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 Thecc1EG029410t3
Common NameTCM_029410
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: 686aa    MW: 75489.4 Da    PI: 7.5183
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG029410t3genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.75.1e-244105199
                       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   +
  Thecc1EG029410t3   4 FCKTLTASDTSTHGGFSVPRRAAEKVfppldfsQQPPA--QELIARDLHDNEWKFRHIFRGQPKRHLLTTGWSVFVSAKRLVAGDSVLFI--W 92 
                       99*****************************8544444..48************************************************..8 PP

                       SSEE..EEEEE-S CS
                B3  87 rsefelvvkvfrk 99 
                       +++ +l+++++r+
  Thecc1EG029410t3  93 NEKNQLLLGIRRA 105
                       899999****997 PP
2Auxin_resp120.21.6e-39130213183
        Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalk.vkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                       aahaa+t+s F+++YnPras+seFv++++k+ ka++ ++vsvGmRf+m fete+ss rr++Gt++g+sdldp rWpnS+Wrs+k
  Thecc1EG029410t3 130 AAHAAATNSRFTIFYNPRASPSEFVIPLAKYIKAVYhTRVSVGMRFRMLFETEESSVRRYMGTITGISDLDPARWPNSHWRSVK 213
                       79*********************************9789******************************************985 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.57E-462133IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.9E-412119IPR015300DNA-binding pseudobarrel domain
CDDcd100176.17E-223104No hitNo description
SMARTSM010192.0E-244106IPR003340B3 DNA binding domain
PROSITE profilePS5086312.5484106IPR003340B3 DNA binding domain
PfamPF023622.4E-224105IPR003340B3 DNA binding domain
PfamPF065071.4E-34130213IPR010525Auxin 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:0009908Biological Processflower development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0005515Molecular Functionprotein binding
Sequence ? help Back to Top
Protein Sequence    Length: 686 aa     Download sequence    Send to blast
TNYFCKTLTA SDTSTHGGFS VPRRAAEKVF PPLDFSQQPP AQELIARDLH DNEWKFRHIF  60
RGQPKRHLLT TGWSVFVSAK RLVAGDSVLF IWNEKNQLLL GIRRANRPQT VMPSSVLSSD  120
SMHLGLLAAA AHAAATNSRF TIFYNPRASP SEFVIPLAKY IKAVYHTRVS VGMRFRMLFE  180
TEESSVRRYM GTITGISDLD PARWPNSHWR SVKVGWDEST AGERQPRVSL WEIEPLTTFP  240
MYPAPFPLRL KRPWPPGLPS FHGIKDDDLG MNSPLMWLRG DADRGMQSLN LQGIGVTPWM  300
QPRLDASMVG LPADMYQAMA AAALQDLRAV DPSKPATASL LQFQQPQNLP CRPAALMQPQ  360
MLQQSQPQAF LQGVEDNQHQ SQSQAQTPPH LLQQQLQHQN SFNNQQHPQH PLSQQHQQLV  420
DHQQIHSAVS AMSQYASASQ SQSSSLQAMP SLCQQQSFSD SNGNTVTSPI VSPLHSLLGS  480
FPQDESSNLL NLPRSNPVIT SAAWPSKRAA VEVLSSGSPQ CVLPQVEQLG PTQTNMSQNS  540
ISLPPFPGRE CSIDQEGGTD PQSHLLFGVN IEPSSLLMPN GMSSLRGVGS DSDSTTIPFS  600
SNYMSTAGTD FSVNPAMTPS SCIDESGFLQ SPENVGQGNP QTRTFVKVSD LLFLIYTSRL  660
MNLAGLLSSI GFVNFVALVL RTQIF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldu_A1e-1151234155388Auxin 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_007024962.10.0PREDICTED: auxin response factor 6 isoform X2
RefseqXP_007024963.10.0PREDICTED: auxin response factor 6 isoform X1
SwissprotA2X1A10.0ARFF_ORYSI; Auxin response factor 6
SwissprotQ6H6V40.0ARFF_ORYSJ; Auxin response factor 6
TrEMBLA0A061GDE40.0A0A061GDE4_THECC; Auxin response factor (Fragment)
STRINGEOY275850.0(Theobroma cacao)
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]