PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_013610601.1
Organism
Brassica oleracea
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: 541aa    MW: 62101.9 Da    PI: 7.6442
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013610601.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B364.71.4e-20124224198
                     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++++++++t+GWkeFv+ + L +gD++vF   + +
  XP_013610601.1 124 FTKVLTASDISPHGDFILFKKDAIEClppldmsQLT--PSQEIVAKDLHDHVWKFKHTFRGTPKKHFFTSGWKEFVRGKSLAVGDSFVFL--RGE 214
                     89****************************965444..5669************************************************..347 PP

                     EE..EEEEE- CS
              B3  89 efelvvkvfr 98 
                     ++e +v++++
  XP_013610601.1 215 NGESRVGIRK 224
                     8888999987 PP
2Auxin_resp77.24.3e-26250329183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     a++a++tk++F+v+Y+P++  s+F+v+++k+++a+++k+   +Rf m+fe+ d++++++sGt+v v+d  ++ W++S+Wr+L+
  XP_013610601.1 250 ASNAIHTKCMFDVFYKPKS--SKFIVNCDKFLDAVTRKFNTSSRFTMKFEGHDFNQITYSGTIVKVED-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:2.40.330.101.6E-35116238IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.09E-28119231IPR015300DNA-binding pseudobarrel domain
CDDcd100171.19E-20122224No hitNo description
PfamPF023624.5E-18124225IPR003340B3 DNA binding domain
SMARTSM010191.1E-18124226IPR003340B3 DNA binding domain
PROSITE profilePS5086311.914124226IPR003340B3 DNA binding domain
PfamPF065076.7E-25250329IPR010525Auxin response factor
PROSITE profilePS5174513.041462541IPR000270PB1 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: 541 aa     Download sequence    Send to blast
MANNQIMNAQ PKFRGTEGVN RYLYDQLWKL CAGSLFDLPK IGEEVYYFPQ GHIEQLVASA  60
NDNLCQLKPI FDISSRIRCN VISIKLKVET NSDEVYAKVS LLTCPPEVEI LFPNDNNEQN  120
IKYFTKVLTA SDISPHGDFI LFKKDAIECL PPLDMSQLTP SQEIVAKDLH DHVWKFKHTF  180
RGTPKKHFFT SGWKEFVRGK SLAVGDSFVF LRGENGESRV GIRKAAHQQS DMSSSVISKE  240
SMHHGFIASA SNAIHTKCMF DVFYKPKSSK FIVNCDKFLD AVTRKFNTSS RFTMKFEGHD  300
FNQITYSGTI VKVEDFSIYW KGSEWRNLQV QWDEPATIPR PNKVSPWEIE PLIPSSNIFK  360
SVIRKNKRQR EINEFGPIMS KPDYNHQMVQ STKENSTTNA SSSFRLFGVD LTASSKARDV  420
LEPLESYQNN KISEIFEEEK LDQIQAVTSL TEIQRKEISF TTSSTKVHME SVVKTVDLTV  480
FDGYNHMIVE LEKLFNIEGK LHMHSQWKLT FKVHEGDMML VGDDLWPKFC NIVKEIFISS  540
K
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1152335219355Auxin response factor 1
4ldw_A1e-1152335219355Auxin response factor 1
4ldw_B1e-1152335219355Auxin response factor 1
4ldx_A1e-1152335219355Auxin response factor 1
4ldx_B1e-1152335219355Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1364369KNKRQR
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_013610601.1
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_013610601.10.0PREDICTED: LOW QUALITY PROTEIN: putative auxin response factor 21
SwissprotQ9C8N90.0ARFU_ARATH; Putative auxin response factor 21
TrEMBLA0A3N6SRX20.0A0A3N6SRX2_BRACR; 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