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 PH01000002G3110
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: 829aa    MW: 92553.4 Da    PI: 6.8681
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PH01000002G3110genomeICBRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.17e-23124225199
                      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   + 
  PH01000002G3110 124 FCKTLTASDTSTHGGFSVLRRHADEClppldmtQSPPT--QELVAKDLHGMDWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL--RG 213
                      99*****************************7555544..58************************************************..44 PP

                      SEE..EEEEE-S CS
               B3  88 sefelvvkvfrk 99 
                      +++el+v+v+r+
  PH01000002G3110 214 ESGELRVGVRRA 225
                      9999*****996 PP
2Auxin_resp1125.6e-37250331183
       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
  PH01000002G3110 250 AWHAINTKSMFTVYYKPRTSPSEFIIPYDQYMESAKNNYSIGMRFRMRFEGEEAPEQRFTGTIVGSENLDP-LWPESSWRSLK 331
                      89*********************************************************************.9********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019366.93E-40117253IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.2E-39118239IPR015300DNA-binding pseudobarrel domain
CDDcd100171.12E-19122224No hitNo description
PfamPF023621.0E-20124225IPR003340B3 DNA binding domain
PROSITE profilePS5086311.702124226IPR003340B3 DNA binding domain
SMARTSM010199.5E-22124226IPR003340B3 DNA binding domain
PfamPF065071.6E-33250331IPR010525Auxin 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: 829 aa     Download sequence    Send to blast
MAPPPPPPQG SSTGDPLYDE LWHACAGPLV TVPHVGDLVF YFPQGHIEQV EASMNQVAGN  60
QMRLYDLPPK LLCRVINVEL KAELDTDEVY AQVMLMPEPE QNEMEAEKSS TSGSTPARPA  120
VRSFCKTLTA SDTSTHGGFS VLRRHADECL PPLDMTQSPP TQELVAKDLH GMDWRFRHIF  180
RGQPRRHLLQ SGWSVFVSSK RLVAGDAFIF LRGESGELRV GVRRAMRQLS NVPSSVISSQ  240
SMHLGVLATA WHAINTKSMF TVYYKPRTSP SEFIIPYDQY MESAKNNYSI GMRFRMRFEG  300
EEAPEQRFTG TIVGSENLDP LWPESSWRSL KVRWDELSTI PRPDRVSHWK IEPASSPPVN  360
LPLSRIKRPR PNAPPASPES SLLTKEGATK VDTDSSQAQR NQNNMVLQGQ EQMTLRNNNL  420
TDSNNSDATV QKAMMWSPSP NVGKHHPLTF QQRSSMDNWM QLGRRGADFK DARPGAQSFG  480
DSPGFFMQPF DEAPNRLNSF KNQFQDQGSA RHFSDPYFFI HAQPSLTVES STKMHTESNE  540
LHFWKGQNTV YGKSRDQPQG FGFEQNPSSW LNQPFARAEQ SRVVRPHASV APVELEKTRE  600
GSGFKIFGFK VDTTSAPSNQ LSSPMAATHE PMLQTQPSAS FSQLQPAQND CFPEVSVSTA  660
GTATENEKSL KQAPHCSKDV QSKSQGASTR SCTKIVYTDN EGDMMLVGDD PWELCEADGM  720
MHEVLGAVLL RFPDEKSKYA CFLWGPCGVG DGLLQGKERK GRGSSDIILK ECLMKGFYAL  780
LCLATMNDQR HVNLFAMITV ASEYLRCPLR DHLDIDPAFP QHMKGLQM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1611035612357Auxin response factor 1
4ldw_A1e-1611035612357Auxin response factor 1
4ldw_B1e-1611035612357Auxin response factor 1
4ldx_A1e-1611035612357Auxin response factor 1
4ldx_B1e-1611035612357Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1366370KRPRP
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
PlantRegMapPH01000002G3110
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_003564986.10.0auxin response factor 4
SwissprotQ5JK200.0ARFD_ORYSJ; Auxin response factor 4
TrEMBLB8A8I40.0B8A8I4_ORYSI; Auxin response factor
STRINGBRADI2G59480.10.0(Brachypodium distachyon)
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]