PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_00897.1_g00011.1
Organism
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: 632aa    MW: 70011.5 Da    PI: 8.4532
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00897.1_g00011.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.61.3e-24116217199
                              EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-E CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDf 79 
                              f k+lt+sd+++ g +++p+ +ae++        +++ +  t+  +d +g +W++++iyr++++r++lt+GW++Fv++++L +gD+
  Rsa1.0_00897.1_g00011.1 116 FAKTLTQSDANNGGGFSVPRYCAETIfprldynAEPPVQ--TILAKDVHGDVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDS 199
                              89****************************985444444..8999***************************************** PP

                              EEEEE-SSSEE..EEEEE-S CS
                       B3  80 vvFkldgrsefelvvkvfrk 99 
                              +vF+  + +++ l+v+++r+
  Rsa1.0_00897.1_g00011.1 200 IVFM--RAESGDLCVGIRRA 217
                              ****..4489999*****97 PP

2Auxin_resp111.86.5e-37271353283
               Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                              a  a ++ +FevvY+Pras+seF+vk+ + ++a++++++ GmRfkmafetedss++++ +Gtv++vs +dp+rWpnS+Wr+L+
  Rsa1.0_00897.1_g00011.1 271 AALAVSGRAFEVVYYPRASSSEFCVKALDARAAMRIPWCSGMRFKMAFETEDSSRISWfMGTVSAVSVSDPIRWPNSPWRLLQ 353
                              66788999*************************************************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.9E-39106221IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.83E-29111219IPR015300DNA-binding pseudobarrel domain
CDDcd100171.58E-21114216No hitNo description
PROSITE profilePS5086313.267116218IPR003340B3 DNA binding domain
SMARTSM010191.7E-22116218IPR003340B3 DNA binding domain
PfamPF023621.5E-22116217IPR003340B3 DNA binding domain
PfamPF065075.1E-31270353IPR010525Auxin response factor
PROSITE profilePS5174518.289546626IPR000270PB1 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: 632 aa     Download sequence    Send to blast
MNPMRSGSEK GLDPQLWHAC AGGMVRMPPM NSKVFYFPQG HAENAYDRVD FKNLPLPPMV  60
LCRVLAIKYM ADPESDEVFA KLRLIPLKDD NFVDHDGRQD SSGFSESNSS EKTPSFAKTL  120
TQSDANNGGG FSVPRYCAET IFPRLDYNAE PPVQTILAKD VHGDVWKFRH IYRGTPRRHL  180
LTTGWSNFVN QKKLVAGDSI VFMRAESGDL CVGIRRAKRG GIGGNGPEYS AGWNPIGGSC  240
GGYSSLLRDD SNCSLADRKG KVTAESVVEA AALAVSGRAF EVVYYPRASS SEFCVKALDA  300
RAAMRIPWCS GMRFKMAFET EDSSRISWFM GTVSAVSVSD PIRWPNSPWR LLQVAWDEPD  360
LLQNVKRVNP WLVELVSNVH PMPLPSFSPP RKKMRLPQHQ DYSTRISVPS FPSNPLIRSS  420
NPLSSVLDNV PVGLQGARHN AHQYYGLSSS DLHHYYLNRP PPPPPSSTPP PLGFRNIDSK  480
NEKGFCFLTM GTSPGSDTES KKSHIVLFGK LILPEEQKGS KDVEKTQIPP VCSDKAHEAL  540
GLGLETRHCK VFMESDDVGR TLDLSVLGSY EELSRKLSDM FGIQKSEMLS SVHYRDASGA  600
IKYPGKEPFS EFLKTARRLT ILTEQGSESV VV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A2e-76537443388Auxin response factor 5
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_00897.1_g00011.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJN9794770.0JN979477.1 Brassica rapa subsp. pekinensis auxin response factor 16-1 (ARF16-1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018470497.10.0PREDICTED: auxin response factor 16-like
SwissprotQ93YR90.0ARFP_ARATH; Auxin response factor 16
TrEMBLA0A398AJP50.0A0A398AJP5_BRACM; Auxin response factor
STRINGBra011162.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58027130
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin response factor 16
Publications ? help Back to Top
  1. Yang ZB, et al.
    TAA1-regulated local auxin biosynthesis in the root-apex transition zone mediates the aluminum-induced inhibition of root growth in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2889-904
    [PMID:25052716]
  2. Bennett T,van den Toorn A,Willemsen V,Scheres B
    Precise control of plant stem cell activity through parallel regulatory inputs.
    Development, 2014. 141(21): p. 4055-64
    [PMID:25256342]
  3. Zhang GZ, et al.
    Ectopic expression of UGT75D1, a glycosyltransferase preferring indole-3-butyric acid, modulates cotyledon development and stress tolerance in seed germination of Arabidopsis thaliana.
    Plant Mol. Biol., 2016. 90(1-2): p. 77-93
    [PMID:26496910]
  4. Ye Y, et al.
    Germostatin resistance locus 1 encodes a PHD finger protein involved in auxin-mediated seed dormancy and germination.
    Plant J., 2016. 85(1): p. 3-15
    [PMID:26611158]
  5. Liu Z, et al.
    Repression of callus initiation by the miRNA-directed interaction of auxin-cytokinin in Arabidopsis thaliana.
    Plant J., 2016. 87(4): p. 391-402
    [PMID:27189514]
  6. 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]
  7. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  8. Lin JS, et al.
    MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 68
    [PMID:29449855]