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 HL.SW.v1.0.G041795.1
Organism
Humulus lupulus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Cannabaceae; Humulus
Family ARF
Protein Properties Length: 850aa    MW: 94547.4 Da    PI: 6.9366
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
HL.SW.v1.0.G041795.1genomeHOPBASEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.64.9e-23174275199
                           EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                           f+k+lt sd++++g +++ +++a+e+      + + + +++l+ +d+++++W++++i+r++++r++l++GW+ Fv++++L +gD ++F 
  HL.SW.v1.0.G041795.1 174 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHSNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL 261
                           99*****************************7333.34459************************************************ PP

                           E-SSSEE..EEEEE-S CS
                    B3  84 ldgrsefelvvkvfrk 99 
                             + +++el+v+v+r+
  HL.SW.v1.0.G041795.1 262 --RGENGELRVGVRRA 275
                           ..449999*****996 PP
2Auxin_resp119.92e-39300382183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                           a+ha+st+++F+v+Y+Pr+s++eF+v+++++++a+k+++s+GmRfkm+fe+e+++e+r++Gt++g++++dp rW++SkWr+Lk
  HL.SW.v1.0.G041795.1 300 AWHAISTGTMFTVYYKPRTSPAEFIVPCDQYLEATKNNYSIGMRFKMKFEGEEAPEQRFTGTIIGIEEFDPQRWKDSKWRCLK 382
                           89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.8E-41170289IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.03E-39170303IPR015300DNA-binding pseudobarrel domain
CDDcd100171.07E-20172274No hitNo description
PROSITE profilePS5086311.491174276IPR003340B3 DNA binding domain
PfamPF023628.0E-21174275IPR003340B3 DNA binding domain
SMARTSM010197.9E-23174276IPR003340B3 DNA binding domain
PfamPF065071.7E-36300382IPR010525Auxin response factor
PfamPF023091.1E-12707813IPR033389AUX/IAA domain
SuperFamilySSF542771.08E-11722801No hitNo description
PROSITE profilePS5174525.592724808IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009737Biological Processresponse to abscisic acid
GO:0009911Biological Processpositive regulation of flower development
GO:0010047Biological Processfruit dehiscence
GO:0010150Biological Processleaf senescence
GO:0010227Biological Processfloral organ abscission
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
GO:0005515Molecular Functionprotein binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 850 aa     Download sequence    Send to blast
MASSEASVKG NSGNPMGESF TSGYTDHNDA RKAAEARKGF QFLTRFSEDF SVLMSFLLLR  60
VVDAEAALYE ELWHACAGPL VTVPRKGELV FYFPQGHIEQ VEASTNQVAD QQMPVYNLPP  120
KILCRVMNVE LKAEPDTDEV FAQITLMPVA NQNDNALEKE TPPPPPPRFQ VHSFCKTLTA  180
SDTSTHGGFS VLRRHADECL PPLDMSRQPP TQELVAKDLH SNEWRFRHIF RGQPRRHLLQ  240
SGWSVFVSSK RLVAGDAFIF LRGENGELRV GVRRAMRKQE NVPSSVISSH SMHLGVLATA  300
WHAISTGTMF TVYYKPRTSP AEFIVPCDQY LEATKNNYSI GMRFKMKFEG EEAPEQRFTG  360
TIIGIEEFDP QRWKDSKWRC LKVRWDETSA IPRPERVSPW KIEPALAPPA LNPLPVPRSK  420
RPRSNIVPLS PDSSVLTRDG SSKVTVDPSL PSGFSRVLQG QELSTLRGNF AESNDSDTAE  480
KSVVWQPSLD DEKIDVVSAS RRYVPENWAS SGKHEPTYTD LLSGFGATVD STRGFCTSFT  540
DHSVATANSM RKHSLDKEGR LNLHSSPRSM VPSSLSLSLD TNMKGSVQGG ISFQGQGNVR  600
YGGFDDYTAL HGHRVEHSHG NWFMPPPSSP HYENSVHSRE LTSKPVSEQK YEAVKPKDGN  660
CKIFGYSLIA PEPAVSHKTI VGKARGTKIA ADSPMASSEQ EKPLQTNQQH SREHQGKAQN  720
GSTRSCTKVH KQGIALGRSV DLTKFNNYEE LIAELDQLFE FGGELMAPKK NWLIVYTDDE  780
GDMMLVGDDP WQEFCGMVRK IFIYTREEVQ KMSPGTLNAH GDGNPSVCEV MDAKEKSQTL  840
