LEPLESYQKS KISEIFDEEK LDQIQAVTSL TEIQRKELSF  300
TTSSTKV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A9e-701198155355Auxin response factor 1
4ldw_A9e-701198155355Auxin response factor 1
4ldw_B9e-701198155355Auxin response factor 1
4ldx_A8e-701198155355Auxin response factor 1
4ldx_B8e-701198155355Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1200205KNKRQR
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
PlantRegMapXP_009114661.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794880.0JN979488.1 Brassica rapa subsp. pekinensis auxin response factor 27 (ARF27) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018509878.10.0PREDICTED: auxin response factor 22-like
SwissprotQ9C8N71e-97ARFV_ARATH; Auxin response factor 22
TrEMBLA0A3P5XZM50.0A0A3P5XZM5_BRACM; Auxin response factor
STRINGBo9g076090.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7653631
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G34390.13e-98auxin response factor 22