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 KHN39439.1
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; Phaseoleae; Glycine; Soja
Family ARF
Protein Properties Length: 868aa    MW: 96627.2 Da    PI: 5.2058
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
KHN39439.1genomeTCUHKView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B331.23.9e-10115186167
                 EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHH CS
          B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWke 67 
                 f+k+lt sd++++g +++p++ ae+        +++++ ++l+++d++ ++W++++iyr+ ++r  l+ G ++
  KHN39439.1 115 FCKTLTASDTSTHGGFSVPRRAAEKLfppldyTIQPPT-QELVVRDLHDNTWTFRHIYRGVDERSQLRVGVRR 186
                 99*********************999*****9555555.49*****************999998888888776 PP

2Auxin_resp114.31.1e-37212295183
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                 aahaa+++s+F+++YnPra++seFv++++k++k++  ++vsvGmRf m+fete+s +rr++Gt+vg+sd+dp+rWp+SkWr+++
  KHN39439.1 212 AAHAAANRSPFTIFYNPRACPSEFVIPLAKYRKSVFgTQVSVGMRFGMMFETEESGKRRYMGTIVGISDVDPLRWPGSKWRNIQ 295
                 79********************************988********************************************986 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.23E-31104215IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.2E-19108186IPR015300DNA-binding pseudobarrel domain
CDDcd100171.96E-10114183No hitNo description
SMARTSM010190.0037115202IPR003340B3 DNA binding domain
PfamPF023625.9E-8115186IPR003340B3 DNA binding domain
PfamPF065071.1E-32212295IPR010525Auxin response factor
PROSITE profilePS5174523.555762846IPR000270PB1 domain
SuperFamilySSF542777.55E-8764841No hitNo description
PfamPF023091.3E-7808849IPR033389AUX/IAA domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 868 aa     Download sequence    Send to blast
MMASMEEKIK IGGGMIVGAQ TLAAEMKLLK EMQEHSGVRK TLNSELWHAC ARPLVSLPQV  60
GSLVFYFPQG HSEQADKETD EIYAQMTLQP LNSEREVFPI SDFGHKHSKH PSEFFCKTLT  120
ASDTSTHGGF SVPRRAAEKL FPPLDYTIQP PTQELVVRDL HDNTWTFRHI YRGVDERSQL  180
RVGVRRVNRQ QTTLPSSVLS ADSMHIGVLA AAAHAAANRS PFTIFYNPRA CPSEFVIPLA  240
KYRKSVFGTQ VSVGMRFGMM FETEESGKRR YMGTIVGISD VDPLRWPGSK WRNIQVEWDE  300
PGCGDKQNRV SVWEIETPES LFIFPSLTSG LKRPLPSGLL ENEWGTLLRR PFIRVPENGT  360
MELSNSIPNL YSEHMMRMLL KPQLINNNGA FLSAMQQESA ATRGPLQEMK TTLAAENQMP  420
LKNLHPHSIP DQPNALNMQS LLKNDQPEKL HPLGKIDNHL SSGIVIDKPK SESEVLPDHV  480
IDYPSMEGCN IEKVAANPVN QQGLANQLPF HNQNQSPLLP QSSPWPMPPQ IESSMPHPQM  540
IDMVQADSAM VNGLFPQLDI NEWMSYASSQ PFAGQNRPTG PLSDLQEHTS LQPQVVNPPL  600
PSMNNEVWDH YVKNLKFLSQ ADQLTSICQP GLYGLNGIPS SNNLRDLSAE SNNQSEICVN  660
VDASNSVGTT VVDPSTSSTI LDEFCTMKDR EFQNPQDCMV GNLSSSQDVQ SQITSASLTE  720
SHAFPLRDIP DNSGGTSSSH VDFDESSFLQ NNSWQQVPAP IRTYTKVQKA GSVGRSIDVT  780
TFKNYEELIR AIECMFGLDG LLNDTKCSGW KLVYVDYESD VLLVGDDPWE EFVGCVRCIR  840
ILSPSEVQQM SEEGMKLLNS GALQGMNV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1612132032392Auxin 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
PlantRegMapKHN39439.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150360.0AP015036.1 Vigna angularis var. angularis DNA, chromosome 3, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_028201013.10.0auxin response factor 5-like
SwissprotP930240.0ARFE_ARATH; Auxin response factor 5
TrEMBLA0A445H8Z30.0A0A445H8Z3_GLYSO; Auxin response factor
STRINGGLYMA14G40540.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF89913241
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. Qi X, et al.
    Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing.
    Nat Commun, 2014. 5: p. 4340
    [PMID:25004933]
  3. 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]
  4. 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]
  5. 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]
  6. Zhang Y, et al.
    Regulation of oncogene expression in T-DNA-transformed host plant cells.
    PLoS Pathog., 2015. 11(1): p. e1004620
    [PMID:25615824]
  7. Robert HS, et al.
    Plant embryogenesis requires AUX/LAX-mediated auxin influx.
    Development, 2015. 142(4): p. 702-11
    [PMID:25617434]
  8. 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]
  9. Ckurshumova W,Berleth T
    Overcoming recalcitrance - Auxin response factor functions in plant regeneration.
    Plant Signal Behav, 2015. 10(7): p. e993293
    [PMID:26098229]
  10. 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]
  11. Wu MF, et al.
    Auxin-regulated chromatin switch directs acquisition of flower primordium founder fate.
    Elife, 2015. 4: p. e09269
    [PMID:26460543]
  12. 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]
  13. 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]
  14. 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]
  15. 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]
  16. 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]
  17. 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]
  18. 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]
  19. 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]
  20. 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]
  21. 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]
  22. 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]
  23. 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]
  24. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  25. Gaillochet C, et al.
    Control of plant cell fate transitions by transcriptional and hormonal signals.
    Elife, 2018.
    [PMID:29058667]
  26. 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]
  27. 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]