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_009121623.1
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: 579aa    MW: 66101.3 Da    PI: 6.315
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009121623.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B366.83.1e-21124225199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f kvlt sd + +g ++l kk a e+       ++++  s++++ +d++  +W++k+++r++++r+++t+GWkeFvk + L +gD++vF   + +
  XP_009121623.1 124 FTKVLTASDIGPHGDFILFKKDAIEClppldmsQLIP--SQEIVAKDLHDHVWKFKHTFRGTPKRHLFTSGWKEFVKGKSLAVGDSFVFL--RGE 214
                     89****************************9887776..458************************************************..347 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     ++e +v+++++
  XP_009121623.1 215 NGESRVGIRKT 225
                     88889*99986 PP
2Auxin_resp77.82.8e-26250329183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     a++a++tk++F+v+Y+P++  s+F+v+++k+++a+++k+   +Rf m+fe+ d++e+ +sGt+v ++d  ++ W++S+Wr+L+
  XP_009121623.1 250 ASNAIHTKCMFDVFYKPKS--SKFIVNCDKFLDAVNMKFNTSSRFTMKFEGHDFNEIIYSGTIVKMED-FSIYWKGSEWRNLQ 329
                     6799*************96..9**********************************************.567*********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.3E-36116238IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.7E-28119232IPR015300DNA-binding pseudobarrel domain
CDDcd100171.62E-20122224No hitNo description
SMARTSM010193.6E-19124226IPR003340B3 DNA binding domain
PfamPF023621.8E-18124225IPR003340B3 DNA binding domain
PROSITE profilePS5086311.956124226IPR003340B3 DNA binding domain
PfamPF065073.6E-25250329IPR010525Auxin response factor
PROSITE profilePS5174517.461462543IPR000270PB1 domain
SuperFamilySSF542772.03E-9464536No hitNo description
PfamPF023094.9E-7504545IPR033389AUX/IAA 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 579 aa     Download sequence    Send to blast
MANNQTMNAQ PKFRGTEGVN RYLYDQLWKL CAGPLFDLPK IGEEVYYFPQ GNIEQLVASA  60
NDNLCQLKPI FDISSRIHCN VISIKLKVET NTDEVYAKVS LLPCSPEVEI TFPNDNNEQN  120
IKYFTKVLTA SDIGPHGDFI LFKKDAIECL PPLDMSQLIP SQEIVAKDLH DHVWKFKHTF  180
RGTPKRHLFT SGWKEFVKGK SLAVGDSFVF LRGENGESRV GIRKTSHQQS DMSSSVISKE  240
SMHHGFIASA SNAIHTKCMF DVFYKPKSSK FIVNCDKFLD AVNMKFNTSS RFTMKFEGHD  300
FNEIIYSGTI VKMEDFSIYW KGSEWRNLQV QWDEAATIPR PNKVSLWEIE PLIPSSNILK  360
SVIQNNKRQR EINEFGPIIS KPDYNDQMVQ STKENSTTNA SSSFRLFGVD LTASSKARDV  420
LEPLESYQKN KTSEIFEEEN LDQTQAVTSL TEIQRKELSF TTSSTKVHME GVTRTVDLTV  480
FDGYNHMIVE LEKLFNIEGK LHMHSQWKLT FKDHEGDMML VGDDPWPKFC NIVKEIVISS  540
KXDAIKXNLX NQFSKSDSEF TTIISPSDVD DSQRGVLLF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1142335219355Auxin response factor 1
4ldw_A1e-1142335219355Auxin response factor 1
4ldw_B1e-1142335219355Auxin 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009121623.1
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_018514851.10.0PREDICTED: putative auxin response factor 21
SwissprotQ9C8N90.0ARFU_ARATH; Putative auxin response factor 21
TrEMBLH9B4E90.0H9B4E9_BRARP; Auxin response factor
STRINGBra034234.1-P0.0(Brassica rapa)
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
AT1G34410.10.0auxin response factor 21