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 29609.m000587
Common NameRCOM_0496620
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: 671aa    MW: 75134.4 Da    PI: 5.8481
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
29609.m000587genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3711.5e-22120220198
                    EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSE CS
             B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrse 89 
                    f+k+lt sd++++g +++ +++a+++       +++    ++l+ +d++g++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F   + ++
  29609.m000587 120 FCKTLTASDTSTHGGFSVLRRHADDClppldmsQQP--PWQELVATDLHGNQWHFRHIFRGQPRRHLLTTGWSVFVSSKKLVAGDAFIFL--RGEN 211
                    99****************************964333..4459************************************************..4499 PP

                    E..EEEEE- CS
             B3  90 felvvkvfr 98 
                    +el+v+v+r
  29609.m000587 212 GELRVGVRR 220
                    99*****97 PP
2Auxin_resp110.61.6e-36246328183
     Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                    a+ha++t++ F+v+Y+Pr+s+seF+v+v+k+++a ++k+svGmRfkm+fe+e+++err+sGt+vgv d  ++ W +S+WrsLk
  29609.m000587 246 ASHAIATGTLFSVFYKPRTSRSEFIVSVNKYLEARSHKLSVGMRFKMRFEGEEVPERRFSGTIVGVGDNVSSGWADSEWRSLK 328
                    789******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.05E-43109249IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.109.7E-41117235IPR015300DNA-binding pseudobarrel domain
CDDcd100178.27E-21118220No hitNo description
SMARTSM010192.0E-21120222IPR003340B3 DNA binding domain
PROSITE profilePS5086311.265120222IPR003340B3 DNA binding domain
PfamPF023622.7E-20120220IPR003340B3 DNA binding domain
PfamPF065071.1E-34246328IPR010525Auxin response factor
PfamPF023092.6E-12542635IPR033389AUX/IAA domain
PROSITE profilePS5174528.148545638IPR000270PB1 domain
SuperFamilySSF542777.19E-12548622No 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: 671 aa     Download sequence    Send to blast
MPIGQPHTGG CNDALYKELW HACAGPLVNL PREGERVYYF PQGHMEQLEA SMHQGLEPQM  60
PSFDLPSKIL CKVVNVQRKA EPETDEVYAQ ITLLPDPDQS EVTSPDTPLP EPERCTVHSF  120
CKTLTASDTS THGGFSVLRR HADDCLPPLD MSQQPPWQEL VATDLHGNQW HFRHIFRGQP  180
RRHLLTTGWS VFVSSKKLVA GDAFIFLRGE NGELRVGVRR LMRQQTNMPS SVISSQSMHL  240
GVLATASHAI ATGTLFSVFY KPRTSRSEFI VSVNKYLEAR SHKLSVGMRF KMRFEGEEVP  300
ERRFSGTIVG VGDNVSSGWA DSEWRSLKVQ WDEPSSILRP DRVSSWELEP LVATTPSNSQ  360
PVQRNKRARP SVLPSTPDIS SLGMWKPQTE STAFSYGDFQ RGRDLYPSHN FSTSAKTNYL  420
GFSGNSPLSG VSPNSLYRPN RVESVTDSFV PVIDKDSGER RQGSGNGYRL FGIQLVGNSN  480
AEETSPLITT SGMVGDDRPV VSFDAESDQH SEPSNINRSE IPSISCEPEK SCLRSPQELQ  540
SRQIRSCTKV HMQGIAVGRA VDLTRFECYE DLLRKLEEMF DIEGELSGFS KKWQVVYTDD  600
EDDMMMVGDD PWHEFCSMVR KIFIYTSEEV KRLSPKSKLP VNEEIKAAKA DDDVDTTVNM  660
EDRSSIVGPG C
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A0.043519355Auxin response factor 1
4ldw_A0.043519355Auxin response factor 1
4ldw_B0.043519355Auxin 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
PlantRegMap29609.m000587
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002527835.20.0auxin response factor 1
SwissprotQ8L7G00.0ARFA_ARATH; Auxin response factor 1
TrEMBLB9SPB60.0B9SPB6_RICCO; Auxin response factor
STRINGXP_002527835.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF68022638
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. 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]
  2. 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]
  3. 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]
  4. 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]