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 Araha.56576s0001.1.p
Organism
Arabidopsis halleri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family ARF
Protein Properties Length: 623aa    MW: 69537.1 Da    PI: 5.7169
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.56576s0001.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B368.96.9e-22123224199
                           EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                           f+k+lt sd++++g +++ +++a+++       +++    ++l+ +d+++++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F
  Araha.56576s0001.1.p 123 FCKTLTASDTSTHGGFSVLRRHADDClppldmsQQP--PWQELVATDLHNNEWHFRHIFRGQPRRHLLTTGWSVFVSSKKLVAGDAFIF 209
                           99****************************964333..4459*********************************************** PP

                           EE-SSSEE..EEEEE-S CS
                    B3  83 kldgrsefelvvkvfrk 99 
                              + +++el+v+v+r+
  Araha.56576s0001.1.p 210 L--RGENEELRVGVRRH 224
                           *..3488889****996 PP
2Auxin_resp112.44.2e-37249331183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                           aaha++t+++F+v+Y+Pr+s+seF+v+v+++++a ++k+svGmRfkm+fe+e+++e+r+sGt+vgv++ +++ W++S+WrsLk
  Araha.56576s0001.1.p 249 AAHAITTGTIFSVFYKPRTSRSEFIVSVNRYLEAKTQKLSVGMRFKMRFEGEEAPEKRFSGTIVGVQENKSSVWHDSEWRSLK 331
                           79*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.57E-44112252IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.5E-40120238IPR015300DNA-binding pseudobarrel domain
CDDcd100172.00E-19121223No hitNo description
PROSITE profilePS5086310.588123225IPR003340B3 DNA binding domain
PfamPF023629.8E-20123224IPR003340B3 DNA binding domain
SMARTSM010194.9E-21123225IPR003340B3 DNA binding domain
PfamPF065073.2E-34249331IPR010525Auxin response factor
PfamPF023091.1E-11494589IPR033389AUX/IAA domain
PROSITE profilePS5174530.294499592IPR000270PB1 domain
SuperFamilySSF542772.42E-11501576No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009733Biological Processresponse to auxin
GO:0010150Biological Processleaf senescence
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0042802Molecular Functionidentical protein binding
Sequence ? help Back to Top
Protein Sequence    Length: 623 aa     Download sequence    Send to blast
MHPITVICIF VGVLSDALCR ELWHACAGPL VTLPREGERV YYFPEGHMEQ LEASMHQGLE  60
QQMPSFNLPS KILCKVINIQ RRAEPETDEV YAQITLLPEL DQSEPTSPDA PVQEPEKCTV  120
HSFCKTLTAS DTSTHGGFSV LRRHADDCLP PLDMSQQPPW QELVATDLHN NEWHFRHIFR  180
GQPRRHLLTT GWSVFVSSKK LVAGDAFIFL RGENEELRVG VRRHMRQQTN IPSSVISSHS  240
MHIGVLATAA HAITTGTIFS VFYKPRTSRS EFIVSVNRYL EAKTQKLSVG MRFKMRFEGE  300
EAPEKRFSGT IVGVQENKSS VWHDSEWRSL KVQWDEPSSV FRPERVSPWE LEPLVANNTP  360
SSVPLFSPPA KAATFGHGGN KSFGVSIGSA FWPSHADSAA ESFASAFNNE STEKKQTNGN  420
VCRLFGFELV ENVNVDECFS AASVSGAVAV DQPVPSNEFD SGQQSEPLNI NQSDIPSGSG  480
DPENSSLRSP QESQSRQIRS CTKVHMQGSA VGRAVDLTRS ECYEDLFKKL EEMFEIKGEL  540
LESTKKWQVV YTDDEDDMMM VGDDPWNEFC GMVRKIFIYT PEEVKKLSPK NKLAVNARMQ  600
PKTDAEENGN TEGRSSSMAG SR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A0.01235413355Auxin response factor 1
4ldw_A0.01235413355Auxin response factor 1
4ldw_B0.01235413355Auxin 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). Seems to act as transcriptional 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. Acts as repressor of IAA2, IAA3 and IAA7. {ECO:0000269|PubMed:12036261, ECO:0000269|PubMed:16176952}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00097PBMTransfer from AT1G59750Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.56576s0001.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3172140.0AK317214.1 Arabidopsis thaliana AT1G59750 mRNA, complete cds, clone: RAFL22-03-B07.
GenBankATU832450.0U83245.1 Arabidopsis thaliana auxin response factor 1 (ARF1) mRNA, complete cds.
GenBankBT0027480.0BT002748.1 Arabidopsis thaliana clone C105458 auxin response factor 1 (At1g59750) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020890292.10.0auxin response factor 1 isoform X2
SwissprotQ8L7G00.0ARFA_ARATH; Auxin response factor 1
TrEMBLD7KXS00.0D7KXS0_ARALL; Auxin response factor
STRINGfgenesh2_kg.2__468__AT1G59750.10.0(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM88252227
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.40.0auxin response factor 1
Publications ? help Back to Top
  1. Montesinos JC,Pastor-Cantizano N,Robinson DG,Marcote MJ,Aniento F
    Arabidopsis p24δ5 and p24δ9 facilitate Coat Protein I-dependent transport of the K/HDEL receptor ERD2 from the Golgi to the endoplasmic reticulum.
    Plant J., 2014. 80(6): p. 1014-30
    [PMID:25312353]
  2. Marais C, et al.
    The Qb-SNARE Memb11 interacts specifically with Arf1 in the Golgi apparatus of Arabidopsis thaliana.
    J. Exp. Bot., 2015. 66(21): p. 6665-78
    [PMID:26208648]
  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. 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]