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_00011888-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: 363aa    MW: 40717.3 Da    PI: 6.7133
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
SMil_00011888-RA_SalvgenomeNDCTCMView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.21.6e-23127228199
                            EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEE CS
                     B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvv 81 
                            f k+lt+sd+++ g +++p+ +ae++        +++ +  t+  +d +g++W++++iyr++++r++lt+GW++Fv++++L +gD++v
  SMil_00011888-RA_Salv 127 FAKTLTQSDANNGGGFSVPRYCAETIfprldysAEPPVQ--TILGKDVHGEVWKFRHIYRGTPRRHLLTTGWSNFVNQKKLVAGDSIV 212
                            89****************************985444444..89999****************************************** PP

                            EEE-SSSEE..EEEEE-S CS
                     B3  82 Fkldgrsefelvvkvfrk 99 
                            F   + +++ l+v+++r+
  SMil_00011888-RA_Salv 213 FL--RAENGDLCVGIRRA 228
                            **..4488999****997 PP
2Auxin_resp119.23.3e-39262345183
             Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                            aa+ a+++++FevvY+Prast+eFv+k++ v++a++v++++GmRfkmafetedss++++ +Gt+++v+  dp++WpnS+Wr+L+
  SMil_00011888-RA_Salv 262 AARLAASGQPFEVVYYPRASTPEFVIKASAVRAAMRVQWCPGMRFKMAFETEDSSRISWfMGTISSVQVDDPIHWPNSPWRLLQ 345
                            68899*****************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.45E-29120230IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.4E-36121229IPR015300DNA-binding pseudobarrel domain
CDDcd100172.72E-22126227No hitNo description
PfamPF023628.9E-22127228IPR003340B3 DNA binding domain
PROSITE profilePS5086312.915127229IPR003340B3 DNA binding domain
SMARTSM010192.8E-21127229IPR003340B3 DNA binding domain
PfamPF065078.6E-34262345IPR010525Auxin 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: 363 aa     Download sequence    Send to blast
MIDIMHSLEK TENQFEKYLD SQLWHACAGG MTQIPPLNSN VYYFPQGHAE HAAKNVDFRS  60
FPRISPLVPC RVSSIKYLAD VETDEVFAKI GLVPLRGREC EVDDEVGLLG FDRGFDRNEE  120
KEKLNSFAKT LTQSDANNGG GFSVPRYCAE TIFPRLDYSA EPPVQTILGK DVHGEVWKFR  180
HIYRGTPRRH LLTTGWSNFV NQKKLVAGDS IVFLRAENGD LCVGIRRAKL GIGGGSESGL  240
KNECDSRVKE KDNVKIASVI EAARLAASGQ PFEVVYYPRA STPEFVIKAS AVRAAMRVQW  300
CPGMRFKMAF ETEDSSRISW FMGTISSVQV DDPIHWPNSP WRLLQVAWDE PDLLQTLNAL  360
TLG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A2e-83135133373Auxin 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
GenBankKX0367340.0KX036734.1 Salvia miltiorrhiza auxin response factor ARF14 (ARF) gene, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_011084326.10.0auxin response factor 18
RefseqXP_020551141.10.0auxin response factor 18
SwissprotQ93YR91e-174ARFP_ARATH; Auxin response factor 16
TrEMBLA0A191T8T40.0A0A191T8T4_SALMI; Auxin response factor
STRINGXP_009602628.10.0(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA59224115
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.11e-176auxin response factor 16
Publications ? help Back to Top
  1. Yang ZB, et al.
    TAA1-regulated local auxin biosynthesis in the root-apex transition zone mediates the aluminum-induced inhibition of root growth in Arabidopsis.
    Plant Cell, 2014. 26(7): p. 2889-904
    [PMID:25052716]
  2. Bennett T,van den Toorn A,Willemsen V,Scheres B
    Precise control of plant stem cell activity through parallel regulatory inputs.
    Development, 2014. 141(21): p. 4055-64
    [PMID:25256342]
  3. Zhang GZ, et al.
    Ectopic expression of UGT75D1, a glycosyltransferase preferring indole-3-butyric acid, modulates cotyledon development and stress tolerance in seed germination of Arabidopsis thaliana.
    Plant Mol. Biol., 2016. 90(1-2): p. 77-93
    [PMID:26496910]
  4. Ye Y, et al.
    Germostatin resistance locus 1 encodes a PHD finger protein involved in auxin-mediated seed dormancy and germination.
    Plant J., 2016. 85(1): p. 3-15
    [PMID:26611158]
  5. Liu Z, et al.
    Repression of callus initiation by the miRNA-directed interaction of auxin-cytokinin in Arabidopsis thaliana.
    Plant J., 2016. 87(4): p. 391-402
    [PMID:27189514]
  6. 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]
  7. 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]
  8. 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]