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 Pahal.E01610.1
Organism
Panicum hallii
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: 683aa    MW: 74260.9 Da    PI: 7.0023
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.E01610.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.38.3e-25128229199
                     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   + +
  Pahal.E01610.1 128 FCKTLTASDTSTHGGFSVPRRAAEDCfppldynQLRP--SQELVAKDLHGAKWKFRHIYRGQPRRHLLTTGWSSFVNKKKLVSGDAVLFL--RGD 218
                     99****************************9876665..459************************************************..348 PP

                     EE..EEEEE-S CS
              B3  89 efelvvkvfrk 99 
                     ++el+++v+r+
  Pahal.E01610.1 219 DGELRLGVRRA 229
                     9999***9996 PP
2Auxin_resp95.86.6e-32256334382
      Auxin_resp   3 haastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                     ++++++svF++ YnPra++se++++++k++k+l+++v++G R+ ++ ++ed+serr sG+vvg+s++dp++Wp+SkWrsL
  Pahal.E01610.1 256 DSLKHRSVFHISYNPRAASSEYIIPYRKFLKSLNHPVCIGARINFQCQNEDVSERR-SGMVVGISEVDPMKWPGSKWRSL 334
                     67899***************************************************.9********************99 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.79E-45112266IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.5E-39123231IPR015300DNA-binding pseudobarrel domain
CDDcd100171.00E-22126228No hitNo description
PROSITE profilePS5086313.479128230IPR003340B3 DNA binding domain
PfamPF023629.6E-23128229IPR003340B3 DNA binding domain
SMARTSM010192.2E-24128230IPR003340B3 DNA binding domain
PfamPF065072.4E-26257334IPR010525Auxin 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: 683 aa     Download sequence    Send to blast
MGIDLNMVDG EGEERRPPPA VCRDLWHACA GPVVALPRRG SLVVYLPQGH LAAVGGGDVA  60
ADLPPHVVCR VADIELCADA ATDEVYARLA LVAEGEAFGR NVRGGGVEGD DDMEDFDAER  120
KSRMLHMFCK TLTASDTSTH GGFSVPRRAA EDCFPPLDYN QLRPSQELVA KDLHGAKWKF  180
RHIYRGQPRR HLLTTGWSSF VNKKKLVSGD AVLFLRGDDG ELRLGVRRAV QLKNEALFED  240
FSSDSAKRHT LSAVYDSLKH RSVFHISYNP RAASSEYIIP YRKFLKSLNH PVCIGARINF  300
QCQNEDVSER RSGMVVGISE VDPMKWPGSK WRSLLIRWED GSECNGQDRV SPWEIDIVGG  360
SVSAAHSLSA SSSKRTKLCP PGNLDVPTMW NGCTDSMETG KLPRVLQGQE LMGFRTHRVT  420
CAAQTAEVAK FQSSDASRFL TNARSCMLSG PTGRLAVQNS GFTYQYVGFN ESIGFSEVLQ  480
GQEISQAVPM FQGMMSEACS LKGVYGLRGY MHTPAAVNGL SATAQECSLT LSTPPAAQVP  540
PPHPNHMLNQ TVSSQLGLGN KTAGEGANGS QPCPFDMSWE AQTRSHHETP AQISLDQFEA  600
RRASAPGDAA KIGSGGREVR KTSCRLFGFS LTEKILPADD DSVKEVSYEA ECQNPRMLDL  660
FGYNRSTPSA ALPALCAAPF GM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A5e-952035618353Auxin response factor 1
4ldy_B5e-952035618353Auxin 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_025816252.10.0auxin response factor 3-like isoform X2
SwissprotQ5JMM10.0ARFC_ORYSJ; Auxin response factor 3
TrEMBLA0A2T7DGP40.0A0A2T7DGP4_9POAL; Auxin response factor
STRINGPavir.J17853.1.p0.0(Panicum virgatum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP51132756
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-143ARF 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. 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]