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 PGSC0003DMP400036010
Common NameLOC102604408
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: 655aa    MW: 72726.1 Da    PI: 6.5109
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400036010genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3727.5e-23128228198
                           EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                           f+k+lt sd++++g +++ +++a+e+       +++    ++l+  d++g++W +++i+r++++r++lt+GW+ Fv+a++L +gD ++F
  PGSC0003DMP400036010 128 FCKTLTASDTSTHGGFSVLRRHADEClpqldmsQQP--PWQELVASDLHGNEWHFRHIFRGQPRRHLLTTGWSVFVSAKKLVAGDAFIF 214
                           99****************************964333..4459*********************************************** PP

                           EE-SSSEE..EEEEE- CS
                    B3  83 kldgrsefelvvkvfr 98 
                              + +++el+v+v+r
  PGSC0003DMP400036010 215 L--RGDSGELRVGVRR 228
                           *..348999*****97 PP
2Auxin_resp116.32.7e-38254336183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                           a+ha+st++ F+v+Y+Pr+s+seF+v+v+k+++a ++k+svGmRfkm+fe+e+++err+sGt+vgv d  ++rWp+S+WrsLk
  PGSC0003DMP400036010 254 ASHAISTGTLFSVFYKPRTSQSEFIVSVNKYLEARNHKLSVGMRFKMRFEGEEVPERRFSGTIVGVGDNPSSRWPDSEWRSLK 336
                           789******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.92E-43119257IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.9E-39125243IPR015300DNA-binding pseudobarrel domain
CDDcd100171.18E-19126228No hitNo description
PfamPF023628.3E-21128228IPR003340B3 DNA binding domain
PROSITE profilePS5086311.166128230IPR003340B3 DNA binding domain
SMARTSM010197.0E-20128230IPR003340B3 DNA binding domain
PfamPF065071.9E-36254336IPR010525Auxin response factor
PfamPF023091.0E-13532631IPR033389AUX/IAA domain
PROSITE profilePS5174526.202540633IPR000270PB1 domain
SuperFamilySSF542772.49E-12542617No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009734Biological Processauxin-activated signaling pathway
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: 655 aa     Download sequence    Send to blast
MAHVAANHFG GGTHPGVSAN GALYKELWHA CAGPLVTVPR EGERVYYFPQ GHMEQLEAST  60
HQGVDQHLPS FNLPAKILCK VMNVQLRAES ETDEVYAQIT LLPEQDQGEI TSPDPPPPEP  120
EKCTVHSFCK TLTASDTSTH GGFSVLRRHA DECLPQLDMS QQPPWQELVA SDLHGNEWHF  180
RHIFRGQPRR HLLTTGWSVF VSAKKLVAGD AFIFLRGDSG ELRVGVRRLM RQLNNMPSSV  240
ISSHSMHLGV LATASHAIST GTLFSVFYKP RTSQSEFIVS VNKYLEARNH KLSVGMRFKM  300
RFEGEEVPER RFSGTIVGVG DNPSSRWPDS EWRSLKVHWD EPSSILRPDR VSPWDMEPLV  360
AATPTNTQPP QRNKRARPSV LPSPVQELPA LGMWKSPVDS PSSFSYCDPS RGRDLYPSPK  420
LSSAAKGLGY GENGSMPLST KTMYWSSQSE TCTESVAPAS EKRPANGCRL FGIELRDCPT  480
IDESSSVAMP SAVMEDLPAP SLNIDSDRNS EPSNPIPSVS CEPEKSSLRS THESQSKQIR  540
SCTKVHMQGK AVGRAVDLTR LDSYEDLLKK LEEMFEIEGE LRGSTKKWQV VYTDNEDDMM  600
MVGDDPWHEF CSMVRKIYVY TAEEAKKLSP KIKLPVDDVK PVSDAGIVSN EEKA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A0.053593355Auxin response factor 1
4ldw_A0.053593355Auxin response factor 1
4ldw_B0.053593355Auxin 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
PlantRegMapPGSC0003DMP400036010
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHM0611540.0HM061154.1 Solanum lycopersicum auxin response factor 1 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006349280.10.0PREDICTED: auxin response factor 1
RefseqXP_006349281.10.0PREDICTED: auxin response factor 1
RefseqXP_006349282.10.0PREDICTED: auxin response factor 1
RefseqXP_015165011.10.0PREDICTED: auxin response factor 1
SwissprotQ8L7G00.0ARFA_ARATH; Auxin response factor 1
TrEMBLM1BUW30.0M1BUW3_SOLTU; Auxin response factor
STRINGPGSC0003DMT4000533800.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA58381923
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. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  2. 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]
  3. 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]
  4. 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]
  5. 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]