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 Pp3c14_16990V3.16.p
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Bryophyta; Bryophytina; Bryopsida; Funariidae; Funariales; Funariaceae; Physcomitrella
Family ARF
Protein Properties Length: 951aa    MW: 106139 Da    PI: 8.2868
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pp3c14_16990V3.16.pgenomeCOSMOSSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B379.72.9e-25201302199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++p++ ae+        ++++++  +l+ +d++ ++W +++iyr++++r++lt+GW+ Fv+a++L++gD v+F+
  Pp3c14_16990V3.16.p 201 FCKTLTASDTSTHGGFSIPRRAAEKVfppldyaQIPPAQ--ELKARDLHDQEWHFRHIYRGQPRRHLLTTGWSVFVSAKRLQAGDAVLFT 288
                          99*****************************97766665..8************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++++++l ++++r+
  Pp3c14_16990V3.16.p 289 --RDNKGQLQLGIRRQ 302
                          ..5689999****997 PP

2Auxin_resp115.16e-38329410383
           Auxin_resp   3 haastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                           aa+t+s F+++YnPr+s+seFv++v+k++ka+   +vsvGmRf+m fete+ss rr++Gt++g+ dldp+rWpnS+WrsLk
  Pp3c14_16990V3.16.p 329 YAAATSSRFTIFYNPRQSPSEFVIPVAKYQKAIChLQVSVGMRFRMVFETEESSVRRYMGTITGMGDLDPIRWPNSHWRSLK 410
                          6899****************************9868********************************************96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.97E-47190328IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.2E-42194316IPR015300DNA-binding pseudobarrel domain
CDDcd100171.46E-23200301No hitNo description
SMARTSM010191.6E-23201303IPR003340B3 DNA binding domain
PfamPF023624.3E-23201302IPR003340B3 DNA binding domain
PROSITE profilePS5086313.07201303IPR003340B3 DNA binding domain
PfamPF065071.3E-33329410IPR010525Auxin response factor
PROSITE profilePS5174525.301815908IPR000270PB1 domain
SuperFamilySSF542771.37E-6831894No 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: 951 aa     Download sequence    Send to blast
MDVSGEEDHS MCLTRSLSPG FLSVCRYMKC GSDPEFASVG GIARFAKWRW KYGWRRWNVG  60
YRLFMYLCNE RLPSVGPSVG SMAQPAEKVE KRSLNSELWH ACAGPLVLLP PVGSRVVYFP  120
QGHTEQVAAS MQKEVDAHIP NYPNLPSRLV CLLDNVTLHA DIETDEVYAQ MTLIPVPPTN  180
EKDAHMSPDI EMRSRQPTEY FCKTLTASDT STHGGFSIPR RAAEKVFPPL DYAQIPPAQE  240
LKARDLHDQE WHFRHIYRGQ PRRHLLTTGW SVFVSAKRLQ AGDAVLFTRD NKGQLQLGIR  300
RQNRQQRVMP SSVLSSDSMH IGVLAAANYA AATSSRFTIF YNPRQSPSEF VIPVAKYQKA  360
ICHLQVSVGM RFRMVFETEE SSVRRYMGTI TGMGDLDPIR WPNSHWRSLK VGWDESTAGE  420
RKKRVSLWDI EPLTFPYVLC PQPLAFRAKR PRGGRDEETD SMLKKSSFWS GENSTDALGR  480
LTFRTPSLDS WMRPKQPGLP MQENEHYRAL EAAALEEIRT TSTAKNPMSR VQSSIPSSQM  540
QFQPPHVLRQ SSQHGELHMP EASGPLLQLS SSRPQSPFEV GINMPQCSGY SEGKIHMASS  600
LSASESFPLH SMLGRTHLGC DTVQVTHVIR PGKSAQQNLS GAAIHGSSAV VRDPQVSPSW  660
YPPNRDLNQY DVSVRMNQLD TSPTSRNPGS FTFPQQGEGI GQSNLAALPA PTSSFMYRES  720
GQAQDLVQSD RRLLFGVSIE QQPLGDSHSV TSRHPQTFVK NKDAQSRFPG NIMLQGSYCP  780
STTADIPTVG GVVLDKIGVF QRCAPWSIMS PAPMRTFTKV HKLGSVGRSI DVQKFQNYSE  840
LRAELARLFN LEGLLEDPQT SGWQLVFVDN ENDILLVGDD LWEEFVSCVR SIKILSPNEI  900
LRMSREQLEI LNPVPMQLRP TCSNSEDART QLSPANASTM SLEHGHSGAG *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1589143148388Auxin response factor 5
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in sepals at stages 11, 12 and 13 of flower development. Highly expressed in petals at stages 9-10, decreases at stage 11 and disappears after flower stage 12. In anthers, expressed at stage 11 in the tapetum, disappears early in stage 12 when the tapetum degrades and reappears throughout the anther late in stage 12 to persist at least until stage 13. In stamen filaments, expressed at stages 12 to 13, especially near the apical end of the filament. Expressed throughout the gynoecium at early stages up to stage 12, especially strongly in ovules. Expression in gynoecium decreases late in stage 12, but persists through stage 13, especially near the apical end including the style. {ECO:0000269|PubMed:16107481}.
