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 Cc02_g14070
Common NameGSCOC_T00029061001
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: 683aa    MW: 75440 Da    PI: 6.7535
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cc02_g14070genomeCGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B377.91.1e-24136237199
                  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 +    ++el
  Cc02_g14070 136 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyEQQ-RPSQELVAKDLHGMEWKFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFLR--GGDGEL 230
                  99****************************97433.45679************************************************3..378999 PP

                  EEEEE-S CS
           B3  93 vvkvfrk 99 
                  +++++r+
  Cc02_g14070 231 RLGIRRA 237
                  ***9986 PP
2Auxin_resp119.33.1e-39261342182
   Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                  +++a++t+ vF+v+YnPra++seF+v++++++k++ +++s+GmRfkm+feted++err++G++vg+sd+dpvrW++S+Wr+L
  Cc02_g14070 261 VVNAVTTRRVFNVCYNPRAGSSEFIVPYQRFSKSVAHSISAGMRFKMRFETEDAAERRCTGLIVGISDADPVRWSGSRWRCL 342
                  6899*****************************************************************************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019364.97E-42132242IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.1E-40133239IPR015300DNA-binding pseudobarrel domain
CDDcd100179.41E-23134236No hitNo description
SMARTSM010191.2E-24136238IPR003340B3 DNA binding domain
PROSITE profilePS5086313.634136238IPR003340B3 DNA binding domain
PfamPF023621.2E-22136237IPR003340B3 DNA binding domain
PfamPF065072.9E-34262342IPR010525Auxin response factor
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:0010582Biological Processfloral meristem determinacy
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 683 aa     Download sequence    Send to blast
MCGLIDLNTV NNDDDGNGSE MTPSASESVC MELWHACAGP LISLPKKGSR VVYLPQGHLE  60
QLADQLSLSN IDLPPHIFCR VVDVKLHAEA TTDEVYAQVS LLPDYQMEHK WKEGEVEVET  120
EEDVEGAGKS LTPHMFCKTL TASDTSTHGG FSVPRRAAED CFPPLDYEQQ RPSQELVAKD  180
LHGMEWKFRH IYRGQPRRHL LTTGWSAFVN KKKLVSGDAV LFLRGGDGEL RLGIRRAAQL  240
KSCSTFPTAS QQFNASSIIS VVNAVTTRRV FNVCYNPRAG SSEFIVPYQR FSKSVAHSIS  300
AGMRFKMRFE TEDAAERRCT GLIVGISDAD PVRWSGSRWR CLLVRWDDME VSRHNRVSPW  360
EIEPSGIVSG HSSLVTLGTK RTRTGLLTTK PEHSVARDAT GISEYGDIRL QKVLQGQEIV  420
GLNNPYDGFD ASSQHPSEMK SFPNTKDSRI SVVPNQLKSL QGDSFASHEV SFVEPFQFNQ  480
VLQGQETILN QSYGRGPAVD IVLESSGSSI LNGVQVPGQG NRWSAIRGYP THVQPPNPSG  540
QLSSPSSVMM FHQASYPVSK VRDAQCGGNL EKLEACNRGL FDTSERYIRR ISVCSPESQT  600
AVSMCKNSCR LFGFPLAEGK NGTNEENQIQ VKMPYDHDAA FVPENDVQLH PKPSLVTKVT  660
GNSCTKVSDL YNVRDMLLDI AL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldy_A1e-1152636416354Auxin response factor 1
4ldy_B1e-1152636416354Auxin 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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00021PBMTransfer from AT2G33860Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin under dark condition. {ECO:0000269|PubMed:17408882}.
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_027105403.10.0auxin response factor 3-like
SwissprotQ0JKI91e-179ARFB_ORYSJ; Auxin response factor 2
TrEMBLA0A068TT410.0A0A068TT41_COFCA; Auxin response factor
STRINGXP_009589968.10.0(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA61012333
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-167ARF family protein
Publications ? help Back to Top
  1. Khanday I,Yadav SR,Vijayraghavan U
    Rice LHS1/OsMADS1 controls floret meristem specification by coordinated regulation of transcription factors and hormone signaling pathways.
    Plant Physiol., 2013. 161(4): p. 1970-83
    [PMID:23449645]