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 Kalax.0164s0056.3.p
Organism
Kalanchoe marnieriana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Saxifragales; Crassulaceae; Kalanchoe
Family ARF
Protein Properties Length: 707aa    MW: 76751 Da    PI: 7.3245
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Kalax.0164s0056.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.55.9e-24171272199
                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                          f+k+lt sd++++g +++p++ ae++       ++ + s++l+ +d++gr+W++++iyr++++r++lt+GW+ Fv+ ++L +gD v+F +
  Kalax.0164s0056.3.p 171 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyTLQRP-SQELVAKDLHGREWKFRHIYRGQPRRHLLTTGWSAFVNRKKLVSGDAVLFLR 259
                          99****************************9955544.569************************************************4 PP

                          -SSSEE..EEEEE-S CS
                   B3  85 dgrsefelvvkvfrk 99 
                              ++ l+++v+r+
  Kalax.0164s0056.3.p 260 G--GDGILRLGVRRA 272
                          3..677778888875 PP
2Auxin_resp104.31.5e-34297378182
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                          +++a+st+svF++ YnPr ++s+F+++ +k+ ++l +k+s GmR+km  eted++err++G v+gvsdldp+ Wp+SkW++L
  Kalax.0164s0056.3.p 297 VINAISTRSVFDISYNPRGTSSDFIIPHSKFTRSLVHKFSCGMRLKMCCETEDAAERRFTGAVTGVSDLDPIGWPGSKWKCL 378
                          5799*****************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.0E-39167274IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.83E-40167280IPR015300DNA-binding pseudobarrel domain
CDDcd100178.10E-23169271No hitNo description
PfamPF023629.3E-22171272IPR003340B3 DNA binding domain
PROSITE profilePS5086313.563171273IPR003340B3 DNA binding domain
SMARTSM010191.0E-23171273IPR003340B3 DNA binding domain
PfamPF065074.8E-29298378IPR010525Auxin 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: 707 aa     Download sequence    Send to blast
MICAVEGLSE ILAMAATGRG LNLFDLNTAE EEDAAAGGSL SPSPSPTSTC SGVVPGSTGC  60
VAPSVCLELW HACVGPLVSL PKKNSLVVYF PQGQLECFGE SPAVICGVPP HVFCRVLDVK  120
LHAEVDSDEV CAQVFLIPVA QEQLPQVDKT EVDGEDDDIN CGSKSMARHM FCKTLTASDT  180
STHGGFSVPR RAAEDCFPPL DYTLQRPSQE LVAKDLHGRE WKFRHIYRGQ PRRHLLTTGW  240
SAFVNRKKLV SGDAVLFLRG GDGILRLGVR RAAQLKEKPP FPPIFREQQS HGSFSAVINA  300
ISTRSVFDIS YNPRGTSSDF IIPHSKFTRS LVHKFSCGMR LKMCCETEDA AERRFTGAVT  360
GVSDLDPIGW PGSKWKCLLV EWDDSENNLH GGRVSPWEVE PAGFVVGCCM PAPSGSKRGR  420
NGLPSTIHNL PIPDGKGLPD FRESLRFQKV LQGQEIMSLK PQNTQNHNLA ESLSCYPGTD  480
SSRIGASGNK ISRPYFGNPD FSFNNKGFGE SQWFQRVLQG QEKTSNMPYG MISCTSSHDE  540
LLGIFNGIAL PNFRRTALLH DSNSQFHAAK SSVPVSSPSS VLMFPQATSL VPNPCRVPGL  600
LEGRGIGNQG QFNQQDFCGH GPRPALSGSQ KLDPSCKNSC RLFGISLTDK EHAPNVADET  660
ILKANQLNTG PAFCITERQF LAQHPTMALG RLQKFDSASD AITYGI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1015940113354Auxin response factor 1
4ldw_A1e-1015940113354Auxin response factor 1
4ldw_B1e-1015940113354Auxin 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).
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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. Involved in the establishment or elaboration of tissue patterning during gynoecial development. {ECO:0000269|PubMed:10952886, ECO:0000269|PubMed:12036261}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under dark condition. {ECO:0000269|PubMed:17408882}.
UniProtINDUCTION: Negatively regulated by AHL21/GIK. {ECO:0000269|PubMed:19956801}.
