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 Rsa1.0_14488.1_g00001.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family ARF
Protein Properties Length: 457aa    MW: 51793.2 Da    PI: 8.4598
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_14488.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.42.4e-22114214198
                              EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-E CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDf 79 
                              f kvl+ sd+ k+g +vl k++a+e+       ++    s++++ +d +g +W++k++++++++r+++++GW+eF+k ++L +gD+
  Rsa1.0_14488.1_g00001.1 114 FTKVLSASDTRKNGGFVLYKRHATEClplldmsQLT--PSQEIIAKDIHGHEWSFKHSFKGTPKRHMFSSGWNEFAKGKKLVAGDS 197
                              89****************************965444..5669******************************************** PP

                              EEEEE-SSSEE..EEEEE- CS
                       B3  80 vvFkldgrsefelvvkvfr 98 
                              +vF +   +++e +v++ +
  Rsa1.0_14488.1_g00001.1 198 FVFLR--GENGESRVGISK 214
                              ****3..377777898865 PP
2Auxin_resp83.64.4e-28240319183
               Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                              a +a+++k++F v+Y+Pr+  s+F v+++k++  +++k+s+G++f m+fe++d +e+r+ Gtvvgv+++++ +W++S+WrsL+
  Rsa1.0_14488.1_g00001.1 240 ALNAIENKCIFVVFYKPRS--SQFLVNFDKFVGRVNNKFSIGSKFSMRFEGKDLNEIRYNGTVVGVRAFST-HWKDSEWRSLE 319
                              6799**************6..9**********************************************777.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.0E-35105228IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.09E-28110221IPR015300DNA-binding pseudobarrel domain
CDDcd100171.00E-19113214No hitNo description
PfamPF023625.4E-20114213IPR003340B3 DNA binding domain
PROSITE profilePS5086312.661114216IPR003340B3 DNA binding domain
SMARTSM010192.1E-19114216IPR003340B3 DNA binding domain
PfamPF065077.4E-25240318IPR010525Auxin 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: 457 aa     Download sequence    Send to blast
MAGDKIMHAQ PEVLAIDETN NYLNDQLWKL CAGPLFNTPE IGEKLVVSMN DELCQLKPVF  60
DISSKICCNV FSIDLKVETN TNEIYAEVSL LPDTSDVEIP IPKNKNNIQN INYFTKVLSA  120
SDTRKNGGFV LYKRHATECL PLLDMSQLTP SQEIIAKDIH GHEWSFKHSF KGTPKRHMFS  180
SGWNEFAKGK KLVAGDSFVF LRGENGESRV GISKAAHQQR NIPTSLISKE SMHHGVVATA  240
LNAIENKCIF VVFYKPRSSQ FLVNFDKFVG RVNNKFSIGS KFSMRFEGKD LNEIRYNGTV  300
VGVRAFSTHW KDSEWRSLEV QWDGAATIPR PDKVSPWEIE LLTHSSPIFK SDDLKHKRRI  360
EVNEFGQEVG NSSIQSSMRY SFPTMSKPNY NEQMVQAMEE MSTITVTPSC RLFGVDLTVP  420
ATIKDPIKPI DSYKKIKISK IFEEEKVNHV QARSLTK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1072034216355Auxin response factor 1
4ldw_A1e-1072034216355Auxin response factor 1
4ldw_B1e-1072034216355Auxin response factor 1
4ldx_A1e-1072034216355Auxin response factor 1
4ldx_B1e-1072034216355Auxin 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
PlantRegMapRsa1.0_14488.1_g00001.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794860.0JN979486.1 Brassica rapa subsp. pekinensis auxin response factor 25 (ARF25) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018450641.10.0PREDICTED: LOW QUALITY PROTEIN: auxin response factor 20-like
SwissprotQ9LQE31e-161ARFO_ARATH; Putative auxin response factor 15
TrEMBLH9B4E70.0H9B4E7_BRARP; Auxin response factor
STRINGBra027944.1-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
AT1G34410.11e-153auxin response factor 21