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 Cc01_g11410
Common NameGSCOC_T00024270001
Organism
Coffea canephora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea
Family ARF
Protein Properties Length: 832aa    MW: 91569.5 Da    PI: 7.1879
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cc01_g11410genomeCGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.52.5e-23174275199
                  EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 
                  f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d +g +W++++iyr++++r++lt+GW+ Fv++++L +gD v+F   + +++ l
  Cc01_g11410 174 FCKTLTASDTSTHGGFSVPRRAAEDCfpplnyE-EPRPSQELVARDIHGVEWRFRHIYRGQPRRHLLTTGWSIFVSQKNLVSGDAVLFL--RGEGGDL 268
                  99****************************954.445678*************************************************..4489999 PP

                  EEEEE-S CS
           B3  93 vvkvfrk 99 
                  +++++r+
  Cc01_g11410 269 RLGIRRA 275
                  ****997 PP
2Auxin_resp1011.5e-33300381182
   Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                  +a+a+s++++F+++Y+ ras+++F+v+++k++k++++++ vG+Rfk++++ ++++ rr+sG+v+gv d+dp rWpnSkWr+L
  Cc01_g11410 300 VANAVSSNTAFKIFYSTRASHADFIVPYQKYVKSINNQIPVGTRFKISIDLDNAPDRRYSGVVTGVGDVDPHRWPNSKWRCL 381
                  689******************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.96E-41165279IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.0E-38166282IPR015300DNA-binding pseudobarrel domain
CDDcd100172.50E-22172274No hitNo description
SMARTSM010194.7E-24174276IPR003340B3 DNA binding domain
PROSITE profilePS5086313.084174276IPR003340B3 DNA binding domain
PfamPF023624.3E-21174275IPR003340B3 DNA binding domain
PfamPF065072.0E-28300381IPR010525Auxin response factor
PfamPF023091.7E-7701798IPR033389AUX/IAA domain
SuperFamilySSF542779.32E-10708792No hitNo description
PROSITE profilePS5174521.272713800IPR000270PB1 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:0010050Biological Processvegetative phase change
GO:0010158Biological Processabaxial cell fate specification
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 832 aa     Download sequence    Send to blast
MEIDLNHAIV ESSEVEKNAN ACSCNGECDK GGCGFGCVYC SLSTSTSSCS SNASSSNPPP  60
PSKIFMELWY ACAGPVTSLP KKGNVVVYFP QGHLEQAASV SSFPALEVPS FDLQPQIFCK  120
VLEVELLANK ENDEVYTQLT LLPISEVLAL RSGGKDHEEA GTEEVPIKST SHMFCKTLTA  180
SDTSTHGGFS VPRRAAEDCF PPLNYEEPRP SQELVARDIH GVEWRFRHIY RGQPRRHLLT  240
TGWSIFVSQK NLVSGDAVLF LRGEGGDLRL GIRRASGLRN GLSELVIKSQ NAYPRVLAPV  300
ANAVSSNTAF KIFYSTRASH ADFIVPYQKY VKSINNQIPV GTRFKISIDL DNAPDRRYSG  360
VVTGVGDVDP HRWPNSKWRC LMVRWEEDAS NRHERVSPWE IDFSASFANM TIQTSPRMKK  420
LRTCMQADVQ NSSRNGADLL SPMPYTNNVS GANKAVMAPP VWNGYIPAGQ VPLWGFAESA  480
RSGKVLQGQE NLGLASPLYG GDKINRQLDF EMHSVAHQQF VSNGMEKANY SDFSRSQPSI  540
TYSGSMETNS FPKVLQGQEI CSLKSLTGKT ELNPSGWRKP ELGGNILNIN QRSFPSCYPL  600
ASEGIRNLVF PYNGVYKAGQ DPVMLSYMTN RERENHVLNS KSFRDGLTKE DGRHLSLANE  660
PKAFEKKSIV PTTGTPLNNK KDENKGAGSV CKLFGVSLTE EAPASSSQSS SRRSCTKVHK  720
QGNLVGRAID LSKLKSYDDL LVELEKLFSM EGMLREPGKG WRVLYTDSEK DMMVVGDDPW  780
PEFCDVVSKI HILTIEEVQK MSIGVISDET RSCLEESPAV MDGSKSSVTA P*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-1086740222353Auxin response factor 1
4ldy_B1e-1086740222353Auxin 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}.
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_027086516.10.0auxin response factor 4-like isoform X1
SwissprotQ9ZTX90.0ARFD_ARATH; Auxin response factor 4
TrEMBLA0A068UF770.0A0A068UF77_COFCA; Auxin response factor
STRINGPGSC0003DMT4000208390.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA51432234
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60450.10.0auxin response factor 4
Publications ? help Back to Top
  1. Ozerova LV,Krasnikova MS,Troitsky AV,Solovyev AG,Morozov SY
    TAS3 Genes for small ta-siARF RNAs in plants belonging to subtribe Senecioninae: occurrence of prematurely terminated RNA precursors.
    Mol. Gen. Mikrobiol. Virusol., 2013.
    [PMID:24003511]
  2. Machida C,Nakagawa A,Kojima S,Takahashi H,Machida Y
    The complex of ASYMMETRIC LEAVES (AS) proteins plays a central role in antagonistic interactions of genes for leaf polarity specification in Arabidopsis.
    Wiley Interdiscip Rev Dev Biol, 2015 Nov-Dec. 4(6): p. 655-71
    [PMID:26108442]
  3. Pashkovskiy PP,Kartashov AV,Zlobin IE,Pogosyan SI,Kuznetsov VV
    Blue light alters miR167 expression and microRNA-targeted auxin response factor genes in Arabidopsis thaliana plants.
    Plant Physiol. Biochem., 2016. 104: p. 146-54
    [PMID:27031426]
  4. Matsumura Y, et al.
    A genetic link between epigenetic repressor AS1-AS2 and a putative small subunit processome in leaf polarity establishment of Arabidopsis.
    Biol Open, 2016. 5(7): p. 942-54
    [PMID:27334696]
  5. Guan C, et al.
    Spatial Auxin Signaling Controls Leaf Flattening in Arabidopsis.
    Curr. Biol., 2017. 27(19): p. 2940-2950.e4
    [PMID:28943086]
  6. Liu Z, et al.
    ARF2-ARF4 and ARF5 are Essential for Female and Male Gametophyte Development in Arabidopsis.
    Plant Cell Physiol., 2018. 59(1): p. 179-189
    [PMID:29145642]