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 Sof011411
Organism
Saccharum officinarum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Saccharinae; Saccharum; Saccharum officinarum complex
Family ARF
Protein Properties Length: 239aa    MW: 26922.9 Da    PI: 10.5986
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
gnl|UG|Sof#S17403139PU_refUnigeneView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B371.31.2e-22396898
               -HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
         B3  8 sdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
               sd++++g +++ +++aee+      ++++++ ++l+ +d++g +W +++i+r++++r++lt+GW+ Fv++++L +gD ++F+  + +++el+v+v+r
  Sof011411  3 SDTSTHGGFSVLRRHAEEClpqldmSQNPPC-QELVAKDLHGTEWHFRHIFRGQPKRHLLTTGWSVFVSSKRLVAGDAFIFM--RGENGELRVGVRR 96
               8999********************7556666.59************************************************..449999*****98 PP
2Auxin_resp99.93.5e-33122207183
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsd...ldpvrWpnSkWrsLk 83 
                 a+ha+st++ F+v+Y+Pr+s+s+F+v+v+k+++a k+k+svGmRfkm+fe+++++ rr+sGt++g+     ++ + W +S WrsLk
   Sof011411 122 ASHAISTGTLFSVFYKPRTSRSDFIVSVNKYLEAKKRKISVGMRFKMRFEGDEAPXRRFSGTIIGTGSlpaMSKSLWADSDWRSLK 207
                 789*************************************************************987522267778********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086311.364198IPR003340B3 DNA binding domain
SMARTSM010191.9E-13198IPR003340B3 DNA binding domain
PfamPF023624.9E-20296IPR003340B3 DNA binding domain
CDDcd100171.26E-17296No hitNo description
SuperFamilySSF1019366.18E-382125IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.0E-372111IPR015300DNA-binding pseudobarrel domain
PfamPF065076.9E-32122207IPR010525Auxin response factor
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009725Biological Processresponse to hormone
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 239 aa     Download sequence    Send to blast
XASDTSTHGG FSVLRRHAEE CLPQLDMSQN PPCQELVAKD LHGTEWHFRH IFRGQPKRHL  60
LTTGWSVFVS SKRLVAGDAF IFMRGENGEL RVGVRRLMRQ VNSMPSSVIS SHNMHLGVLA  120
TASHAISTGT LFSVFYKPRT SRSDFIVSVN KYLEAKKRKI SVGMRFKMRF EGDEAPXRRF  180
SGTIIGTGSL PAMSKSLWAD SDWRSLKGQW DEPSSILRPD RISPWEVEPL DAANPQSXQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1342232130357Auxin response factor 1
4ldw_A1e-1342232130357Auxin response factor 1
4ldw_B1e-1342232130357Auxin response factor 1
4ldx_A1e-1342232130357Auxin response factor 1
4ldx_B1e-1342232130357Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.63650.0inflorescence| stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, culms, leaves and young panicles. {ECO:0000269|PubMed:17408882}.
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).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025823850.11e-167auxin response factor 9-like
SwissprotQ0JCZ41e-159ARFI_ORYSJ; Auxin response factor 9
TrEMBLA0A1D6E9Y41e-168A0A1D6E9Y4_MAIZE; Auxin response factor
STRINGGRMZM2G017187_P021e-166(Zea mays)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.41e-133auxin response factor 1
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]