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_010655464.10.0PREDICTED: auxin response factor 3
RefseqXP_019078171.10.0PREDICTED: auxin response factor 3
SwissprotO236611e-171ARFC_ARATH; Auxin response factor 3
SwissprotQ0JKI91e-171ARFB_ORYSJ; Auxin response factor 2
TrEMBLF6HM450.0F6HM45_VITVI; Auxin response factor
STRINGVIT_10s0003g00420.t010.0(Vitis vinifera)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-173ARF family protein
Publications ? help Back to Top
  1. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]
  2. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  3. Thoma R,Chandler JW
    Polarity in the early floral meristem of Arabidopsis.
    Plant Signal Behav, 2015. 10(4): p. e992733
    [PMID:25806573]
  4. Lora J,Hormaza JI,Herrero M
    Transition from two to one integument in Prunus species: expression pattern of INNER NO OUTER (INO), ABERRANT TESTA SHAPE (ATS) and ETTIN (ETT).
    New Phytol., 2015. 208(2): p. 584-95
    [PMID:25991552]
  5. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  6. Cabrera J, et al.
    Differentially expressed small RNAs in Arabidopsis galls formed by Meloidogyne javanica: a functional role for miR390 and its TAS3-derived tasiRNAs.
    New Phytol., 2016. 209(4): p. 1625-40
    [PMID:26542733]
  7. Husbands AY,Benkovics AH,Nogueira FT,Lodha M,Timmermans MC
    The ASYMMETRIC LEAVES Complex Employs Multiple Modes of Regulation to Affect Adaxial-Abaxial Patterning and Leaf Complexity.
    Plant Cell, 2015. 27(12): p. 3321-35
    [PMID:26589551]
  8. 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]
  9. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  10. Simonini S, et al.
    A noncanonical auxin-sensing mechanism is required for organ morphogenesis in Arabidopsis.
    Genes Dev., 2016. 30(20): p. 2286-2296
    [PMID:27898393]
  11. Pfannebecker KC,Lange M,Rupp O,Becker A
    An Evolutionary Framework for Carpel Developmental Control Genes.
    Mol. Biol. Evol., 2017. 34(2): p. 330-348
    [PMID:28049761]
  12. 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]
  13. Su Z, et al.
    The THO Complex Non-Cell-Autonomously Represses Female Germline Specification through the TAS3-ARF3 Module.
    Curr. Biol., 2017. 27(11): p. 1597-1609.e2
    [PMID:28552357]
  14. Simonini S,Bencivenga S,Trick M,Østergaard L
    Auxin-Induced Modulation of ETTIN Activity Orchestrates Gene Expression in Arabidopsis.
    Plant Cell, 2017. 29(8): p. 1864-1882
    [PMID:28804059]
  15. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  16. Simonini S, et al.
    Corrigendum: A noncanonical auxin-sensing mechanism is required for organ morphogenesis in Arabidopsis.
    Genes Dev., 2017. 31(17): p. 1821
    [PMID:28982764]
  17. Zhang K, et al.
    AUXIN RESPONSE FACTOR3 Regulates Floral Meristem Determinacy by Repressing Cytokinin Biosynthesis and Signaling.
    Plant Cell, 2018. 30(2): p. 324-346
    [PMID:29371438]
  18. Vial-Pradel S, et al.
    Arabidopsis Zinc-Finger-Like Protein ASYMMETRIC LEAVES2 (AS2) and Two Nucleolar Proteins Maintain Gene Body DNA Methylation in the Leaf Polarity Gene ETTIN (ARF3).
    Plant Cell Physiol., 2018. 59(7): p. 1385-1397
    [PMID:29415182]
  19. Simonini S,Stephenson P,Østergaard L
    A molecular framework controlling style morphology in Brassicaceae.
    Development, 2018.
    [PMID:29440299]
  20. Andres-Robin A, et al.
    Evidence for the Regulation of Gynoecium Morphogenesis by ETTIN via Cell Wall Dynamics.
    Plant Physiol., 2018. 178(3): p. 1222-1232
    [PMID:30237208]
  21. Hablak SG
    Features inheritance of root system Arabidopsis thaliana (L.) Heynh. the interaction of genes CTR1 AND ALF3, NPH4 and IAR2.
    Tsitol. Genet., 2019.
    [PMID:30484609]