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 Sof006047
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: 467aa    MW: 51155.2 Da    PI: 6.8192
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PUT-157a-Saccharum_officinarum-203133730PU_refplantGDBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B378.95.3e-25161262199
                EEEE-..-HHHHTT-EE--HHH.HTT......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
         B3   1 ffkvltpsdvlksgrlvlpkkfaeeh......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 
                f+k+lt sd++++g +++p++ ae++      + +++ s++l+ +d++g +W++++iyr++++r++lt+GW+ Fv+ ++L +gD v+F   + +++el++
  Sof006047 161 FCKTLTASDTSTHGGFSVPRRAAEDCfppldyS-QQRPSQELVAKDLHGTEWRFRHIYRGQPRRHLLTTGWSAFVNKKKLVSGDAVLFL--RGDDGELRL 257
                99****************************963.3445679************************************************..3489999** PP

                EEE-S CS
         B3  95 kvfrk 99 
                +v+r+
  Sof006047 258 GVRRA 262
                *9996 PP
2Auxin_resp112.54e-37287367182
  Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsL 82 
                 +aha++tksvF+++YnPr s+seF+++++k++k++++++s+G Rfkm++e++d+serr++G+++g+ d+dp  W++SkW++L
   Sof006047 287 VAHAVATKSVFHIYYNPRLSQSEFIIPYSKFMKSFSQQFSAGLRFKMRYEGDDASERRCTGIIAGIGDADP-MWHGSKWKCL 367
                 79*********************************************************************.9********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019367.98E-44153277IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.2E-41154264IPR015300DNA-binding pseudobarrel domain
CDDcd100171.28E-23159261No hitNo description
SMARTSM010195.3E-23161263IPR003340B3 DNA binding domain
PfamPF023626.7E-23161262IPR003340B3 DNA binding domain
PROSITE profilePS5086313.493161263IPR003340B3 DNA binding domain
PfamPF065071.0E-31287367IPR010525Auxin 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: 467 aa     Download sequence    Send to blast
MAGIDLNDTV EEDEEEAEPG NACSQQSRTS SAATPPPPQP RPGAAVCLEL WHACAGPVAP  60
LPRKGSVVVY LPQGHLEHLG DAAGGGAPAP AALPPHVFCR VVDVTLHADA STDEVYAQLA  120
LVAENEDVAR RLRGGSEDGS AGDGDDGETV KQRFSRMPHM FCKTLTASDT STHGGFSVPR  180
RAAEDCFPPL DYSQQRPSQE LVAKDLHGTE WRFRHIYRGQ PRRHLLTTGW SAFVNKKKLV  240
SGDAVLFLRG DDGELRLGVR RAAQLKNGSA FPALYNQCSN LGSLANVAHA VATKSVFHIY  300
YNPRLSQSEF IIPYSKFMKS FSQQFSAGLR FKMRYEGDDA SERRCTGIIA GIGDADPMWH  360
GSKWKCLMVR WDDDVDFRRS NRISPWEIEL TSSVSGSHMS APNAKRLKPC LPPDYLVPNG  420
SGCPDFAESA QFHKVLQGQE LLGYRTHDNA AVATSQPCET RNMQYIX
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1174539718361Auxin response factor 1
4ldw_A1e-1174539718361Auxin response factor 1
4ldw_B1e-1174539718361Auxin response factor 1
4ldx_A1e-1174539718361Auxin response factor 1
4ldx_B1e-1174539718361Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sof.139520.0crown| inflorescence| leaf| meristem| root| 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_008649995.10.0auxin response factor 15
SwissprotQ8S9850.0ARFO_ORYSJ; Auxin response factor 15
TrEMBLA0A1D6MCU10.0A0A1D6MCU1_MAIZE; Auxin response factor
STRINGGRMZM2G030710_P010.0(Zea mays)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G33860.11e-158ARF family protein
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. Cheng CH, et al.
    A fine physical map of the rice chromosome 5.
    Mol. Genet. Genomics, 2005. 274(4): p. 337-45
    [PMID:16261349]
  3. 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]