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 Oropetium_20150105_12537A
Organism
Oropetium thomaeum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Cynodonteae; Tripogoninae; Oropetium
Family ARF
Protein Properties Length: 680aa    MW: 73891.4 Da    PI: 7.3391
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Oropetium_20150105_12537AgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.38.3e-25127228199
                                EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT CS
                         B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkeg 77 
                                f+k+lt sd++++g +++p++ ae++       ++ +  s++l+ +d++g +W++++iyr++++r++lt+GW++Fv+ ++L +g
  Oropetium_20150105_12537A 127 FCKTLTASDTSTHGGFSVPRRAAEDCfapldynQLRP--SQELVAKDLHGAKWKFRHIYRGQPRRHLLTTGWSSFVNKKKLVSG 208
                                99****************************9876665..459****************************************** PP

                                -EEEEEE-SSSEE..EEEEE-S CS
                         B3  78 DfvvFkldgrsefelvvkvfrk 99 
                                D v+F   + +++el+++v+r+
  Oropetium_20150105_12537A 209 DAVLFL--RGDDGELRLGVRRA 228
                                ******..3489999***9986 PP
2Auxin_resp65.91.4e-22253324182
                 Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                                +a++++++svF++ YnPra+ s ++++++k++k+l+++v++GmR+ ++ e+ed++e +          +d+++Wp SkWrsL
  Oropetium_20150105_12537A 253 VADSLKHRSVFHISYNPRATGSVYIIPYRKFLKSLNHPVCIGMRINFQCENEDVNESE----------VDSMKWPSSKWRSL 324
                                578899************************************************9977..........789**********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019366.15E-42120265IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.4E-38123228IPR015300DNA-binding pseudobarrel domain
CDDcd100171.25E-21125227No hitNo description
PfamPF023621.0E-22127228IPR003340B3 DNA binding domain
PROSITE profilePS5086313.422127229IPR003340B3 DNA binding domain
SMARTSM010193.8E-23127229IPR003340B3 DNA binding domain
PfamPF065077.7E-18254324IPR010525Auxin 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: 680 aa     Download sequence    Send to blast
MGIDLNVVDE APPPVVCREL WHACAGPVVA LPRRGSRVVY LPQGHLAAAG ARSGDVAVDL  60
PPHVVCRVVD VDLCADAATD EVYALLALVA EGEAFDRNLR NGGLEGREDD MVEDGDAGRK  120
SRMLHMFCKT LTASDTSTHG GFSVPRRAAE DCFAPLDYNQ LRPSQELVAK DLHGAKWKFR  180
HIYRGQPRRH LLTTGWSSFV NKKKLVSGDA VLFLRGDDGE LRLGVRRAIQ LKNEAIFKDF  240
SCDGSKCHTL SAVADSLKHR SVFHISYNPR ATGSVYIIPY RKFLKSLNHP VCIGMRINFQ  300
CENEDVNESE VDSMKWPSSK WRSLMVRWED GTDCNNQGRV SPWEIEITGG SVPAVHPLPS  360
SGSKRTKLCP QGNSDVPTMW NGCTDSVETG KLPRVLQGQE LMGFRTHHRV SCAPQTAEVA  420
PFQSPNARRI LTNARGCMLS GPTSRLAVQN SGLTYQSVGF SESTRFSEVL QGQEISQAIP  480
MFQGMISEAS SGKGRYEQHG FLRTSAEVGG LSAAAQEFSL TLATSPAAQV PYSYPEHMFN  540
QTVASQHGLA SKANSVEGAN GSQPGPFNML WDARTRPTYE TPGQASLEQF ETRRASVPGD  600
AAKQGTVGVL AGGREVRKTS CRLFGFSLTE KILPADDDGV KDGNYETECQ NPRMLDLFGY  660
NCSTPGAALP ALCAAPLGM*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-901634619353Auxin response factor 1
4ldy_B1e-901634619353Auxin 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).
Cis-element ? help Back to Top
SourceLink
PlantRegMapOropetium_20150105_12537A
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_004969978.10.0auxin response factor 3 isoform X2
SwissprotQ5JMM10.0ARFC_ORYSJ; Auxin response factor 3
TrEMBLA0A0A9D3G80.0A0A0A9D3G8_ARUDO; Auxin response factor
STRINGSi000542m0.0(Setaria italica)
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-142ARF 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]