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 Pavir.1KG044600.5.p
Organism
Panicum virgatum
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: 1072aa    MW: 119091 Da    PI: 6.5133
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pavir.1KG044600.5.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B363.33.8e-2085186199
                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                          f+k+lt sd++++g +++p++ ae++      +++++  ++l+ +d +  +W +++i+r++++r++lt+GW+ Fv  ++L +gD+v+F  
  Pavir.1KG044600.5.p  85 FCKTLTASDTSTHGGFSVPRRAAEKIlppldfNMQPPA-QELQARDIHDTVWAFRHIFRGQPKRHLLTTGWSFFVGGKKLFTGDSVIFV- 172
                          99*****************************9555544.49************************************************. PP

                          -SSSEE..EEEEE-S CS
                   B3  85 dgrsefelvvkvfrk 99 
                           ++++++ +++++r+
  Pavir.1KG044600.5.p 173 -RDERQQILLGIRRA 186
                          .45777789999987 PP
2Auxin_resp117.51.1e-38211294183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          aahaa+++s+F+++YnPras++eFv++++k++kal+ +++s+GmRf+m+fete+   rr++Gt++g+sdldpvrW+nS+Wr+L+
  Pavir.1KG044600.5.p 211 AAHAAANNSPFTIFYNPRASPTEFVIPFAKYQKALYsNQISLGMRFRMMFETEELGMRRYMGTITGISDLDPVRWKNSQWRNLQ 294
                          79*********************************989********************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.7E-3974214IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.6E-3779200IPR015300DNA-binding pseudobarrel domain
CDDcd100179.83E-1684176No hitNo description
PfamPF023621.2E-1785186IPR003340B3 DNA binding domain
SMARTSM010191.3E-1785187IPR003340B3 DNA binding domain
PROSITE profilePS5086311.20985187IPR003340B3 DNA binding domain
PfamPF065071.5E-33211294IPR010525Auxin response factor
PfamPF023092.4E-99361023IPR033389AUX/IAA domain
PROSITE profilePS5174529.0219381022IPR000270PB1 domain
SuperFamilySSF542771.96E-79551017No hitNo description
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: 1072 aa     Download sequence    Send to blast
MFELSMLLTQ VAASMQKDID AHVPSYPNLP SKLICLLHSV TLHADPDTDE VYAQMTLQPV  60
NTYGKEALQL SELALKHERP QMEFFCKTLT ASDTSTHGGF SVPRRAAEKI LPPLDFNMQP  120
PAQELQARDI HDTVWAFRHI FRGQPKRHLL TTGWSFFVGG KKLFTGDSVI FVRDERQQIL  180
LGIRRASRQP TNISSSVLSS DSMHIGVLAA AAHAAANNSP FTIFYNPRAS PTEFVIPFAK  240
YQKALYSNQI SLGMRFRMMF ETEELGMRRY MGTITGISDL DPVRWKNSQW RNLQVGWDES  300
AAGERRNRVS MWEIEPIAAP FFICPQPFFG VKRPRQLDDE SSEMENLFKR TMPWLGEEIC  360
LKDAQTQNTT MPGLSLVQWM NMNRQQSSTL ANTGIQSEYM HTLSNPAMQN LGATELARQL  420
YVQSHLLQQN SAQLNASKLP QQMQPINELS KGVLLFNQLD AISNQEQKQE AGNQQRQQQP  480
VSQAIPLSQA QATLVQAQVI VQNQMQQQQQ PQQSSPTKNQ QGTSNQQLLP SQKQQDQNLQ  540
LQQQQQLLLQ QLQRQQLHKL PGQLMNMAGQ QAQLSDQELQ LQLLQKLQQQ SLISQPAVTL  600
SQLPLIQEQH KLLSDIQQLS GSRSLAQQRI MPQQDSKVSL QASPAPPPMK QEQQQKLSQK  660
QVALADVSDV AFAPISSTNV AGKAGSPLII LGAAQSVLTE EIPSCSTSPS TANGNHLAHP  720
TTGRNEHCKV NIEKVPQSSA LMSIPTSVEA VTAAPIMGKD LSKLNHNVKG NVITSKSPTG  780
GTGPDNLLNN VPSTDNLETA SSATSLWPTQ TDGLLHQGFP TSTFSQQQMF KDALPDVDPT  840
NNAFFGINND GPLGFPMETE GLLVSALNPV KCQTHMSTDA ENNYHIQKDA QQEISTSMVS  900
QSFGHSDIAF NSIDSAINDG ALLNRNPWPP APPSQRMRTF TKVYKRGAVG RSIDIGRYSG  960
YEELKHALAR MFGIEGQLED RQRIGWKLVY KDHEDDILLL GDDPWEEFVN CVKCIRILSP  1020
QEVQQMSLDG DLGNNVLSNQ ACSSSDGGNA WRPRCDQNPS NPSIGFYDQF E*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1381031583388Auxin response factor 5
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pvr.151440.0callus| leaf| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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
PlantRegMapPavir.1KG044600.5.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Down-regulated by auxin under light condition. {ECO:0000269|PubMed:17408882}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM0045350.0HM004535.1 Zea mays auxin response factor 20 (ARF20) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025801433.10.0auxin response factor 5-like
SwissprotQ6Z2W30.0ARFE_ORYSJ; Auxin response factor 5
TrEMBLA0A3L6RPM90.0A0A3L6RPM9_PANMI; Auxin response factor
STRINGPavir.Ab00366.1.p0.0(Panicum virgatum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G19220.10.0auxin response factor 19