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 29742.m001397
Common NameRCOM_0716960
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: 667aa    MW: 74784.7 Da    PI: 7.2957
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
29742.m001397genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.21.5e-23139239198
                    EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                    f+k+lt sd++++g +++ +k+a+e+       ++++++  +l+ +d++g +W++k+i+r++++r++lt+GW+ Fv +++L +gD +vF   ++++
  29742.m001397 139 FCKILTASDTSTHGGFSVLRKHATEClppldmnQSIPTQ--ELVAKDLHGYEWRFKHIFRGQPRRHLLTTGWSTFVTSKRLVAGDAFVFL--RSDN 230
                    99****************************976555544..8************************************************..4478 PP

                    E..EEEEE- CS
             B3  90 felvvkvfr 98 
                    +el+v+v+r
  29742.m001397 231 GELRVGVRR 239
                    999****98 PP
2Auxin_resp103.42.8e-34265344183
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                    a+ha++t++ F v+Y+Pr+  s+F++ ++k+++a+++ +s+GmRfkm+fe+eds+err++Gt+vgv d++p +W++SkWrsLk
  29742.m001397 265 ASHAVTTQTLFVVYYKPRT--SQFIIGLNKYLEAVNHGFSLGMRFKMRFEGEDSPERRFMGTIVGVGDFSP-EWSGSKWRSLK 344
                    689***************6..9*************************************************.*********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.32E-40130268IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.2E-40132254IPR015300DNA-binding pseudobarrel domain
CDDcd100178.48E-20137239No hitNo description
SMARTSM010196.0E-22139241IPR003340B3 DNA binding domain
PROSITE profilePS5086312.294139241IPR003340B3 DNA binding domain
PfamPF023621.9E-21139239IPR003340B3 DNA binding domain
PfamPF065075.2E-32265344IPR010525Auxin response factor
PfamPF023098.6E-7524588IPR033389AUX/IAA domain
SuperFamilySSF542771.37E-11548628No hitNo description
PROSITE profilePS5174524.719552633IPR000270PB1 domain
PfamPF023094.2E-7597641IPR033389AUX/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:0009506Cellular Componentplasmodesma
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 667 aa     Download sequence    Send to blast
MLRVIISGVV RFLMAKEDEM ICIQSYGRHV QVHWWRYQDL EREFSTFLKV TWNRVLWSQS  60
ISDYLQLEAS TNQELTQQIP KFNLPSKILC RVVHIHLLAE QETDEVYAQI TLHPEVDQTE  120
PTSPDQCTPE PQKRPVHSFC KILTASDTST HGGFSVLRKH ATECLPPLDM NQSIPTQELV  180
AKDLHGYEWR FKHIFRGQPR RHLLTTGWST FVTSKRLVAG DAFVFLRSDN GELRVGVRRL  240
ARQQSPMPSS VISSQSMHLG VLATASHAVT TQTLFVVYYK PRTSQFIIGL NKYLEAVNHG  300
FSLGMRFKMR FEGEDSPERR FMGTIVGVGD FSPEWSGSKW RSLKIQWDEP ATVQRPDRVS  360
PWEIEPFAAS ASVNLPQTVG KSKRPRPVDT TASDNCLLNG SSCSSRVRSE GIWPHSPHMD  420
VSLSLFSDSA DDNRTITTQS VISGYAPAFP SRQSNSLVHE QVEKGKKYEN SVGCRLFGID  480
LISNSSTAAP PEKESLGLKM DSNGPRGSAP AVDGTDEAQN VDVSKASKEQ KEAASEVMPK  540
ETHSKPGTTS TRTRTKVQMQ GVAVGRAVDL TALKGYGDLI KELEELFEIK GELSTREKWA  600
VVFTDDEGDM MLVGDDPWRE FCKMVRKILI YSSEEAKKLK TRCKLLASSL EGEGAIASLD  660
SEHRSDT
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1536636751355Auxin response factor 1
4ldw_A1e-1536636751355Auxin response factor 1
4ldw_B1e-1536636751355Auxin response factor 1
4ldx_A1e-1536636751355Auxin response factor 1
4ldx_B1e-1536636751355Auxin response factor 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1382386KRPRP
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
PlantRegMap29742.m001397
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_015577377.10.0auxin response factor 11
SwissprotQ9ZPY60.0ARFK_ARATH; Auxin response factor 11
TrEMBLB9SBF60.0B9SBF6_RICCO; Auxin response factor
STRINGXP_002523326.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF15113396
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G46530.10.0auxin response factor 11
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. 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]