PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Pp3c14_16990V3.11.p
Organism
Physcomitrella patens
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Bryophyta; Bryophytina; Bryopsida; Funariidae; Funariales; Funariaceae; Physcomitrella
Family ARF
Protein Properties Length: 887aa    MW: 98671.7 Da    PI: 7.942
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pp3c14_16990V3.11.pgenomeCOSMOSSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B379.82.7e-25137238199
                          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_16990V3.11.p 137 FCKTLTASDTSTHGGFSIPRRAAEKVfppldyaQIPPAQ--ELKARDLHDQEWHFRHIYRGQPRRHLLTTGWSVFVSAKRLQAGDAVLFT 224
                          99*****************************97766665..8************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            ++++++l ++++r+
  Pp3c14_16990V3.11.p 225 --RDNKGQLQLGIRRQ 238
                          ..5689999****997 PP
2Auxin_resp115.35.5e-38265346383
           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_16990V3.11.p 265 YAAATSSRFTIFYNPRQSPSEFVIPVAKYQKAIChLQVSVGMRFRMVFETEESSVRRYMGTITGMGDLDPIRWPNSHWRSLK 346
                          6899****************************9868********************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.45E-47126264IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.9E-42130252IPR015300DNA-binding pseudobarrel domain
CDDcd100171.28E-23136237No hitNo description
PROSITE profilePS5086313.07137239IPR003340B3 DNA binding domain
PfamPF023623.9E-23137238IPR003340B3 DNA binding domain
SMARTSM010191.6E-23137239IPR003340B3 DNA binding domain
PfamPF065071.2E-33265346IPR010525Auxin response factor
PROSITE profilePS5174525.301751844IPR000270PB1 domain
SuperFamilySSF542779.81E-7767830No 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: 887 aa     Download sequence    Send to blast
MYLCNERLPS VGPSVGSMAQ PAEKVEKRSL NSELWHACAG PLVLLPPVGS RVVYFPQGHT  60
EQVAASMQKE VDAHIPNYPN LPSRLVCLLD NVTLHADIET DEVYAQMTLI PVPPTNEKDA  120
HMSPDIEMRS RQPTEYFCKT LTASDTSTHG GFSIPRRAAE KVFPPLDYAQ IPPAQELKAR  180
DLHDQEWHFR HIYRGQPRRH LLTTGWSVFV SAKRLQAGDA VLFTRDNKGQ LQLGIRRQNR  240
QQRVMPSSVL SSDSMHIGVL AAANYAAATS SRFTIFYNPR QSPSEFVIPV AKYQKAICHL  300
QVSVGMRFRM VFETEESSVR RYMGTITGMG DLDPIRWPNS HWRSLKVGWD ESTAGERKKR  360
VSLWDIEPLT FPYVLCPQPL AFRAKRPRGG RDEETDSMLK KSSFWSGENS TDALGRLTFR  420
TPSLDSWMRP KQPGLPMQEN EHYRALEAAA LEEIRTTSTA KNPMSRVQSS IPSSQMQFQP  480
PHVLRQSSQH GELHMPEASG PLLQLSSSRP QSPFEVGINM PQCSGYSEGK IHMASSLSAS  540
ESFPLHSMLG RTHLGCDTVQ VTHVIRPGKS AQQNLSGAAI HGSSAVVRDP QVSPSWYPPN  600
RDLNQYDVSV RMNQLDTSPT SRNPGSFTFP QQGEGIGQSN LAALPAPTSS FMYRESGQAQ  660
DLVQSDRRLL FGVSIEQQPL GDSHSVTSRH PQTFVKNKDA QSRFPGNIML QGSYCPSTTA  720
DIPTVGGVVL DKIGVFQRCA PWSIMSPAPM RTFTKVHKLG SVGRSIDVQK FQNYSELRAE  780
LARLFNLEGL LEDPQTSGWQ LVFVDNENDI LLVGDDLWEE FVSCVRSIKI LSPNEILRMS  840
REQLEILNPV PMQLRPTCSN SEDARTQLSP ANASTMSLEH GHSGAG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1592736748388Auxin 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_024395057.10.0auxin response factor 19-like isoform X5
RefseqXP_024395058.10.0auxin response factor 19-like isoform X5
RefseqXP_024395059.10.0auxin response factor 19-like isoform X5
RefseqXP_024395060.10.0auxin response factor 19-like isoform X5
RefseqXP_024395061.10.0auxin response factor 19-like isoform X5
RefseqXP_024395062.10.0auxin response factor 19-like isoform X5
SwissprotQ9ZTX80.0ARFF_ARATH; Auxin response factor 6
TrEMBLA0A2K1J4P60.0A0A2K1J4P6_PHYPA; Auxin response factor
STRINGPP1S48_147V6.10.0(Physcomitrella patens)
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]