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_013629482.1
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: 849aa    MW: 93716.2 Da    PI: 6.5734
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013629482.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.18.2e-24129230199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d++ ++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   +++
  XP_013629482.1 129 FCKTLTASDTSTHGGFSVPRRAAEKVfppldytQQPPAQ--ELMARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--WND 219
                     99*****************************96555555..8************************************************..788 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     + +l+++++r+
  XP_013629482.1 220 KNQLLLGIRRA 230
                     88899999986 PP
2Auxin_resp118.26.6e-39255338183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     aahaast+s F+++YnPras+seFv++++k++ka++ ++vsvGmRf+m fete+ss rr++Gt++g+ dldp rW nS+Wrs+k
  XP_013629482.1 255 AAHAASTNSRFTIFYNPRASPSEFVIPLAKYVKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGICDLDPARWANSHWRSVK 338
                     79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.19E-48114258IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.7E-41122244IPR015300DNA-binding pseudobarrel domain
CDDcd100179.30E-21128229No hitNo description
SMARTSM010194.9E-23129231IPR003340B3 DNA binding domain
PROSITE profilePS5086312.266129231IPR003340B3 DNA binding domain
PfamPF023621.1E-21129230IPR003340B3 DNA binding domain
PfamPF065077.8E-34255338IPR010525Auxin response factor
SuperFamilySSF542772.55E-7704785No hitNo description
PROSITE profilePS5174523.837710794IPR000270PB1 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: 849 aa     Download sequence    Send to blast
MRLSSAGFNP HPHEVTGEKR VLNSELWHAC AGPLVSLPPL GSRVVYFPQG HSEQVAASTN  60
KEVDAHTPNY PSLQPQLICQ LHNVTMHADV ETDEVYAQMT LQPLNGQEQK YPYLAAELGV  120
PSRQPTNYFC KTLTASDTST HGGFSVPRRA AEKVFPPLDY TQQPPAQELM ARDLHDNEWK  180
FRHIFRGQPK RHLLTTGWSV FVSAKRLVAG DSVLFIWNDK NQLLLGIRRA HRPQTVMPSS  240
VLSSDSMHLG LLAAAAHAAS TNSRFTIFYN PRASPSEFVI PLAKYVKAVY HTRVSVGMRF  300
RMLFETEESS VRRYMGTITG ICDLDPARWA NSHWRSVKVG WDESTAGDRQ PRVSLWEIEP  360
LTTFPMYPSP FPLRLKRPWP SVLPSFHGLK EDDMGMGMGM SSPLMWDRGL QPMNFQGMGV  420
NPWMQPRPLD ASGLLGMQND AYQAMAAAAL QDMRGIDPAK AAASLLQFQN PSGFSVQPPS  480
LVQPQMLQQQ LTQQHQQQLS QQQVVDNHNL SASSAAMSQS NTSLLQSMTP LCHQQSFSDT  540
NGGNNPITQL HTLLSNFPQD ESSQLLNLTR TNSAMTSSGW PSKRPAIDSS FQHSTAVNNN  600
QSVMEQLGQS HTSNVSPNAV SLPPFPSGQE ENPSDPHSHL LFGVNIDSSS LLIPNGMSNL  660
RSIGIEGGDS TTLPFTSSTF NNEFSGTMTT PSSCIEEPGF LQPSENQQSN TFVKVHKSGS  720
FGRSLDITKF SSYNELRSEL ARMFGLEGQL EDPVRSGWQL VFVDRENDVL LLGDDPWPEF  780
VSSVWCIKIL SPQEVQQMGK RGLELLNSAP SSNNVDKVPS NGNCDDLGNR SDPRSLGNGI  840
ASVGGSFNY
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1591835947388Auxin response factor 5
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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).
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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_013629482.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794680.0JN979468.1 Brassica rapa subsp. pekinensis auxin response factor 6 (ARF6) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013629482.10.0PREDICTED: auxin response factor 6-like isoform X1
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A0D3BJ390.0A0A0D3BJ39_BRAOL; Auxin response factor
STRINGBo3g148950.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM13442894
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.20.0auxin response factor 6
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]