PLSSVPENC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1776740418354Auxin response factor 1
4ldw_A1e-1776740418354Auxin response factor 1
4ldw_B1e-1776740418354Auxin 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). 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. Promotes flowering, stamen development, floral organ abscission and fruit dehiscence. Functions independently of ethylene and cytokinin response pathways. May act as a repressor of cell division and organ growth. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:15960614, ECO:0000269|PubMed:16176952, ECO:0000269|PubMed:16339187}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00574DAPTransfer from AT5G62000Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024023134.10.0auxin response factor 2B isoform X1
RefseqXP_024023135.10.0auxin response factor 2B isoform X2
RefseqXP_024023136.10.0auxin response factor 2B isoform X3
SwissprotQ94JM30.0ARFB_ARATH; Auxin response factor 2
TrEMBLA0A2P5FI450.0A0A2P5FI45_TREOI; Auxin response factor
STRINGXP_010099050.10.0(Morus notabilis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF32813366
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
Publications ? help Back to Top
  1. Chao WS,Doğramaci M,Foley ME,Horvath DP,Anderson JV
    Selection and validation of endogenous reference genes for qRT-PCR analysis in leafy spurge (Euphorbia esula).
    PLoS ONE, 2012. 7(8): p. e42839
    [PMID:22916167]
  2. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  3. Li C, et al.
    Ectopic expression of a maize hybrid down-regulated gene ZmARF25 decreases organ size by affecting cellular proliferation in Arabidopsis.
    PLoS ONE, 2014. 9(4): p. e94830
    [PMID:24756087]
  4. Lyons R, et al.
    Fusarium oxysporum triggers tissue-specific transcriptional reprogramming in Arabidopsis thaliana.
    PLoS ONE, 2015. 10(4): p. e0121902
    [PMID:25849296]
  5. Roodbarkelari F,Du F,Truernit E,Laux T
    ZLL/AGO10 maintains shoot meristem stem cells during Arabidopsis embryogenesis by down-regulating ARF2-mediated auxin response.
    BMC Biol., 2015. 13: p. 74
    [PMID:26358077]
  6. Meng LS,Wang ZB,Yao SQ,Liu A
    The ARF2-ANT-COR15A gene cascade regulates ABA-signaling-mediated resistance of large seeds to drought in Arabidopsis.
    J. Cell. Sci., 2015. 128(21): p. 3922-32
    [PMID:26395398]
  7. Zhao S,Zhang ML,Ma TL,Wang Y
    Phosphorylation of ARF2 Relieves Its Repression of Transcription of the K+ Transporter Gene HAK5 in Response to Low Potassium Stress.
    Plant Cell, 2016. 28(12): p. 3005-3019
    [PMID:27895227]
  8. Promchuea S,Zhu Y,Chen Z,Zhang J,Gong Z
    ARF2 coordinates with PLETHORAs and PINs to orchestrate ABA-mediated root meristem activity in Arabidopsis .
    J Integr Plant Biol, 2017. 59(1): p. 30-43
    [PMID:28074634]
  9. 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]
  10. Sanz-Fernández M, et al.
    Screening Arabidopsis mutants in genes useful for phytoremediation.
    J. Hazard. Mater., 2017. 335: p. 143-151
    [PMID:28441590]
  11. Zhang M,Hu X,Zhu M,Xu M,Wang L
    Transcription factors NF-YA2 and NF-YA10 regulate leaf growth via auxin signaling in Arabidopsis.
    Sci Rep, 2017. 7(1): p. 1395
    [PMID:28469131]
  12. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  13. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]
  14. Sarkar Das S, et al.
    Expression dynamics of miRNAs and their targets in seed germination conditions reveals miRNA-ta-siRNA crosstalk as regulator of seed germination.
    Sci Rep, 2018. 8(1): p. 1233
    [PMID:29352229]