UniprotTISSUE SPECIFICITY: Expressed in the whole plant. {ECO:0000269|PubMed:10476078}.
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. Regulates both stamen and gynoecium maturation. Promotes jasmonic acid production. Partially redundant with ARF8. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16107481}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR167. {ECO:0000269|PubMed:17021043}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024395054.10.0auxin response factor 19-like isoform X2
SwissprotQ9ZTX80.0ARFF_ARATH; Auxin response factor 6
TrEMBLA0A2K1J4P60.0A0A2K1J4P6_PHYPA; Auxin response factor
STRINGPP1S48_147V6.10.0(Physcomitrella patens)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP8561456
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.10.0auxin response factor 6
Publications ? help Back to Top
  1. Liu N, et al.
    Down-regulation of AUXIN RESPONSE FACTORS 6 and 8 by microRNA 167 leads to floral development defects and female sterility in tomato.
    J. Exp. Bot., 2014. 65(9): p. 2507-20
    [PMID:24723401]
  2. Oh E, et al.
    Cell elongation is regulated through a central circuit of interacting transcription factors in the Arabidopsis hypocotyl.
    Elife, 2015.
    [PMID:24867218]
  3. Minato N, et al.
    The phytoplasmal virulence factor TENGU causes plant sterility by downregulating of the jasmonic acid and auxin pathways.
    Sci Rep, 2014. 4: p. 7399
    [PMID:25492247]
  4. Ortega-Amaro MA, et al.
    Overexpression of AtGRDP2, a novel glycine-rich domain protein, accelerates plant growth and improves stress tolerance.
    Front Plant Sci, 2014. 5: p. 782
    [PMID:25653657]
  5. Asahina M,Satoh S
    Molecular and physiological mechanisms regulating tissue reunion in incised plant tissues.
    J. Plant Res., 2015. 128(3): p. 381-8
    [PMID:25736731]
  6. Batista VG,Pinheiro MP,Melo Filho PA,Santos RC,Lima LM
    Temporal and tissue expression of genes involved in buds of earliness cotton cultivar.
    Genet. Mol. Res., 2015. 14(3): p. 7386-94
    [PMID:26214417]
  7. Li P, et al.
    Ca(2+) -regulated and diurnal rhythm-regulated Na(+) /Ca(2+) exchanger AtNCL affects flowering time and auxin signalling in Arabidopsis.
    Plant Cell Environ., 2016. 39(2): p. 377-92
    [PMID:26296956]
  8. Barik S, et al.
    Coevolution Pattern and Functional Conservation or Divergence of miR167s and their targets across Diverse Plant Species.
    Sci Rep, 2015. 5: p. 14611
    [PMID:26459056]
  9. 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]
  10. 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]
  11. Zhang GZ, et al.
    Ectopic expression of UGT84A2 delayed flowering by indole-3-butyric acid-mediated transcriptional repression of ARF6 and ARF8 genes in Arabidopsis.
    Plant Cell Rep., 2017. 36(12): p. 1995-2006
    [PMID:29027578]
  12. 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]