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 PH01000046G0220
Organism
Phyllostachys heterocycla
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Bambusoideae; Arundinarodae; Arundinarieae; Arundinariinae; Phyllostachys
Family ARF
Protein Properties Length: 735aa    MW: 80507.5 Da    PI: 7.1599
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PH01000046G0220genomeICBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.91.1e-24162263199
                      EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                      f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD v+F   + +
  PH01000046G0220 162 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyS-QQRPSQELVAKDLHGTEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFL--RGD 252
                      99****************************963.3445679************************************************..348 PP

                      EE..EEEEE-S CS
               B3  89 efelvvkvfrk 99 
                      ++el+++v+r+
  PH01000046G0220 253 DGELRLGVRRA 263
                      9999***9996 PP
2Auxin_resp1132.8e-37288368182
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                      +aha++tksvF+++YnPr s+seF+v+++k++k++++++svG Rfkm++e+eds+err++G+++g  d+dp  W++SkW++L
  PH01000046G0220 288 VAHAVATKSVFHIYYNPRISQSEFIVPYWKFLKSFSQPFSVGLRFKMRYESEDSAERRYTGIITGSGDADP-MWRGSKWKCL 368
                      79*********************************************************************.9********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.1E-40156265IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.62E-43157277IPR015300DNA-binding pseudobarrel domain
CDDcd100175.67E-23160262No hitNo description
PROSITE profilePS5086313.493162264IPR003340B3 DNA binding domain
PfamPF023621.4E-22162263IPR003340B3 DNA binding domain
SMARTSM010195.3E-23162264IPR003340B3 DNA binding domain
PfamPF065076.2E-32288368IPR010525Auxin 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: 735 aa     Download sequence    Send to blast
MAGIDLNTVE EDEEEAEEVA TNCSYQSQAS SAATATPPRP SAVCLELWHA CAGPVAPLPR  60
KGSVVVYLPQ GHLEHLGDAA AGGGSGALPA ASAVPPHVFC RVVDVTLHAD AATDEVYAQL  120
SLVAENEEVA RRLREGTDDG SGGDADDGET VKQRFARMPH MFCKTLTASD TSTHGGFSVP  180
RRAAEDCFPP LDYSQQRPSQ ELVAKDLHGT EWRFRHIYRG QPRRHLLTTG WSAFVNKKKL  240
VSGDAVLFLR GDDGELRLGV RRAAQLKNGS AFPALYNQCS DLGTLANVAH AVATKSVFHI  300
YYNPRISQSE FIVPYWKFLK SFSQPFSVGL RFKMRYESED SAERRYTGII TGSGDADPMW  360
RGSKWKCLLV RWDDDVEFRR PNRVSPWEIE LTSSVSAPHL STPNSKRLKS CLPHVHPEYL  420
VPHGGGCSDF AESAQFHKVL QGQELLGFKT HDGTAVATSQ PCEARNLQYI DERSCSNEVS  480
NSILGVPRLG VRSPLGNPGF SYHCSGFGES QRFQKVLQGQ EVFRPYRGTL VDARMRSSGF  540
HQQDGPHAPG MANKWHPQLH GCAFHGPPAP VLHYQSSSPP SVLMFQQANS KISQFEFGHG  600
HLDKNEDDRR ARFGPAEGIG RTEQMLLLRP HLVSGGVIDG HATVEKLHPP VHLGKDGPDN  660
KNVSANSCKI FGISLNEKVP AREEVDCGDA NYPSPFKALK QQVPKSLGNS CATVHEQRPV  720
VGRVIDVSTM DMMI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1144239618359Auxin response factor 1
4ldw_A1e-1144239618359Auxin response factor 1
4ldw_B1e-1144239618359Auxin 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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapPH01000046G0220
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_002440246.10.0auxin response factor 15
SwissprotQ8S9850.0ARFO_ORYSJ; Auxin response factor 15
TrEMBLA0A1D8F0K60.0A0A1D8F0K6_9POAL; Auxin response factor
STRINGOPUNC05G23380.10.0(Oryza punctata)
STRINGOPUNC05G23400.10.0(Oryza punctata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP25373580
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-163ARF family protein
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. 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]