PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_004499259.2
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Cicereae; Cicer
Family ARF
Protein Properties Length: 777aa    MW: 87159.7 Da    PI: 6.6045
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_004499259.2genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B370.12.8e-22435535197
                     EEEE-..-HHHHT.T-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlks.grlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f+k+lt sd++k+ g lv+p + +++         +++  +tl+++d++g+sW++ + yr++++r+vl+k+W++Fvk+++Lk+gD+v+F +  ++
  XP_004499259.2 435 FCKTLTASDTSKRsGSLVVPQTATKDLfppldyTVQPTI-QTLIFRDLHGNSWKFHHVYRGSPKRHVLGKCWSDFVKSKRLKAGDSVIFIR--DE 526
                     99********999788999*9999888****97555555.59************************************************4..56 PP

                     EE..EEEEE CS
              B3  89 efelvvkvf 97 
                     + +l+v+v+
  XP_004499259.2 527 KSQLLVRVR 535
                     666799887 PP

2Auxin_resp94.31.9e-31203285283
      Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       aa+++s+++vvYnPra+tseFv+++ k++kal+  ++s+G Rf m+fete++ +rr+ Gt+vg+sdldp+ Wp+SkW++++
  XP_004499259.2 203 LAAAANRSPWTVVYNPRACTSEFVIPLVKYNKALRtPELSIGLRFGMMFETEEFGTRRYLGTIVGISDLDPLMWPDSKWKNIQ 285
                     57899******************************5579*****************************************976 PP

