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_010539862.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Cleomaceae; Tarenaya
Family ARF
Protein Properties Length: 866aa    MW: 95556.5 Da    PI: 6.158
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_010539862.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.72.5e-24153254199
                     EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                     f+k+lt sd++++g +++p++ ae+       + ++++ ++l+++d++  +W++++iyr++++r++lt+GW+ Fv +++L++gD+v+F   ++++
  XP_010539862.1 153 FCKTLTASDTSTHGGFSVPRRAAEKLfppldyNAQPPT-QELVVRDLHDHTWTFRHIYRGQPKRHLLTTGWSLFVGSKRLRAGDSVLFI--RDEK 244
                     99*********************999****99445444.49************************************************..4577 PP

                     E..EEEEE-S CS
              B3  90 felvvkvfrk 99 
                      +l+v+v+r+
  XP_010539862.1 245 SQLMVGVRRA 254
                     778*****97 PP

2Auxin_resp112.15.2e-37279362183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     aaha++++++F+++YnPra++seFv++++k++ka+  +++svGmRf m+fet++s +rr++Gt++g+sdldp+rWp+SkWr+L+
  XP_010539862.1 279 AAHATANRTPFTIFYNPRACPSEFVIPLSKYRKAICgSQLSVGMRFGMMFETDESGKRRYMGTIIGISDLDPLRWPGSKWRNLQ 362
                     79********************************9989********************************************97 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.66E-46140282IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.9E-43146267IPR015300DNA-binding pseudobarrel domain
CDDcd100172.44E-23152253No hitNo description
PROSITE profilePS5086313.281153255IPR003340B3 DNA binding domain
PfamPF023628.4E-22153254IPR003340B3 DNA binding domain
SMARTSM010194.3E-25153255IPR003340B3 DNA binding domain
PfamPF065072.7E-32279362IPR010525Auxin response factor
PfamPF023099.3E-10752843IPR033389AUX/IAA domain
PROSITE profilePS5174524.519757841IPR000270PB1 domain
SuperFamilySSF542772.65E-7770836No 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: 866 aa     Download sequence    Send to blast
MACVEDTIKT NNGLGNGGAT TQQTTLLEEM KLLKEMQDQS GTRKAVINSE LWHACAGPLV  60
SLPQVGSLVY YFPQGHSEQV AVSTRRSATT QVPNYPNLPS QLMCQVHNVT LHADKDTDEI  120
YAQMSLQPVH SERDVFPVPD FGLRTSKHPN EFFCKTLTAS DTSTHGGFSV PRRAAEKLFP  180
PLDYNAQPPT QELVVRDLHD HTWTFRHIYR GQPKRHLLTT GWSLFVGSKR LRAGDSVLFI  240
RDEKSQLMVG VRRANRQQTA LPSSVLSADS MHIGVLAAAA HATANRTPFT IFYNPRACPS  300
EFVIPLSKYR KAICGSQLSV GMRFGMMFET DESGKRRYMG TIIGISDLDP LRWPGSKWRN  360
LQVEWDESGC NDKPTRVSAW DIETPESLFF FPSLTSGLKR QFHPSFLAGE TEWGSLIKRP  420
LIRVSDAANG FLHMPGFGSD QLMNPNAAFM SSMHQQNAVI GHGAMQPVMN QKPEIVQSEN  480
KLPVNTSASQ QSLTRNMSAS GKHGKQMPST LGKGKQEPGQ SMEQASQVTS VIGCDEDKAN  540
RLSQRPDLHP LQADPCSEIS QQIYTPQSEP ISFNGLSPLL EADELTSQMS PFQSLGVTYR  600
PPLQDSSQAI LPDSTNPSLF HDIWDHNQLN SFKFDQFSPL MQQDLFACRN IGMSNSANSN  660
ILDPSLSDAV LDDFCAIKEA DFQNPSGCLV GNTNSVQDVQ SQITSASFAD SQAFSRQDFP  720
DTSGGTGTSS SNVDFDESSL LQNSKSSWPK VAAPRVRTYT KVQKAGSVGR SIDVTSFRNY  780
EELKSAIECM FGLEGLLTDP KGSGWKLVYV DYESDVLLVG DDPWEEFVGC VRCIRILSPT  840
EVQQMSEEGM KLLNSAGMQG VKASFP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A0.013875392Auxin 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_010539862.1
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_010539862.10.0PREDICTED: auxin response factor 5-like
SwissprotP930240.0ARFE_ARATH; Auxin response factor 5
TrEMBLA0A087H7S50.0A0A087H7S5_ARAAL; Auxin response factor
STRINGXP_010539862.10.0(Tarenaya hassleriana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM58082746
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19850.10.0ARF 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]