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 cra_locus_9981_iso_7
Organism
Catharanthus roseus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus
Family ARF
Protein Properties Length: 885aa    MW: 98662.5 Da    PI: 6.7108
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
cra_locus_9981_iso_7genomeMPGR-
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B374.81e-23146247199
                                          EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHH CS
                                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeF 68 
                                          f+k+lt sd++++g +++ +++a+e+      + + + +++l+ +d++g++W++++i+r++++r++l++GW+ F
  cra_locus_9981_iso_7_len_3733_ver_3 146 FCKTLTASDTSTHGGFSVLRRHADEClppldmSRQ-PPTQELVAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVF 218
                                          99*****************************7333.34459********************************* PP

                                          HHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                                   B3  69 vkangLkegDfvvFkldgrsefelvvkvfrk 99 
                                          v++++L +gD ++F   + +++el+v+v+r+
  cra_locus_9981_iso_7_len_3733_ver_3 219 VSSKRLVAGDAFIFL--RGENGELRVGVRRA 247
                                          ***************..449999*****996 PP
2Auxin_resp119.23.3e-39272354183
                           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrW 74 
                                          a+ha++tk++F+v+Y+Pr+s++eF+v+++++++++k+++s+GmRfkm+fe+e+++e+r++Gt+vg++d+dp rW
  cra_locus_9981_iso_7_len_3733_ver_3 272 AWHAIQTKTMFTVYYKPRTSPAEFIVPFDQYMESVKNNYSIGMRFKMRFEGEEAPEQRFTGTIVGIEDADPKRW 345
                                          89************************************************************************ PP

                           Auxin_resp  75 pnSkWrsLk 83 
                                          ++SkWr Lk
  cra_locus_9981_iso_7_len_3733_ver_3 346 KDSKWRYLK 354
                                          ******996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.108.5E-42139261IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.22E-40142275IPR015300DNA-binding pseudobarrel domain
CDDcd100178.33E-22144246No hitNo description
PROSITE profilePS5086312.012146248IPR003340B3 DNA binding domain
SMARTSM010192.0E-23146248IPR003340B3 DNA binding domain
PfamPF023621.2E-21146247IPR003340B3 DNA binding domain
PfamPF065072.5E-36272354IPR010525Auxin response factor
PfamPF023091.1E-10698810IPR033389AUX/IAA domain
PROSITE profilePS5174523.391725809IPR000270PB1 domain
SuperFamilySSF542773.38E-11728802No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009737Biological Processresponse to abscisic acid
GO:0009911Biological Processpositive regulation of flower development
GO:0010047Biological Processfruit dehiscence
GO:0010150Biological Processleaf senescence
GO:0010227Biological Processfloral organ abscission
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
GO:0005515Molecular Functionprotein binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 885 aa     Download sequence    Send to blast
MTTSEVSIKG YSEPGDGSRG LPEATMGVSG AGKVDAETAL YTELWRACAG PLVTVPREGE  60
LVFYFPQGHI EQVEASTNQV ADQAMPVYNL PWKILCRVVN VQLKAEPDTD EVFAQVTLMP  120
ELDQDENAVK KDPMPPSPPR FHVHSFCKTL TASDTSTHGG FSVLRRHADE CLPPLDMSRQ  180
PPTQELVAKD LHGNEWRFRH IFRGQPRRHL LQSGWSVFVS SKRLVAGDAF IFLRGENGEL  240
RVGVRRAMRQ QGNAPSSVIS SHSMHLGVLA TAWHAIQTKT MFTVYYKPRT SPAEFIVPFD  300
QYMESVKNNY SIGMRFKMRF EGEEAPEQRF TGTIVGIEDA DPKRWKDSKW RYLKVRWDET  360
STISRPDRVS PWKIEPALSP PALNPLPVPR AKRPRSSILP SSPDSSVLTR EGSSKISIDP  420
SPASGLSRVL QGQESSTLRG TVAESNESDS SERPVVWAPS LEDEKMELSA SRRYGSERWL  480
QAGRAESSFT DLLSGFGNHN NATSDFCITS GNPTVAAASS MKRQFQDHEG KFNLLGNPWS  540
LMSSGLSLNL MDSSSKTYCQ GDTSYHSRGD ARYSGFREYS LISGSRLDNQ QTNWLMPPPM  600
TSYLQMPANS REMAQNPVLA QHHETTKPKE GNCRLFGIPL ISNSAAMDPA LSKKSRVIDS  660
GRQSPLGLHF HQSPAFEPDQ RSEQSPVSKV VENPSSNNEQ EKQSQSFHQI ARDNREGKVY  720
CGSARSCTKV HKQGIALGRS VDLAKFNDYD GLISELDQLF DFNGELKAHN KNWLVVYTDD  780
EGDMMLVGDD PWQEFCGMVR KIFIYTREEV QKMNPGTLSS RGEENSSVAE GLDVKEGKNL  840
PLTATSNLDD CXVLPLSRFL VGCSSYWNYG FMTGGMKDWT LPLYS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldx_A1e-1763937618354Auxin response factor 1
4ldx_B1e-1763937618354Auxin 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) (By similarity). Could act as transcriptional activator or repressor (PubMed:26959229, PubMed:26716451, PubMed:27645097, PubMed:28167023). Involved in the control of fruit ripening process (PubMed:26959229, PubMed:26716451, PubMed:28167023). Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26959229, PubMed:26716451). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). Regulates vegetative growth, lateral root formation and flower organ senescence, possibly partially by regulating gene expression of auxin and ethylene response factor (ERF) genes (PubMed:28167023). Plays a negative role in axillary shoot meristem formation (PubMed:27645097). {ECO:0000255|RuleBase:RU004561, ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229, ECO:0000269|PubMed:27645097, ECO:0000269|PubMed:28167023}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00574DAPTransfer from AT5G62000Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By tomato fruit ripening. Expression in tomato fruits is up-regulated by exogenous application of ethylene and down-regulated by inhibition of ethylene receptors with 1-methylcyclopropene (1-MCP) (PubMed:26959229, PubMed:26716451). Up-regulated by plant hormone abscisic acid (ABA) in tomato fruits (PubMed:26959229). Expression is not up-regulated by plant hormone auxin in tomato fruits (PubMed:26716451). Up-regulated by auxin and gibberellic acid (GA), and down-regulated by ethylene in seedlings (PubMed:28167023). Down-regulated during decapitation-induced axillary shoot development and by excision of immature leaves. Down-regulation is inhibited by the application of auxin on the cut surface (PubMed:27645097). {ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229, ECO:0000269|PubMed:27645097, ECO:0000269|PubMed:28167023}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_027122786.10.0auxin response factor 2A-like
RefseqXP_027122787.10.0auxin response factor 2A-like
SwissprotQ2LAJ30.0ARF2A_SOLLC; Auxin response factor 2A
TrEMBLA0A068VJB60.0A0A068VJB6_COFCA; Auxin response factor
STRINGXP_009769542.10.0(Nicotiana sylvestris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA26182444
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]
  3. Xu T, et al.
    SlARF2a plays a negative role in mediating axillary shoot formation.
    Sci Rep, 2016. 6: p. 33728
    [PMID:27645097]
  4. Ren Z,Liu R,Gu W,Dong X
    The Solanum lycopersicum auxin response factor SlARF2 participates in regulating lateral root formation and flower organ senescence.
    Plant Sci., 2017. 256: p. 103-111
    [PMID:28167023]