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_00201.1_g00041.1
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 B3
Protein Properties Length: 359aa    MW: 40921.5 Da    PI: 7.6848
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00201.1_g00041.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3741.8e-2377178198
                              EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-E CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDf 79 
                              f+k+lt sd++++g +++ +k+a+e+       +   + +++l+ +d++g +W++k+i+r++++r++lt+GW+ Fv +++L +gD 
  Rsa1.0_00201.1_g00041.1  77 FVKILTASDTSTHGGFSVLRKHATEClpsldmtQ--ATPTQELVARDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDA 160
                              89****************************9543..445569******************************************** PP

                              EEEEE-SSSEE..EEEEE- CS
                       B3  80 vvFkldgrsefelvvkvfr 98 
                              +vF + + +++ l+v+v+r
  Rsa1.0_00201.1_g00041.1 161 FVFLRGH-QNGDLRVGVRR 178
                              ****644.88889***998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.31E-3966207IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.105.4E-3771193IPR015300DNA-binding pseudobarrel domain
CDDcd100171.94E-2076178No hitNo description
SMARTSM010196.2E-2077180IPR003340B3 DNA binding domain
PROSITE profilePS5086312.11177180IPR003340B3 DNA binding domain
PfamPF023621.1E-2177178IPR003340B3 DNA binding domain
PfamPF023093.5E-14239332IPR033389AUX/IAA domain
SuperFamilySSF542778.83E-15240324No hitNo description
PROSITE profilePS5174529.103248331IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 359 aa     Download sequence    Send to blast
MANVKNDQLY MELWKACAGP LVEVPRYGER VFYFPQAENE TDEVYAQITL RPEENQSEPT  60
SIDPPPTEPA KQTVDSFVKI LTASDTSTHG GFSVLRKHAT ECLPSLDMTQ ATPTQELVAR  120
DLHGYEWRFK HIFRGQPRRH LLTTGWSTFV TSKRLVAGDA FVFLRGHQNG DLRVGVRRLA  180
KQQSTMPASV ISSQSMHLGV LATASHAFNR CFKIHQVKET RTKRRLHPQV AVDPNSWKDQ  240
KQHTSSTRSR TKVQMQGTAV GRAVDLTLLR SYDELISELE KMFEIEGELR TKDKWTIVFT  300
DDEGDMMLVG DDPWNEFCKM AKKLFIYPSD EVKKMSSKSL SDDEITIINL ESDQRAVKL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A2e-96225712300Auxin response factor 1
4ldw_A2e-96225712300Auxin response factor 1
4ldw_B2e-96225712300Auxin response factor 1
4ldx_A2e-96225712300Auxin response factor 1
4ldx_B2e-96225712300Auxin 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_00201.1_g00041.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794760.0JN979476.1 Brassica rapa subsp. pekinensis auxin response factor 11 (ARF11) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018437895.11e-143PREDICTED: auxin response factor 11
SwissprotQ9ZPY61e-124ARFK_ARATH; Auxin response factor 11
TrEMBLA0A397Z6031e-132A0A397Z603_BRACM; Auxin response factor
TrEMBLH9B4D71e-132H9B4D7_BRARP; Auxin response factor
STRINGBra004530.1-P1e-133(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM2767633
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G46530.11e-127auxin response factor 11
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]