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 Pahal.C03926.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum
Family ARF
Protein Properties Length: 811aa    MW: 90786.7 Da    PI: 6.4734
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.C03926.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.23.1e-23129230199
                     EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                     f+k+lt sd++++g +++ +++a+e+       +++++  ++l+ +d++g +W++++i+r++++r++l++GW+ Fv++++L +gD ++F   + +
  Pahal.C03926.1 129 FCKTLTASDTSTHGGFSVLRRHADEClplldmtQSPPT--QELVAKDLHGMEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RGE 219
                     99*****************************7555544..58************************************************..449 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     ++el+v+v+r+
  Pahal.C03926.1 220 NGELRVGVRRA 230
                     999*****996 PP

2Auxin_resp112.73.6e-37255336183
      Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                     a+ha++tks+F+v+Y+Pr+s+seF++++++++++lk+++s+GmRf+m+fe+e+++e+r++Gt+vg ++ldp  Wp+S Wr Lk
  Pahal.C03926.1 255 AWHAINTKSMFTVYYKPRTSPSEFIIPYDQYMESLKHNYSIGMRFRMRFEGEEAPEQRFTGTIVGCENLDP-LWPDSSWRYLK 336
                     89*********************************************************************.9*******996 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.0E-40121244IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.19E-39123258IPR015300DNA-binding pseudobarrel domain
CDDcd100177.66E-21127229No hitNo description
PROSITE profilePS5086311.928129231IPR003340B3 DNA binding domain
SMARTSM010197.7E-23129231IPR003340B3 DNA binding domain
PfamPF023624.0E-21129230IPR003340B3 DNA binding domain
PfamPF065071.2E-33255336IPR010525Auxin response factor
PfamPF023093.4E-13681783IPR033389AUX/IAA domain
SuperFamilySSF542777.85E-13692775No hitNo description
PROSITE profilePS5174524.728698791IPR000270PB1 domain
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: 811 aa     Download sequence    Send to blast
MPPAAMAPPP PPQASSNSGD PLYPELWRAC AGPLVTVPRP GDLVFYFPQG HIEQVEASMN  60
QVAGNQMRLY DLPSKLLCRV LNVELKAETE TDEVYAQIML MPEPEQNEAA AEKASSGSPA  120
TPRPAVRSFC KTLTASDTST HGGFSVLRRH ADECLPLLDM TQSPPTQELV AKDLHGMEWR  180
FRHIFRGQPR RHLLQSGWSV FVSSKRLVAG DAFIFLRGEN GELRVGVRRA MRQLSNVPSS  240
VISSQSMHLG VLATAWHAIN TKSMFTVYYK PRTSPSEFII PYDQYMESLK HNYSIGMRFR  300
MRFEGEEAPE QRFTGTIVGC ENLDPLWPDS SWRYLKVRWD EPSTIPRPDR VSPWKIEPAS  360
SPPVNPVPLS SRVKRPRQAP PPSPESSVLT KEGATKIDIS SAQTQQHQNS VLQGQEQMTL  420
RNNMTESTDS DATVQKPMMW SPSPNGKTHT SFQQRPSMDN WMPLGRRETD FKDTRSAFKD  480
ARTSSQSFGD TQGFFMPTFD ENHHRLSFNN QFQDQGSAHR FADPYFYMPQ QPSLTVESST  540
RTQTANNELR FWSDQNTVYG NTSDQQQGFR FAQNSSSWLN QPFTQAEQPR VVRPHATVAP  600
FDLEKAREGS GFKIFGFKVD TASASPIQLS SPMSAMREHV VQTQPSASGS ELQPVQTECL  660
PEGSVSTAGT ATENEKSIQQ APQSSKDIQS KSQGASTRSC TKVHKQGVAL GRSVDLSKFS  720
DYDELKAELD KMFEFEGELV SANKNWQIVY TDNEGDMMLV GDDPWDEFCS IVRKIYIYTK  780
EEVQKMNSKS SAPRKEEPLA SGELCVATNE *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1662036117357Auxin response factor 1
4ldw_A1e-1662036117357Auxin response factor 1
4ldw_B1e-1662036117357Auxin response factor 1
4ldx_A1e-1662036117357Auxin response factor 1
4ldx_B1e-1662036117357Auxin 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).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025815802.10.0auxin response factor 4-like
SwissprotQ5JK200.0ARFD_ORYSJ; Auxin response factor 4
TrEMBLA0A2S3HNE10.0A0A2S3HNE1_9POAL; Auxin response factor
STRINGPavir.Ea03860.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP117836111
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.40.0auxin response factor 2
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. Song X, et al.
    Rice RNA-dependent RNA polymerase 6 acts in small RNA biogenesis and spikelet development.
    Plant J., 2012. 71(3): p. 378-89
    [PMID:22443269]
  3. Kishimoto N, et al.
    Identification of the duplicated segments in rice chromosomes 1 and 5 by linkage analysis of cDNA markers of known functions.
    Theor. Appl. Genet., 1994. 88(6-7): p. 722-6
    [PMID:24186168]