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 PH01002160G0180
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: 758aa    MW: 84642.7 Da    PI: 6.598
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PH01002160G0180genomeICBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3727.4e-23123224199
                      EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                      f+k+lt sd++++g +++ +++a+e+       +++++  ++l+ +d++g  W++++i+r++++r++l++GW+ Fv++++L +gD ++F   + 
  PH01002160G0180 123 FCKTLTASDTSTHGGFSVLRRHADEClppldmtQSPPT--QELVAKDLHGMDWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RG 212
                      99*****************************7555544..58************************************************..44 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      +++el+v+v+r+
  PH01002160G0180 213 ENGELRVGVRRA 224
                      9999*****996 PP
2Auxin_resp1111.2e-36249330183
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                      a+ha++tks+F+v+Y+Pr+s+seF+++++++++++k+++s+GmRf m+fe+e+++e+r++Gt+vg ++ldp  Wp+S WrsLk
  PH01002160G0180 249 AWHAINTKSMFTVYYKPRTSPSEFIIPYDQYVESVKNNYSIGMRFSMRFEGEEAPEQRFTGTIVGSENLDP-MWPESSWRSLK 330
                      89*********************************************************************.9********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019366.67E-40116252IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.7E-40117238IPR015300DNA-binding pseudobarrel domain
CDDcd100173.40E-20121223No hitNo description
SMARTSM010194.0E-22123225IPR003340B3 DNA binding domain
PROSITE profilePS5086311.787123225IPR003340B3 DNA binding domain
PfamPF023621.1E-20123224IPR003340B3 DNA binding domain
PfamPF065072.3E-33249330IPR010525Auxin response factor
PfamPF023091.9E-8671757IPR033389AUX/IAA domain
SuperFamilySSF542775.89E-10683757No hitNo description
PROSITE profilePS5174520.189689757IPR000270PB1 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: 758 aa     Download sequence    Send to blast
MALPQPPQGS STGVPLYDEL WHACAGPLIT APRVGDLVYY FPQGHIEQVE ASMNQVAGNH  60
MRLYDLPSKL LCRVLNVELK AEPDTDEVYA QVMLMPEPEQ NEMEAEKSST SGSTPARPAV  120
RSFCKTLTAS DTSTHGGFSV LRRHADECLP PLDMTQSPPT QELVAKDLHG MDWRFRHIFR  180
GQPRRHLLQS GWSVFVSSKR LVAGDAFIFL RGENGELRVG VRRAMRQLSN VPSSVISSQS  240
MHLGVLATAW HAINTKSMFT VYYKPRTSPS EFIIPYDQYV ESVKNNYSIG MRFSMRFEGE  300
EAPEQRFTGT IVGSENLDPM WPESSWRSLK VRWDEPSTIP RPDRVSPWKI EPASSPPVNL  360
PLSRVKRPRP NAPPASPESS VLTKEGATKV DMDSSQAQRN QNNMVLQGQE QMTLRNSNLT  420
DSNDSDATAQ KPMMSSPSPN VGKHHPLTFQ QRSSMDNWMQ LGRRGADFKD ARPGAQSFGD  480
SPGFFMQPFD EAPNRLNSFK NQFQDQGSAR HFSDPYFFIH AQPSLTVESS TKVHRESNEL  540
HFWNGQNTVY GNSRDQPQGF GFEQNPSSWL NQPFARAEQP RVVRPHASVA PVELEKTREG  600
SGFKIFGFKV DTTSAPSNQL SPTMAATHEP MLQTQPSASL SQLQPAQNDC FPEVSVSTAG  660
TATENEKSLK QAPHCSKDVQ SKSQGASTRS CTKVHKQGVA LGRSVDLSKF NDYDELKAEL  720
DKMFEFNGEL MFSNKNWQII YTDNEGDMML AGDDPWE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1671635519357Auxin response factor 1
4ldw_A1e-1671635519357Auxin response factor 1
4ldw_B1e-1671635519357Auxin response factor 1
4ldx_A1e-1671635519357Auxin response factor 1
4ldx_B1e-1671635519357Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1365369KRPRP
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
PlantRegMapPH01002160G0180
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_015650953.10.0auxin response factor 4
SwissprotQ5JK200.0ARFD_ORYSJ; Auxin response factor 4
TrEMBLB8A8I40.0B8A8I4_ORYSI; Auxin response factor
STRINGOGLUM01G46840.10.0(Oryza glumipatula)
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
AT5G62000.30.0auxin 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]