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 PGSC0003DMP400021707
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: 648aa    MW: 72522.9 Da    PI: 7.0955
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400021707genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.52.6e-23125225198
                           EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                           f+kvlt sd++++g +++ +k+a+e+       +++++  ++l+ +d++  +W +k+i+r++++r++lt+GW++Fv++++L +gD++vF
  PGSC0003DMP400021707 125 FCKVLTASDTSTHGGFSVLRKHANEClppldmnQQIPT--QELIAKDLHDMEWHFKHIFRGQPRRHLLTTGWSNFVSSKRLVAGDSFVF 211
                           99****************************97544444..48*********************************************** PP

                           EE-SSSEE..EEEEE- CS
                    B3  83 kldgrsefelvvkvfr 98 
                              + +++el+v+v+r
  PGSC0003DMP400021707 212 L--RGDNGELRVGVRR 225
                           *..3489999****98 PP
2Auxin_resp981.3e-32251330183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                           a+ha++t++ F v+Y+Pr+  ++F+v+++k+++a+++ +svGmRfkm+fe e+ + rr++Gt+vgv dl++ +W++S WrsLk
  PGSC0003DMP400021707 251 ASHAVTTQTLFVVYYKPRT--TQFIVSLNKYLEAVNHGYSVGMRFKMQFEAEENPDRRFMGTIVGVDDLSS-QWKDSAWRSLK 330
                           689***************6..9**********************************************777.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.27E-41113254IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.1E-41118240IPR015300DNA-binding pseudobarrel domain
CDDcd100171.10E-21123225No hitNo description
PfamPF023625.1E-21125225IPR003340B3 DNA binding domain
SMARTSM010194.8E-22125227IPR003340B3 DNA binding domain
PROSITE profilePS5086311.702125227IPR003340B3 DNA binding domain
PfamPF065071.0E-30251330IPR010525Auxin response factor
PfamPF023093.3E-7550594IPR033389AUX/IAA domain
SuperFamilySSF542772.84E-9554628No hitNo description
PROSITE profilePS5174515.633558647IPR000270PB1 domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009734Biological Processauxin-activated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 648 aa     Download sequence    Send to blast
MASKNGCYQS QQKKNSSGKD DLYHELWQLC AGPIVDVPKE GESVYYFPQG HMEQLAKLSA  60
CRDVTAHELT DSSSGNGLLQ KCRAEEDNDE VYVQITLMPE APDKAEPTNP DPFLPEPVKP  120
KVHSFCKVLT ASDTSTHGGF SVLRKHANEC LPPLDMNQQI PTQELIAKDL HDMEWHFKHI  180
FRGQPRRHLL TTGWSNFVSS KRLVAGDSFV FLRGDNGELR VGVRRLVRQQ SSMPSSVISS  240
QSMHLGVLAT ASHAVTTQTL FVVYYKPRTT QFIVSLNKYL EAVNHGYSVG MRFKMQFEAE  300
ENPDRRFMGT IVGVDDLSSQ WKDSAWRSLK VRWDEPAAIA RPDRVSPWEI EPYVSSIPNA  360
LVPPTAGKNK RHRLHSEIKI SEPASSIASA VWNPSLDSPQ FNTSGINSST NCTLTSRTES  420
GWPLPHLNTA GMLVDETEDS RSASTWCGFP CVLAPQFGQG TNQPIVIPTD ERKCNTKTTC  480
RLFGIDLKKT SISTTEALLP PQPADISRVS AERAPPNMAP AGDSDQKSDL SVDFKDQMQG  540
HLRLPLKEVQ SKQSCSTRSR TKVQMQGVAV GRAVDLTILK GYNELTKELE EMFEIQGELQ  600
SRQKWGILFT DDEGDTMLMD DYPWQYSRKE RQGVDIARRR SLFLRSF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-156153526354Auxin response factor 1
4ldw_A1e-156153526354Auxin response factor 1
4ldw_B1e-156153526354Auxin response factor 1
4ldx_A1e-156153526354Auxin response factor 1
4ldx_B1e-156153526354Auxin 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400021707
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0136390.0BT013639.1 Lycopersicon esculentum clone 132441R, mRNA sequence.
GenBankHM0372500.0HM037250.1 Solanum lycopersicum cultivar Zhongshu No. 6 auxin response factor 9 (ARF9) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006343828.10.0PREDICTED: auxin response factor 9
SwissprotQ9XED80.0ARFI_ARATH; Auxin response factor 9
TrEMBLM1AWK80.0M1AWK8_SOLTU; Auxin response factor
STRINGPGSC0003DMT4000319650.0(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G23980.10.0auxin response factor 9
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]