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 SMil_00011716-RA_Salv
Organism
Salvia miltiorrhiza
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Lamiales; Lamiaceae; Nepetoideae; Mentheae; Salvia
Family ARF
Protein Properties Length: 345aa    MW: 37784.4 Da    PI: 9.5135
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
SMil_00011716-RA_SalvgenomeNDCTCMView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B383.12.7e-26115217199
                            EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEE CS
                     B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvv 81 
                            f k+lt+sd+++ g +++p+ +a+ +         ++ +   l+l+d++g  We+++iyr++++r++lt+GW++Fv+a++L +gD vv
  SMil_00011716-RA_Salv 115 FAKILTRSDANNGGGFSVPRFCADMIlpqlnfaADPPVQ--NLVLRDTHGHAWEFRHIYRGTPRRHLLTTGWSKFVNAKRLVAGDAVV 200
                            89*****************9999888*****97666666..6********************************************** PP

                            EEE-SSSEE..EEEEE-S CS
                     B3  82 Fkldgrsefelvvkvfrk 99 
                            F+ ++rs++el+v+++r+
  SMil_00011716-RA_Salv 201 FM-KKRSTGELFVGIRRA 217
                            **.556**********97 PP
2Auxin_resp75.12e-25235316283
             Auxin_resp   2 ahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                            +++a  +++Fe vY+P+a++ +Fvv +ekv+++l++++s+Gm+++ma+et+d+s+ ++ +G++++ s+     W +S+Wr+L+
  SMil_00011716-RA_Salv 235 IESAVRGMPFEAVYYPKAGSFDFVVMAEKVKDSLRMRWSAGMKVRMAVETDDASRLTWiQGIITAAST-PAGIWCGSPWRMLQ 316
                            66788899**************************************************9******999.6669********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.31E-28110229IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.3E-33112220IPR015300DNA-binding pseudobarrel domain
CDDcd100172.01E-24114216No hitNo description
SMARTSM010199.2E-19115218IPR003340B3 DNA binding domain
PROSITE profilePS5086313.86115218IPR003340B3 DNA binding domain
PfamPF023623.2E-24115217IPR003340B3 DNA binding domain
PfamPF065072.8E-22235316IPR010525Auxin 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: 345 aa     Download sequence    Send to blast
MPSSSSSTAA AEVDAKIWRA VAGAAVRVPS VNSYVYYFPQ GHLEQCSAAA AVTNRNFTLM  60
RPWFPCQILS VRFLSDPASD QVYAKILLQP LQPLGPRPSN AAGGGAGDDD DVVSFAKILT  120
RSDANNGGGF SVPRFCADMI LPQLNFAADP PVQNLVLRDT HGHAWEFRHI YRGTPRRHLL  180
TTGWSKFVNA KRLVAGDAVV FMKKRSTGEL FVGIRRAERI GGDAAAEEAE AVAAIESAVR  240
GMPFEAVYYP KAGSFDFVVM AEKVKDSLRM RWSAGMKVRM AVETDDASRL TWIQGIITAA  300
STPAGIWCGS PWRMLQVNPH VRPTYNLNFV YVFVKLAIIN ALIEF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A7e-63631844369Auxin response factor 5
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). Could act as transcriptional activator or repressor. Formation of heterodimers with Aux/IAA proteins may alter their ability to modulate early auxin response genes expression. {ECO:0000269|PubMed:12036261}.
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKX0367320.0KX036732.1 Salvia miltiorrhiza auxin response factor ARF12 (ARF) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011074899.11e-157auxin response factor 17-like
SwissprotQ84WU61e-106ARFQ_ARATH; Auxin response factor 17
TrEMBLA0A191T8T10.0A0A191T8T1_SALMI; Auxin response factor
STRINGMigut.N03328.1.p1e-141(Erythranthe guttata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA95601924
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.13e-73auxin response factor 16
Publications ? help Back to Top
  1. Shi ZH, et al.
    Overexpression of AtTTP affects ARF17 expression and leads to male sterility in Arabidopsis.
    PLoS ONE, 2015. 10(3): p. e0117317
    [PMID:25822980]
  2. de Lucas M, et al.
    Transcriptional Regulation of Arabidopsis Polycomb Repressive Complex 2 Coordinates Cell-Type Proliferation and Differentiation.
    Plant Cell, 2016. 28(10): p. 2616-2631
    [PMID:27650334]
  3. Wójcikowska B,Gaj MD
    Expression profiling of AUXIN RESPONSE FACTOR genes during somatic embryogenesis induction in Arabidopsis.
    Plant Cell Rep., 2017. 36(6): p. 843-858
    [PMID:28255787]
  4. Wang B, et al.
    Fine regulation of ARF17 for anther development and pollen formation.
    BMC Plant Biol., 2017. 17(1): p. 243
    [PMID:29258431]
  5. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  6. Lin JS, et al.
    MicroRNA160 Modulates Plant Development and Heat Shock Protein Gene Expression to Mediate Heat Tolerance in Arabidopsis.
    Front Plant Sci, 2018. 9: p. 68
    [PMID:29449855]