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 30128.m008545
Common NameRCOM_1438160
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family ARF
Protein Properties Length: 787aa    MW: 89007.7 Da    PI: 6.5476
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
30128.m008545genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.79.6e-23124225199
                    EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                    f+k+lt sd++++g +++ +++a+e+      +++++  ++l+ +d+ g++W++++i+r++++r++l++GW+ Fv+a++L +gD ++F   + +++
  30128.m008545 124 FCKTLTASDTSTHGGFSVLRRHADEClppldmSLQPPA-QELVAKDLLGNEWRFRHIFRGQPRRHLLQSGWSLFVSAKKLVAGDAFIFL--RGETG 216
                    99*****************************9666665.59************************************************..44999 PP

                    ..EEEEE-S CS
             B3  91 elvvkvfrk 99 
                    el+v+v+r+
  30128.m008545 217 ELRVGVRRA 225
                    9*****996 PP
2Auxin_resp117.98.3e-39250332183
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                    a+ha+st+++F+v+Y+Pr+s++eF+++++k+++++k+++++GmRfkm+fe e+++e+r+ Gtv+gv+++dp rWp S+Wr+Lk
  30128.m008545 250 AWHAVSTGTMFTVYYKPRTSPAEFIIPMDKYMESVKNNFTIGMRFKMRFEAEEAPEQRFLGTVIGVEHADPKRWPTSRWRCLK 332
                    89*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.73E-38116253IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.1E-38118238IPR015300DNA-binding pseudobarrel domain
CDDcd100171.31E-20122224No hitNo description
SMARTSM010193.6E-21124226IPR003340B3 DNA binding domain
PROSITE profilePS5086311.561124226IPR003340B3 DNA binding domain
PfamPF023629.6E-21124225IPR003340B3 DNA binding domain
PfamPF065071.8E-35250332IPR010525Auxin response factor
SuperFamilySSF542771.28E-12672751No hitNo description
PROSITE profilePS5174523.664674767IPR000270PB1 domain
PfamPF023096.4E-7715760IPR033389AUX/IAA 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: 787 aa     Download sequence    Send to blast
MDDNGNGIAV SGKDSGDALY KELWHACAGP LVTVPRQGEL VFYFPQGHIE QVEASTNQAA  60
DEQMPAYDLP GKILCRVVNV QLKAEPDTDE VFAQITLLPQ SEQDENLVEK KALPAPTRPR  120
VHSFCKTLTA SDTSTHGGFS VLRRHADECL PPLDMSLQPP AQELVAKDLL GNEWRFRHIF  180
RGQPRRHLLQ SGWSLFVSAK KLVAGDAFIF LRGETGELRV GVRRAMRQSC NVPSSFMSSH  240
SMHIGILATA WHAVSTGTMF TVYYKPRTSP AEFIIPMDKY MESVKNNFTI GMRFKMRFEA  300
EEAPEQRFLG TVIGVEHADP KRWPTSRWRC LKVRWDETSS LHRPDRVSPW EVEPALAPLD  360
PLPTCRLKRS RSNMPMPSAD SSAVMKKDNW LSRDPQNQDI PTMRSKLAVN NYLDTAQNPN  420
GWTLFQGKDQ NGTDFDKRRS GPDNGMPQMM PGVEYKNSTT GPDTIHETYD FSRPLVEFHP  480
ANVDQLKTHA FGQESKFNRC PPCKMHSSSP HNTPESKLEL CASKNKYHSL NIKSDTLRQN  540
DTVHGLEVDY QPGSWISPLT NADNSPYLAS EKLYPVALQQ HEVKSKEDGN CKLFGISLIS  600
SPVPMENATV DNNFMHRPQG LFNLASDKLQ DFGSDLSLQQ LKKPKFFDST IRCEEEKLFM  660
ASHFIEGKLQ NGSTRCVKVH KQGIAVGRYV DLTKFNGYNE LIAELDRIFE FSGELITSNK  720
NWLIAFTDDE GDMMLVGDDP WEEFCSMVRR IFVYTREEIN RMNQRSLNPE LVENSVIADQ  780
LAGPEEK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-173113548354Auxin response factor 1
4ldw_A1e-173113548354Auxin response factor 1
4ldw_B1e-173113548354Auxin response factor 1
4ldx_A1e-173113548354Auxin response factor 1
4ldx_B1e-173113548354Auxin response factor 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that binds specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs) (By similarity). Could act as transcriptional activator or repressor. Involved in the control of fruit ripening process. Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26716451, PubMed:26959229). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). {ECO:0000255|RuleBase:RU004561, ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap30128.m008545
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By tomato fruit ripening. Expression is up-regulated by plant hormone auxin in tomato fruits. {ECO:0000269|PubMed:26716451}.
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_015570524.10.0auxin response factor 2B isoform X2
SwissprotK4DF010.0ARF2B_SOLLC; Auxin response factor 2B
TrEMBLB9RFY90.0B9RFY9_RICCO; Auxin response factor
STRINGXP_002512658.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF32813366
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
Publications ? help Back to Top
  1. Tomato Genome Consortium
    The tomato genome sequence provides insights into fleshy fruit evolution.
    Nature, 2012. 485(7400): p. 635-41
    [PMID:22660326]
  2. Breitel DA, et al.
    AUXIN RESPONSE FACTOR 2 Intersects Hormonal Signals in the Regulation of Tomato Fruit Ripening.
    PLoS Genet., 2016. 12(3): p. e1005903
    [PMID:26959229]