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 PGSC0003DMP400037381
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family ARF
Protein Properties Length: 607aa    MW: 66218.9 Da    PI: 7.861
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400037381genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.61.1e-23117218199
                           EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                           f k+lt+sd+++ g +++p+ +ae++         ++ +  t+  +d +g++W++++iyr++++r++lt+GW+ Fv+ ++L +gD++vF
  PGSC0003DMP400037381 117 FAKTLTQSDANNGGGFSVPRYCAETIfprldysADPPVQ--TILAKDVHGETWKFRHIYRGTPRRHLLTTGWSTFVNHKKLVAGDSIVF 203
                           89****************************996555555..89********************************************** PP

                           EE-SSSEE..EEEEE-S CS
                    B3  83 kldgrsefelvvkvfrk 99 
                              + +++ l+v+++r+
  PGSC0003DMP400037381 204 L--RAENGDLCVGIRRA 218
                           *..4488999****997 PP
2Auxin_resp113.32.3e-37285368183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrl.sGtvvgvsdldpvrWpnSkWrsLk 83 
                           aa+ a+++++Fev+Y+Prast+eF+vk + v++al+++++ GmRfkm fetedss++++ +Gt+++v+ +dpvrWp+S+Wr+L+
  PGSC0003DMP400037381 285 AANLAASGQPFEVIYYPRASTPEFCVKSSLVKSALQIRWCSGMRFKMPFETEDSSRISWfMGTISSVQVSDPVRWPDSPWRLLQ 368
                           7899******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.9E-38108221IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.53E-29112219IPR015300DNA-binding pseudobarrel domain
CDDcd100171.93E-21116217No hitNo description
PfamPF023627.1E-22117218IPR003340B3 DNA binding domain
SMARTSM010191.7E-21117219IPR003340B3 DNA binding domain
PROSITE profilePS5086313.112117219IPR003340B3 DNA binding domain
PfamPF065071.8E-32285368IPR010525Auxin response factor
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: 607 aa     Download sequence    Send to blast
MDPKDKVKEI EKCLDSQLWH ACAGSMVQMP SISSKVFYFP QGHSEHASGN VDFRSSIRIP  60
SYIPCKVSAI KYMADPETDE VFAKIRLIPV GRNEVEFDDD GVVGMNGSDN QDKPSSFAKT  120
LTQSDANNGG GFSVPRYCAE TIFPRLDYSA DPPVQTILAK DVHGETWKFR HIYRGTPRRH  180
LLTTGWSTFV NHKKLVAGDS IVFLRAENGD LCVGIRRAKR GIGGGPETSS GWNPAGGNCM  240
VPYGGFSSFL REDENKLMRN GNGNGNNGGN LMNKGKVKAE SVVEAANLAA SGQPFEVIYY  300
PRASTPEFCV KSSLVKSALQ IRWCSGMRFK MPFETEDSSR ISWFMGTISS VQVSDPVRWP  360
DSPWRLLQVT WDEPDLLQNV KRVSPWLVEL VSNMPTIHLS PFSPPRKKLR LPQHPDFPLD  420
GHLPMPAFSG NHLLGPNSPF GCLPDNTPAG MQGARHAQYG LSLSDLHFNK LHSSLFPVGF  480
PPLDQAAAAP RRPLNIPMIS KPCNNENISC LLTMGNSAHS TKKSDIGKAP QLVLFGQPIL  540
TEQQISLSCS GDTVSTVRTG NSSSDGNADK IGNVSDGSGS ALNQRGLTER SPCDTFQSEP  600
NTEIGH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A2e-80438941388Auxin 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
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400037381
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754480.0HG975448.1 Solanum pennellii chromosome ch09, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006354327.10.0PREDICTED: auxin response factor 18-like
SwissprotQ653H70.0ARFR_ORYSJ; Auxin response factor 18
TrEMBLM1BY350.0M1BY35_SOLTU; Auxin response factor
STRINGPGSC0003DMT4000555220.0(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G30080.10.0auxin 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. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  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]