PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID evm_27.model.AmTr_v1.0_scaffold00155.56
Common NameAMTR_s00155p00082980
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family ARF
Protein Properties Length: 808aa    MW: 88032.5 Da    PI: 7.7424
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00155.56genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B372.93.8e-23147248199
                                              EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-T CS
                                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltk 63 
                                              f k+lt+sd+++ g +++p+ +ae++       + ++ +  t+  +d +g  W++++iyr++++r++lt+
  evm_27.model.AmTr_v1.0_scaffold00155.56 147 FAKTLTQSDANNGGGFSVPRYCAETIfprldysMDPPVQ--TVLAKDVHGTIWKFRHIYRGTPRRHLLTT 214
                                              89*****************************96555545..8999************************* PP

                                              THHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                                       B3  64 GWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                                              GW+ Fv++++L +gD++vF   ++ ++el+v+v+r+
  evm_27.model.AmTr_v1.0_scaffold00155.56 215 GWSTFVNQKKLVAGDSIVFL--RSANGELCVGVRRS 248
                                              ********************..4478999*****97 PP
2Auxin_resp108.95.5e-36307390183
                               Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdl 69 
                                              aa+ a+ +  FevvY+Pr+st+eF+v+ ++v+ a++v++s GmRfkmafetedss++++ +Gt++gv+ +
  evm_27.model.AmTr_v1.0_scaffold00155.56 307 AASLAAAGRSFEVVYYPRVSTPEFCVRSSSVNCAMRVQWSTGMRFKMAFETEDSSRISWfMGTISGVQVA 376
                                              67889999************************************************************** PP

                               Auxin_resp  70 dpvrWpnSkWrsLk 83 
                                              dpv+WpnS+Wr+L+
  evm_27.model.AmTr_v1.0_scaffold00155.56 377 DPVNWPNSPWRVLQ 390
                                              ************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.3E-36141251IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.54E-29145256IPR015300DNA-binding pseudobarrel domain
CDDcd100173.56E-20146247No hitNo description
PfamPF023626.3E-21147248IPR003340B3 DNA binding domain
PROSITE profilePS5086312.844147249IPR003340B3 DNA binding domain
SMARTSM010194.1E-20147249IPR003340B3 DNA binding domain
PfamPF065076.2E-32307390IPR010525Auxin response factor
PROSITE profilePS5174517.133700780IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007389Biological Processpattern specification process
GO:0009734Biological Processauxin-activated signaling pathway
GO:0048829Biological Processroot cap development
GO:0051301Biological Processcell division
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 808 aa     Download sequence    Send to blast
MFGAELNVKI GGLATRPGIR CPFDFHVSGS TMAITLDSSK NGEKCLDSQL WHACAGGMVQ  60
MHKVNTKVYY FPQGHAEHAC NPVDFPPTVP PYLLCRVTAV KFLADPETDE VFARIRLDPI  120
KNEGYEDDCE GFADSNGMDC AEKPSSFAKT LTQSDANNGG GFSVPRYCAE TIFPRLDYSM  180
DPPVQTVLAK DVHGTIWKFR HIYRGTPRRH LLTTGWSTFV NQKKLVAGDS IVFLRSANGE  240
LCVGVRRSSR GIGGESSAWC PAGFSVFLRE DENKLMKSAN GGGYGGNGNG GVWRNRGKVS  300
AKEVLEAASL AAAGRSFEVV YYPRVSTPEF CVRSSSVNCA MRVQWSTGMR FKMAFETEDS  360
SRISWFMGTI SGVQVADPVN WPNSPWRVLQ VSWDEPDLLQ NVKRVNPWLV EVVSNIPTLQ  420
ISPFSLPKKK HRISHPDFSS LDGTHCSLVG PTPTLPPNLL GLVNPPWQQH VDSVPSAGIQ  480
GARHGRFGIS LPNLCPNSST NANNDIKPHH LQQQGVVLFP DGFWGGAPPP PPVSTELNIG  540
NGSLSSIDRS SIFNEVPASL LTNNSPNRFK RSITTVTMNE NNSSSPSKGS VSGTHFMLFG  600
KSICMDQQQA SGLSSTTDNG SPVRTSNSSS NGNPESFTVA GSVAKAEGPN FCDNFGLRLS  660
SGMVPPVFGA PQGLFWCKDQ MTKLSLEKGG GCENGFDDGM GHCKVFMESE DVGRTLDLSL  720
FGSYEELYKK LAAMFMVEER EMEGRVLYRD ANGAVRHTGD EPYSNFMKTA RRLTILSDSG  780
SDNMGRQMKL NQSKPLIWLH LLGKMGL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A7e-783241137388Auxin 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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00461DAPTransfer from AT4G30080Download
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_011624034.10.0auxin response factor 18
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLW1PJ850.0W1PJ85_AMBTC; Auxin response factor
STRINGERN077010.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP5261578
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. 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. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]
  3. Huang J,Li Z,Zhao D
    Deregulation of the OsmiR160 Target Gene OsARF18 Causes Growth and Developmental Defects with an Alteration of Auxin Signaling in Rice.
    Sci Rep, 2016. 6: p. 29938
    [PMID:27444058]