3Auxin_resp63.86.2e-22559624266
      Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgv 66 
                       aa+++s+++vvYnPra+tseFv+++ k++kal+  ++s+G Rf m+fete++ +rr+ Gt+v  
  XP_004499259.2 559 LAAAANRSPWTVVYNPRACTSEFVIPLVKYNKALRtPELSIGLRFGMMFETEEFGTRRYLGTIVVE 624
                     57899******************************5579***********************9865 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019366.28E-7116157IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.5E-5122175IPR015300DNA-binding pseudobarrel domain
PfamPF065071.1E-26204285IPR010525Auxin response factor
Gene3DG3DSA:2.40.330.109.9E-34430547IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.09E-27432539IPR015300DNA-binding pseudobarrel domain
CDDcd100171.43E-19433535No hitNo description
PfamPF023621.8E-19435535IPR003340B3 DNA binding domain
SMARTSM010191.9E-20435538IPR003340B3 DNA binding domain
PROSITE profilePS5086312.139436538IPR003340B3 DNA binding domain
PfamPF065071.1E-17560626IPR010525Auxin response factor
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
Sequence ? help Back to Top
Protein Sequence    Length: 777 aa     Download sequence    Send to blast
MKDGRHIGKG NCSNDTMVTE TLNSELWHAC AGPLVSLPHV DSPVYYFPQG QIEQGAAPTT  60
RIPNYPNLPS QLLCQVQNLT LHADKETEEI YAQMTLQPLH HDVFIEVNNL SPLPSVGLKA  120
NASKHLFCKT LTASDTSKRS GSLVVPQTAT KDLFPPLIYD GLSEITKTKQ HFEVWVGVRY  180
ADSQHSSHPS SILFADNMHI DVLAAAANRS PWTVVYNPRA CTSEFVIPLV KYNKALRTPE  240
LSIGLRFGMM FETEEFGTRR YLGTIVGISD LDPLMWPDSK WKNIQVEWDQ PGCGEKPNRV  300
SLWDILLLSQ SLTSCSQRPL QSGLSVTETL NSELWHACAG PLVSLPHVDS PVYYFPQGQI  360
EQGAAPTTRI PNYPNLPSQL LCQVQNLTLH ADKETEEIYA QMTLQPLHHD VFIEVNNLSP  420
LPSVGLKANA SKHLFCKTLT ASDTSKRSGS LVVPQTATKD LFPPLDYTVQ PTIQTLIFRD  480
LHGNSWKFHH VYRGSPKRHV LGKCWSDFVK SKRLKAGDSV IFIRDEKSQL LVRVRYADSQ  540
HSSHPSSILF ADNMHIDVLA AAANRSPWTV VYNPRACTSE FVIPLVKYNK ALRTPELSIG  600
LRFGMMFETE EFGTRRYLGT IVVELDVKER TNNDIGGVET LCSPLYQPEL LEGVRACVQA  660
IFEYKYSILQ PKNCKSERKT KNKRQLNMSS KNKDSGSKYD ESDTEYNRIL DLAILKGICR  720
DECYDFGRDN VESDSDDEII NNEENKEIVN LSNEDDNKKD DGTTKNGSKA VSTTSDH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1202262251387Auxin 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). Seems to act as transcriptional activator. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Mediates embryo axis formation and vascular tissues differentiation. Functionally redundant with ARF7. May be necessary to counteract AMP1 activity. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:14973283, ECO:0000269|PubMed:17553903}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_004499259.2
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_027189433.10.0auxin response factor 5-like
SwissprotP930241e-115ARFE_ARATH; Auxin response factor 5
TrEMBLA0A3Q7XQ200.0A0A3Q7XQ20_CICAR; Auxin response factor
STRINGXP_004499259.10.0(Cicer arietinum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19850.11e-117ARF family protein
Publications ? help Back to Top
  1. Chen MK,Wilson RL,Palme K,Ditengou FA,Shpak ED
    ERECTA family genes regulate auxin transport in the shoot apical meristem and forming leaf primordia.
    Plant Physiol., 2013. 162(4): p. 1978-91
    [PMID:23821653]
  2. Huang JB, et al.
    ROP3 GTPase contributes to polar auxin transport and auxin responses and is important for embryogenesis and seedling growth in Arabidopsis.
    Plant Cell, 2014. 26(9): p. 3501-18
    [PMID:25217509]
  3. Qi J, et al.
    Auxin depletion from leaf primordia contributes to organ patterning.
    Proc. Natl. Acad. Sci. U.S.A., 2014. 111(52): p. 18769-74
    [PMID:25512543]
  4. Crawford BC, et al.
    Plant development. Genetic control of distal stem cell fate within root and embryonic meristems.
    Science, 2015. 347(6222): p. 655-9
    [PMID:25612610]
  5. Zhang Y, et al.
    Regulation of oncogene expression in T-DNA-transformed host plant cells.
    PLoS Pathog., 2015. 11(1): p. e1004620
    [PMID:25615824]
  6. Robert HS, et al.
    Plant embryogenesis requires AUX/LAX-mediated auxin influx.
    Development, 2015. 142(4): p. 702-11
    [PMID:25617434]
  7. Krogan NT,Berleth T
    The identification and characterization of specific ARF-Aux/IAA regulatory modules in plant growth and development.
    Plant Signal Behav, 2015. 10(4): p. e992748
    [PMID:25830553]
  8. Ckurshumova W,Berleth T
    Overcoming recalcitrance - Auxin response factor functions in plant regeneration.
    Plant Signal Behav, 2015. 10(7): p. e993293
    [PMID:26098229]
  9. Wendrich JR, et al.
    A set of domain-specific markers in the Arabidopsis embryo.
    Plant Reprod, 2015. 28(3-4): p. 153-60
    [PMID:26216537]
  10. Wu MF, et al.
    Auxin-regulated chromatin switch directs acquisition of flower primordium founder fate.
    Elife, 2015. 4: p. e09269
    [PMID:26460543]
  11. Yamaguchi N,Jeong CW,Nole-Wilson S,Krizek BA,Wagner D
    AINTEGUMENTA and AINTEGUMENTA-LIKE6/PLETHORA3 Induce LEAFY Expression in Response to Auxin to Promote the Onset of Flower Formation in Arabidopsis.
    Plant Physiol., 2016. 170(1): p. 283-93
    [PMID:26537561]
  12. Müller CJ, et al.
    PHABULOSA Mediates an Auxin Signaling Loop to Regulate Vascular Patterning in Arabidopsis.
    Plant Physiol., 2016. 170(2): p. 956-70
    [PMID:26637548]
  13. Herud O,Weijers D,Lau S,Jürgens G
    Auxin responsiveness of the MONOPTEROS-BODENLOS module in primary root initiation critically depends on the nuclear import kinetics of the Aux/IAA inhibitor BODENLOS.
    Plant J., 2016. 85(2): p. 269-77
    [PMID:26714008]
  14. Luo S, et al.
    Constitutive Expression of OsIAA9 Affects Starch Granules Accumulation and Root Gravitropic Response in Arabidopsis.
    Front Plant Sci, 2015. 6: p. 1156
    [PMID:26734051]
  15. Yamaguchi N,Wu MF,Winter CM,Wagner D
    LEAFY and Polar Auxin Transport Coordinately Regulate Arabidopsis Flower Development.
    Plants (Basel), 2014. 3(2): p. 251-65
    [PMID:27135503]
  16. Krogan NT,Marcos D,Weiner AI,Berleth T
    The auxin response factor MONOPTEROS controls meristem function and organogenesis in both the shoot and root through the direct regulation of PIN genes.
    New Phytol., 2016. 212(1): p. 42-50
    [PMID:27441727]
  17. Fendrych M,Leung J,Friml J
    TIR1/AFB-Aux/IAA auxin perception mediates rapid cell wall acidification and growth of Arabidopsis hypocotyls.
    Elife, 2018.
    [PMID:27627746]
  18. Matthes M,Torres-Ruiz RA
    Boronic acid treatment phenocopies monopteros by affecting PIN1 membrane stability and polar auxin transport in Arabidopsis thaliana embryos.
    Development, 2016. 143(21): p. 4053-4062
    [PMID:27697905]
  19. Bhatia N, et al.
    Auxin Acts through MONOPTEROS to Regulate Plant Cell Polarity and Pattern Phyllotaxis.
    Curr. Biol., 2016. 26(23): p. 3202-3208
    [PMID:27818174]
  20. 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]
  21. Möller BK, et al.
    Auxin response cell-autonomously controls ground tissue initiation in the early Arabidopsis embryo.
    Proc. Natl. Acad. Sci. U.S.A., 2017. 114(12): p. E2533-E2539
    [PMID:28265057]
  22. Carey NS,Krogan NT
    The role of AUXIN RESPONSE FACTORs in the development and differential growth of inflorescence stems.
    Plant Signal Behav, 2017. 12(4): p. e1307492
    [PMID:28340328]
  23. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  24. Gaillochet C, et al.
    Control of plant cell fate transitions by transcriptional and hormonal signals.
    Elife, 2018.
    [PMID:29058667]
  25. Zheng K, et al.
    Involvement of PACLOBUTRAZOL RESISTANCE6/KIDARI, an Atypical bHLH Transcription Factor, in Auxin Responses in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 1813
    [PMID:29114256]
  26. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]