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 PDK_30s838891g001
Organism
Phoenix dactylifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Arecales; Arecaceae; Coryphoideae; Phoeniceae; Phoenix
Family ARF
Protein Properties Length: 805aa    MW: 90323.8 Da    PI: 6.9519
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PDK_30s838891g001genomePDKView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B369.83.7e-22106207199
                        EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                 B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                        f+k+lt sd++++g +++ +++a+e+       +++++ ++l  +d++g +W++++i+r++++r++l++GW+ Fv++++L +gD ++F   +
  PDK_30s838891g001 106 FCKTLTASDTSTHGGFSVLRRHADEClppldmRLQPPT-QELLAKDLHGVEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--R 194
                        99*****************************9677666.49************************************************..4 PP

                        SSEE..EEEEE-S CS
                 B3  87 rsefelvvkvfrk 99 
                         + +el+v+v+r+
  PDK_30s838891g001 195 GEYGELRVGVRRA 207
                        499999****996 PP
2Auxin_resp118.55.6e-39232314183
         Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                        a+ha++t+++F+v+Y+Pr+s+seF++++++++++lk+ +s+GmRfkm+fe+e+++e+r++Gt+vg+ d+d+++Wp+SkWr+Lk
  PDK_30s838891g001 232 AWHAVTTGTMFTVYYKPRTSPSEFIIPYDQYMESLKNIYSIGMRFKMRFEGEEAPEQRFTGTIVGIGDVDSSSWPGSKWRCLK 314
                        89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.85E-4099235IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.5E-4099221IPR015300DNA-binding pseudobarrel domain
CDDcd100174.51E-20104206No hitNo description
PROSITE profilePS5086311.307106208IPR003340B3 DNA binding domain
SMARTSM010191.5E-21106208IPR003340B3 DNA binding domain
PfamPF023624.2E-20106207IPR003340B3 DNA binding domain
PfamPF065071.5E-36232314IPR010525Auxin response factor
PfamPF023091.1E-10657767IPR033389AUX/IAA domain
PROSITE profilePS5174525.592679761IPR000270PB1 domain
SuperFamilySSF542773.88E-12681756No 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: 805 aa     Download sequence    Send to blast
MASMEVTRGN GNAEDALYTE LWLACAGPLV TIPRETERVF YFPQGHLEQV EASTNQLADK  60
QMKIYDLPPK ILCRVINVLP EANQDENAVE KETLPPPPPR PHVHSFCKTL TASDTSTHGG  120
FSVLRRHADE CLPPLDMRLQ PPTQELLAKD LHGVEWRFRH IFRGQPRRHL LQSGWSVFVS  180
SKRLVAGDAF IFLRGEYGEL RVGVRRAMRQ QANVPSSVIS SHSMHLGVLA TAWHAVTTGT  240
MFTVYYKPRT SPSEFIIPYD QYMESLKNIY SIGMRFKMRF EGEEAPEQRF TGTIVGIGDV  300
DSSSWPGSKW RCLKVRWDET SFVPRPERVS PWNIEPALAP PLNPLPTPRT KRPRPNAMPS  360
SPDSSVLTKE GANKVTADPS QVHGVPRVLQ GQENMTLRSN LSDSNDSDTV QKPLMWPSSL  420
DEDKNDGSYQ RRLGSDNWMQ INRHEPTYKD MLSGFRPFGD MRGCGKHFIE QMSTGTNRLK  480
NYFQDQEGNV NLLLDQYSLM PSNPTFNMES TLRMPTHSGD LPYQKAQNVT YGGLEDYCLV  540
QGRRVEQNLP NWPAHLQSTS QSENFARQRV VKPQPSVAAQ NEITRPKESG NCKLFGFHLN  600
STSAPSDHPN ATNDSVSHTQ PTVAQNQSQA LEGDRHSKLP SGTKLVTTAP AATEHEMYHQ  660
HCPQTAKEVQ SKLQGGSSRS CTKVHKQGIA LGRSVDLAKF NCYDELIAEL DQMFEFEGEL  720
MAPNKNWLIV YTDDEGDMML VGDDPWLEFC SMARKIYIYT RDEVQNMNPG TLNPRVEGIA  780
TVMGGNTAAK GKKDPLPAST ANPEN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1581133613354Auxin response factor 1
4ldw_A1e-1581133613354Auxin response factor 1
4ldw_B1e-1581133613354Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1350354KRPRP
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}.
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_008776920.10.0auxin response factor 2A-like
RefseqXP_008776927.10.0auxin response factor 2A-like
SwissprotQ2LAJ30.0ARF2A_SOLLC; Auxin response factor 2A
TrEMBLA0A2H3X1J80.0A0A2H3X1J8_PHODC; Auxin response factor
STRINGXP_008776920.10.0(Phoenix dactylifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP117836111
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]