PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_015895934.1
Organism
Ziziphus jujuba
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rhamnaceae; Paliureae; Ziziphus
Family ARF
Protein Properties Length: 820aa    MW: 92131.8 Da    PI: 7.315
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_015895934.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.11.7e-23139240199
                     EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                     f+k+lt sd++++g +++ k++a+e+     ++k++ s++l+ +d++g++W++++i+r++++r++l++GW+ Fv++++L +gD ++F   + +++
  XP_015895934.1 139 FCKTLTASDTSTHGGFSVLKRHADEClpqldMSKQPPSQELVARDLHGNRWRFRHIFRGHPKRHLLQSGWSLFVSSKKLVAGDAFIFL--RGETG 231
                     99****************************955556678*************************************************..34899 PP

                     ..EEEEE-S CS
              B3  91 elvvkvfrk 99 
                      l+v+v+r+
  XP_015895934.1 232 DLRVGVRRA 240
                     99****996 PP
2Auxin_resp116.62.1e-38265347183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     a+ha+st+++F+v+Y+Pr+s++eF+v+++++++++k+++ +GmRfkm+fe+e+++e+r+sGtv+gv+d+d vrWp+S+Wr+Lk
  XP_015895934.1 265 AWHAVSTGTMFTVYYKPRTSPAEFIVPFDEYMESVKNSYPIGMRFKMRFEGEEAPEQRFSGTVIGVEDSDHVRWPGSQWRCLK 347
                     89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.3E-39132254IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.96E-39133268IPR015300DNA-binding pseudobarrel domain
CDDcd100173.85E-20137239No hitNo description
PfamPF023624.5E-21139240IPR003340B3 DNA binding domain
SMARTSM010192.5E-20139241IPR003340B3 DNA binding domain
PROSITE profilePS5086311.674139241IPR003340B3 DNA binding domain
PfamPF065078.2E-36265347IPR010525Auxin response factor
SuperFamilySSF542779.81E-11694773No hitNo description
PROSITE profilePS5174519.98696789IPR000270PB1 domain
PfamPF023092.1E-8698777IPR033389AUX/IAA 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: 820 aa     Download sequence    Send to blast
MEYNTVNHTD ARDGVLRASS AFPLADHDDA LYKELWHACA GPLVTVPRQG QLVFYFPQGH  60
IEQVEASTNQ VVDQQMPAYD PPTKILCRVI NVHLKAEPDT DEVYAQVILL PEPKQDEKSV  120
VKEALLPSPP PPRPRVHSFC KTLTASDTST HGGFSVLKRH ADECLPQLDM SKQPPSQELV  180
ARDLHGNRWR FRHIFRGHPK RHLLQSGWSL FVSSKKLVAG DAFIFLRGET GDLRVGVRRA  240
MRQFSNVPSS VISSHSMHIG VLATAWHAVS TGTMFTVYYK PRTSPAEFIV PFDEYMESVK  300
NSYPIGMRFK MRFEGEEAPE QRFSGTVIGV EDSDHVRWPG SQWRCLKVHW DETSPVHRPE  360
KISPWKVEPA LAHAPNSLLV SQMKRPRVNI SSSSNSSRHA TEGSSKINRE TTAQNQVSRA  420
LQGQEIRTLR RTFANNENSD TAQNLTVWAS SQGTDQTGTP FGKRIFGPED RVTQVRFGMP  480
CTNQSSHSRA AQESFRVGWP LVDRNPVNAN QFWKQGSGQE KIFHLSSSPV SMMRLIPSSD  540
LTESSSIKLP VAEVNDSDGM HEHEVKQQPG HWLLPRSSAE NSCHPMSLNL ENLHRQHDEK  600
AKGNGNCKLF GISLVSNPAV TNLDVLHTNS KHRPQGQIDV ASEHYQDMES ERLLEHEKCS  660
KFAVTATGGS ERQKPFPVSK QFSVDIPVKL PGGSTRRSIK VHKQGATLGR SVDLSKFNGY  720
DEMIAELDQI FEFNGELSSP EKKWMVVFTD DEGDMMLVGD DPWQEFRHIV RKICIYTPKE  780
VKKMDLQTSN KKLEEISAMA DQNMGSEEDQ ILDHPSAASP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-169193697354Auxin response factor 1
4ldw_A1e-169193697354Auxin response factor 1
4ldw_B1e-169193697354Auxin response factor 1
4ldx_A1e-169193697354Auxin response factor 1
4ldx_B1e-169193697354Auxin 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) (By similarity). Could act as transcriptional activator or repressor (PubMed:26959229, PubMed:26716451, PubMed:27645097, PubMed:28167023). Involved in the control of fruit ripening process (PubMed:26959229, PubMed:26716451, PubMed:28167023). Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26959229, PubMed:26716451). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). Regulates vegetative growth, lateral root formation and flower organ senescence, possibly partially by regulating gene expression of auxin and ethylene response factor (ERF) genes (PubMed:28167023). Plays a negative role in axillary shoot meristem formation (PubMed:27645097). {ECO:0000255|RuleBase:RU004561, ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229, ECO:0000269|PubMed:27645097, ECO:0000269|PubMed:28167023}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_015895934.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By tomato fruit ripening. Expression in tomato fruits is up-regulated by exogenous application of ethylene and down-regulated by inhibition of ethylene receptors with 1-methylcyclopropene (1-MCP) (PubMed:26959229, PubMed:26716451). Up-regulated by plant hormone abscisic acid (ABA) in tomato fruits (PubMed:26959229). Expression is not up-regulated by plant hormone auxin in tomato fruits (PubMed:26716451). Up-regulated by auxin and gibberellic acid (GA), and down-regulated by ethylene in seedlings (PubMed:28167023). Down-regulated during decapitation-induced axillary shoot development and by excision of immature leaves. Down-regulation is inhibited by the application of auxin on the cut surface (PubMed:27645097). {ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229, ECO:0000269|PubMed:27645097, ECO:0000269|PubMed:28167023}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015895934.10.0auxin response factor 2A-like
SwissprotQ2LAJ30.0ARF2A_SOLLC; Auxin response factor 2A
TrEMBLA0A2P5F1Y50.0A0A2P5F1Y5_TREOI; Auxin response factor
STRINGXP_010100039.10.0(Morus notabilis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF32813366
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
Publications ? help Back to Top
  1. Tomato Genome Consortium
    The tomato genome sequence provides insights into fleshy fruit evolution.
    Nature, 2012. 485(7400): p. 635-41
    [PMID:22660326]
  2. Breitel DA, et al.
    AUXIN RESPONSE FACTOR 2 Intersects Hormonal Signals in the Regulation of Tomato Fruit Ripening.
    PLoS Genet., 2016. 12(3): p. e1005903
    [PMID:26959229]
  3. Xu T, et al.
    SlARF2a plays a negative role in mediating axillary shoot formation.
    Sci Rep, 2016. 6: p. 33728
    [PMID:27645097]
  4. Ren Z,Liu R,Gu W,Dong X
    The Solanum lycopersicum auxin response factor SlARF2 participates in regulating lateral root formation and flower organ senescence.
    Plant Sci., 2017. 256: p. 103-111
    [PMID:28167023]