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 Thecc1EG001906t1
Common NameTCM_001906
Organism
Theobroma cacao
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma
Family ARF
Protein Properties Length: 1007aa    MW: 111854 Da    PI: 6.6434
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG001906t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.18.2e-24128229199
                       EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                       f+k+lt sd++++g +++p++ ae+        +++++  ++l+ +d++ ++W++++i+r++++r++lt+GW+ Fv+a++L +gD+v+F   +
  Thecc1EG001906t1 128 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfsQQPPA--QELIARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--W 216
                       99*****************************8544444..48************************************************..8 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                       +++ +l+++++r+
  Thecc1EG001906t1 217 NEKNQLLLGIRRA 229
                       899999****997 PP
2Auxin_resp121.46.5e-40254337183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       aahaa+t+s F+++YnPras+seFv++++k++ka++ ++vsvGmRf+m fete+ss rr++Gt++g+sdldpvrWpnS+Wrs+k
  Thecc1EG001906t1 254 AAHAAATNSRFTIFYNPRASPSEFVIPLAKYVKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPVRWPNSHWRSVK 337
                       79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019369.29E-49113257IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.8E-42121243IPR015300DNA-binding pseudobarrel domain
CDDcd100171.31E-21127228No hitNo description
PfamPF023624.5E-22128229IPR003340B3 DNA binding domain
SMARTSM010191.8E-24128230IPR003340B3 DNA binding domain
PROSITE profilePS5086312.548128230IPR003340B3 DNA binding domain
PfamPF065079.1E-35254337IPR010525Auxin response factor
SuperFamilySSF542779.81E-6809885No hitNo description
PROSITE profilePS5174519.107816898IPR000270PB1 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:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 1007 aa     Download sequence    Send to blast
MRLSSSGFNQ QTQEGEKKCL NSELWHACAG PLVSLPPVGS RVVYFPQGHS EQVAASTNKE  60
VDAHIPNYPS LPPQLLCQLH NVTMHADVET DEVYAQMTLQ PLSPQEQKDV YLLPAELGNP  120
SKQPTNYFCK TLTASDTSTH GGFSVPRRAA EKVFPPLDFS QQPPAQELIA RDLHDNEWKF  180
RHIFRGQPKR HLLTTGWSVF VSAKRLVAGD SVLFIWNEKN QLLLGIRRAS RPQTVMPSSV  240
LSSDSMHIGL LAAAAHAAAT NSRFTIFYNP RASPSEFVIP LAKYVKAVYH TRVSVGMRFR  300
MLFETEESSV RRYMGTITGI SDLDPVRWPN SHWRSVKVGW DESTAGERQP RVSLWEIEPL  360
TTFPMYPSAF PLRLKRPWPS ALPSFHGMLE SSLRMVEITH ISSRLHLKLG VFLIYTESIY  420
FALPAFKDGD MSINSQLMWL QGGVGDQGIQ SLNFQGFGVA PWIQPRHDTS SLPGVQPYLY  480
QAMGAAALQD MRTVDSSKIG SQSLLQFQQP QNTSNGTPAL IQRQMLQQSQ TQNAFLQSFQ  540
ENQTAAQVQL LQQLQRPHLY NDQRQQQQQQ HQHQPQHHQQ QQSQQTQQLP QLSVPQQISN  600
VVSAFPSTSA SQAQSSSLPV VASQCQQQTF PDSIGNSIAT SDVSSMQSIL GSLSQNGASH  660
LLNLNGSNPV ISSSTLLSKP VAVEPQLSSG AANCVLPQVE QLGTARSNVS ELSNLLPPFP  720
GREYSAYHGS TDPQNNLLFG VSIDSSSLML QHGMTNLKNI GNENDSLSLP YAASNFTSAS  780
GTDFPLNSDM TTSSCVDESG YLQSSENVDQ VNPTTGTFLK VHKSGSFGRS LDISKFSSYD  840
ELRCELARMF GLEGQLEDPQ RSGWQLVFVD RENDILLLGD DPWHADSPYI LVLKICAYQA  900
TALLALRNLD FQFLYDADHI YRSSKFFLFP FNYFPGSTWE FVNNVWYIKI LSPHEVQQMG  960
KEGLTPATSV PSQRLTHSSN HCDDYMSRQD LRSSGNGLAS MGSLEY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1631135841388Auxin response factor 5
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).
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).
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_021275391.10.0auxin response factor 6-like isoform X1
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A061DJZ70.0A0A061DJZ7_THECC; Auxin response factor
STRINGEOX930540.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM13442894
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G30330.10.0auxin response factor 6
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Motamayor JC, et al.
    The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color.
    Genome Biol., 2013. 14(6): p. r53
    [PMID:23731509]