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 AHYPO_001835-RA
Organism
Amaranthus hypochondriacus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Amaranthaceae; Amaranthus
Family ARF
Protein Properties Length: 727aa    MW: 80634.5 Da    PI: 8.1116
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AHYPO_001835-RAgenomeBYUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.41.5e-24163263198
                      EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                      f+k+lt sd++++g +++p++ ae++      +++ + s++l+ +d++g +W++++iyr++++r++lt+GW++Fv++++L +gD v+F   + +
  AHYPO_001835-RA 163 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyKIQ-RPSQELVATDLHGVKWKFRHIYRGQPRRHLLTTGWSNFVSQKKLVSGDAVLFL--RGE 253
                      99****************************97555.45679************************************************..449 PP

                      EE..EEEEE- CS
               B3  89 efelvvkvfr 98 
                      ++el+++++r
  AHYPO_001835-RA 254 DGELRLGLRR 263
                      9999*99998 PP
2Auxin_resp104.11.8e-34289368182
       Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                      +a+a+stk +F v+Y+Pras++eF+v+++++ k+  +++  G+Rfkm+fe +ds+er+  G+v+gv+d+dp++WpnSkWr+L
  AHYPO_001835-RA 289 VANAISTKITFPVFYSPRASHPEFIVPYQSYIKSSMNPIYTGTRFKMRFEVDDSPERS--GVVIGVNDIDPYKWPNSKWRCL 368
                      689******************************************************9..*********************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.89E-43155267IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.7E-40156275IPR015300DNA-binding pseudobarrel domain
CDDcd100176.56E-21161256No hitNo description
PfamPF023622.7E-22163263IPR003340B3 DNA binding domain
PROSITE profilePS5086313.169163265IPR003340B3 DNA binding domain
SMARTSM010192.1E-23163265IPR003340B3 DNA binding domain
PfamPF065077.1E-29289368IPR010525Auxin response factor
SuperFamilySSF542775.76E-8652726No hitNo description
PROSITE profilePS5174521.199658726IPR000270PB1 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:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 727 aa     Download sequence    Send to blast
MEFDLNHEVN EGEKIAFCNG EYEKGGHGYG SSSSSSCSSN SSPNCVTSYM ELWHACAGPL  60
TSLPKKGDVV AYFPQGHLEQ AFASSSFYTH MDFPTYDLPP QIYCKVANIQ LLANKENDEV  120
YTQLTLLPLP ELVGTNLGSK EVEGLDGEED ATELLPKSTP HMFCKTLTAS DTSTHGGFSV  180
PRRAAEDCFP PLDYKIQRPS QELVATDLHG VKWKFRHIYR GQPRRHLLTT GWSNFVSQKK  240
LVSGDAVLFL RGEDGELRLG LRRALRPKIG LPDSVIGKQS MYPNVLSAVA NAISTKITFP  300
VFYSPRASHP EFIVPYQSYI KSSMNPIYTG TRFKMRFEVD DSPERSGVVI GVNDIDPYKW  360
PNSKWRCLMV RWDKDIVSDQ QERVSPWEID PSVSLPSLSI QSSPRIKKLR TGSPTSPSNP  420
VNSGGLGILD FEESVRSSKV LQGQENVRFV SPAYGCGTVS SLLDKQPGVA GQHSLVSTKI  480
PKIKVSEFRS LAQPMTYTGI LESNRFPKVL QGQEICPLRT LTGKMNFHPG ALVKPGIATT  540
YYNLYQGSKT GFYPLASEGA RNMHFPFNVY DPDQGSVMAP YKSTIAKENL AFCLSRYQSN  600
VPNEHKPSEN PYVLNSLNTS VKVPKDVPDN GPRPSCKKLF GFPLERETTG TNSDVSSRSC  660
TKVHKQGSLV GRAIDLSKLK SYADLIYELE KLFGMEGLLH DPAKGWRILY TDKENDVMVV  720
GDDPWK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1205139122354Auxin response factor 1
4ldw_A1e-1205139122354Auxin response factor 1
4ldw_B1e-1205139122354Auxin response factor 1
4ldx_A1e-1205139122354Auxin response factor 1
4ldx_B1e-1205139122354Auxin response factor 1
4ldy_A1e-1205139122354Auxin response factor 1
4ldy_B1e-1205139122354Auxin 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. {ECO:0000269|PubMed:12036261}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010689575.10.0PREDICTED: auxin response factor 4 isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A0K9S3750.0A0A0K9S375_SPIOL; Auxin response factor
STRINGXP_010689575.10.0(Beta vulgaris)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.10.0auxin response factor 4
Publications ? help Back to Top
  1. 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]
  2. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  3. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  4. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  5. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  6. 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]