PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sphfalx0185s0016.1.p
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Bryophyta; Sphagnophytina; Sphagnopsida; Sphagnales; Sphagnaceae; Sphagnum
Family ARF
Protein Properties Length: 810aa    MW: 89282.8 Da    PI: 6.3472
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sphfalx0185s0016.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B376.62.7e-24153254199
                           EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                           f+k+lt sd++++g +++p++ aee+       ++++++ +l+ +d +g +W++++iyr++++r++lt+GW+ Fv++++L +gD+v+F 
  Sphfalx0185s0016.1.p 153 FCKTLTASDTSTHGGFSVPRRAAEEClpeldyTMNPPCQ-ELVAKDVHGAEWKFRHIYRGHPRRHLLTTGWSVFVSSKRLVAGDSVLFL 240
                           99*****************************97777785.9************************************************ PP

                           E-SSSEE..EEEEE-S CS
                    B3  84 ldgrsefelvvkvfrk 99 
                           +   ++++l+++v+r+
  Sphfalx0185s0016.1.p 241 R--GENEQLRLGVRRA 254
                           3..3777789999986 PP

2Auxin_resp108.28.6e-36279361183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                           aahaa +k  F+v+Y+P+++ seFv++++k++ka+++  svGmRfkm+fe+ d  err++Gt++g+ d+dpvrWpnS WrsLk
  Sphfalx0185s0016.1.p 279 AAHAAMEKLRFSVIYHPSTCLSEFVIPYHKYVKAINSTASVGMRFKMRFESADLTERRYAGTITGIGDVDPVRWPNSYWRSLK 361
                           79*******************************************************************************96 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.7E-40145267IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.28E-41147282IPR015300DNA-binding pseudobarrel domain
CDDcd100171.97E-22152253No hitNo description
PROSITE profilePS5086312.619153255IPR003340B3 DNA binding domain
SMARTSM010191.7E-24153255IPR003340B3 DNA binding domain
PfamPF023623.6E-22153254IPR003340B3 DNA binding domain
PfamPF065074.0E-32279361IPR010525Auxin response factor
SuperFamilySSF542771.7E-10699781No hitNo description
PfamPF023097.2E-6700739IPR033389AUX/IAA domain
PROSITE profilePS5174527.193703786IPR000270PB1 domain
PfamPF023098.5E-7748785IPR033389AUX/IAA domain
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: 810 aa     Download sequence    Send to blast
MMMRSSNGSA IMPLQQRNAS PPMSRCPTLL PSSSDSSTVG IPGNDDDLDS ELWHACAGPL  60
VSLPPVNSLV VYWPQGHLEQ VANCTPQAVV QPPIPQYNLP PQILCRLTDI TLMAHPDTDK  120
LYAQMDLTPV RESEKPLVSE EPPPAAKRKS NSFCKTLTAS DTSTHGGFSV PRRAAEECLP  180
ELDYTMNPPC QELVAKDVHG AEWKFRHIYR GHPRRHLLTT GWSVFVSSKR LVAGDSVLFL  240
RGENEQLRLG VRRAPKQQQD APSMVVSNQS TQIGVLATAA HAAMEKLRFS VIYHPSTCLS  300
EFVIPYHKYV KAINSTASVG MRFKMRFESA DLTERRYAGT ITGIGDVDPV RWPNSYWRSL  360
KVEWDESVAS ERQERVSLWE IEPFNSAAIL PPLSLGQNPS QKRRPNKPTL ATCQSTPESF  420
HSTKLARVLV HDQGAPKLQE DEEGGTSWRV SGRAVKCEGV LKSPLMAQDS TGREGWLPMQ  480
QPKICLGGDI SRSLQRCDFT GVLTLQPSQH NVEREQEHLR LCVQNYLREH KEHKDSPSPR  540
LSSTGKPLCG SDDIQNSVNS SSVWDPAMKL LWPTNPPHLA SMPESEDLSS PAPIWPITIP  600
PVMPDGAASS SHSVGARGES FPSWEDHEGK LIASTPPPAR PQCKLFGFAL NGDNPPTSAK  660
PLKEAEVDVE HLSTGPTNSG DSNSRELAVK TDAVLKHSPF PVRSFIKVHK QGEPGRSVDL  720
TRYESYSELK CALENMFSLH GQLESPDKQW QVVYTDHEGD VLLVGDDPWG EFCSCVRSLK  780
IVSSATEEGS EDEVQADVQD MSPLMPGPK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-126403869357Auxin response factor 1
4ldw_A1e-126403869357Auxin response factor 1
4ldw_B1e-126403869357Auxin response factor 1
4ldx_A1e-126333862357Auxin response factor 1
4ldx_B1e-126333862357Auxin 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).
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) (By similarity). Could act as transcriptional activator or repressor (PubMed:26959229, PubMed:26716451, PubMed:27645097, PubMed:28167023). Involved in the control of fruit ripening process (PubMed:26959229, PubMed:26716451, PubMed:28167023). Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26959229, PubMed:26716451). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). Regulates vegetative growth, lateral root formation and flower organ senescence, possibly partially by regulating gene expression of auxin and ethylene response factor (ERF) genes (PubMed:28167023). Plays a negative role in axillary shoot meristem formation (PubMed:27645097). {ECO:0000255|RuleBase:RU004561, ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229, ECO:0000269|PubMed:27645097, ECO:0000269|PubMed:28167023}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By tomato fruit ripening. Expression in tomato fruits is up-regulated by exogenous application of ethylene and down-regulated by inhibition of ethylene receptors with 1-methylcyclopropene (1-MCP) (PubMed:26959229, PubMed:26716451). Up-regulated by plant hormone abscisic acid (ABA) in tomato fruits (PubMed:26959229). Expression is not up-regulated by plant hormone auxin in tomato fruits (PubMed:26716451). Up-regulated by auxin and gibberellic acid (GA), and down-regulated by ethylene in seedlings (PubMed:28167023). Down-regulated during decapitation-induced axillary shoot development and by excision of immature leaves. Down-regulation is inhibited by the application of auxin on the cut surface (PubMed:27645097). {ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229, ECO:0000269|PubMed:27645097, ECO:0000269|PubMed:28167023}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
SwissprotQ2LAJ31e-133ARF2A_SOLLC; Auxin response factor 2A
SwissprotQ653U31e-133ARFQ_ORYSJ; Auxin response factor 17
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G37020.21e-126auxin response factor 8
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. Tomato Genome Consortium
    The tomato genome sequence provides insights into fleshy fruit evolution.
    Nature, 2012. 485(7400): p. 635-41
    [PMID:22660326]
  3. Breitel DA, et al.
    AUXIN RESPONSE FACTOR 2 Intersects Hormonal Signals in the Regulation of Tomato Fruit Ripening.
    PLoS Genet., 2016. 12(3): p. e1005903
    [PMID:26959229]
  4. Xu T, et al.
    SlARF2a plays a negative role in mediating axillary shoot formation.
    Sci Rep, 2016. 6: p. 33728
    [PMID:27645097]
  5. Ren Z,Liu R,Gu W,Dong X
    The Solanum lycopersicum auxin response factor SlARF2 participates in regulating lateral root formation and flower organ senescence.
    Plant Sci., 2017. 256: p. 103-111
    [PMID:28167023]