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_009149887.1
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: 555aa    MW: 62831.6 Da    PI: 6.791
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009149887.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B368.49.7e-22114213197
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f kvl+ sd++k+g +vl k++a e+        +    s+++  +d +g +W++k+  +++++r+++t+GW+eF+ka++L +gD+++F +   +
  XP_009149887.1 114 FTKVLSASDTSKKGGFVLNKRHAIEClppldmsHLT--PSQEINATDIHGHEWKFKHALKGTPKRHLFTSGWNEFAKAKKLVVGDSFIFLR--GE 204
                     89****************************964444..4569************************************************3..37 PP

                     EE..EEEEE CS
              B3  89 efelvvkvf 97 
                     ++e +v++ 
  XP_009149887.1 205 NGESRVGIK 213
                     777788875 PP
2Auxin_resp60.95.1e-21241312183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     a +a+++k++F v+Y+Pr+  s+Fvv+++k+++ +++k+s+G+Rf m+fe++d++e++        + + p +W++S+Wr+L+
  XP_009149887.1 241 ALNAIKNKCMFVVFYKPRS--SQFVVNIDKFRDGVNKKFSIGSRFLMKFEGKDFNEIS--------ERFLP-HWKDSEWRCLE 312
                     6799**************6..9**********************************99........78889.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.7E-33106226IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.96E-27110213IPR015300DNA-binding pseudobarrel domain
CDDcd100177.36E-20112214No hitNo description
PROSITE profilePS5086312.252114216IPR003340B3 DNA binding domain
PfamPF023625.7E-19114213IPR003340B3 DNA binding domain
SMARTSM010191.7E-20114216IPR003340B3 DNA binding domain
PfamPF065076.6E-17241311IPR010525Auxin response factor
PROSITE profilePS5174518.17444524IPR000270PB1 domain
SuperFamilySSF542776.77E-7448518No hitNo description
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: 555 aa     Download sequence    Send to blast
MASDQIMHVQ PEFLATGGTN NYLYDQLWKL CAGPLFDPPK IGEELVTSIN DELCQLKPVF  60
NIPSKIRCNV FSIKLKVETT TDEIYAEISL LPDTSEVEIP TSKCENNIQN IKCFTKVLSA  120
SDTSKKGGFV LNKRHAIECL PPLDMSHLTP SQEINATDIH GHEWKFKHAL KGTPKRHLFT  180
SGWNEFAKAK KLVVGDSFIF LRGENGESRV GIKKAAHHQQ ENIPSSIISK ESMHHGVVAT  240
ALNAIKNKCM FVVFYKPRSS QFVVNIDKFR DGVNKKFSIG SRFLMKFEGK DFNEISERFL  300
PHWKDSEWRC LEVQWDEAAT IPRPDKVSPW EIEPLTHSSD ILKSGSNMWV PTLTQGQEVG  360
HSSIQSSMSY SFATTMSKPN YNEQMVQAMK ETSTTTATTS YRLFGVDLKV PAKTKDSIEP  420
INSYKKSKIS KIFEEEKVDH IQTRSHTKVR MEGAMERTVD LSIFDGYNQL IDELERLFDI  480
KGKLHIHNQW KIVFINADGD IMLLGDDPWP KFCNTAEEIF ICSKNDAKVG DADNKFSEGD  540
PILTTTNLPP DVNNN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1031733513355Auxin response factor 1
4ldw_A1e-1031733513355Auxin response factor 1
4ldw_B1e-1031733513355Auxin 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_009149887.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794870.0JN979487.1 Brassica rapa subsp. pekinensis auxin response factor 26 (ARF26) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009149887.10.0PREDICTED: auxin response factor 22
SwissprotQ9C8N90.0ARFU_ARATH; Putative auxin response factor 21
TrEMBLH9B4E80.0H9B4E8_BRARP; Auxin response factor
STRINGBra018124.1-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
AT1G35540.10.0auxin response factor 14