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 Sobic.004G178500.1.p
Common NameSb04g022830, SORBIDRAFT_04g022830
Organism
Sorghum bicolor
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; Sorghinae; Sorghum
Family ARF
Protein Properties Length: 673aa    MW: 74930.2 Da    PI: 6.2159
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.004G178500.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B373.42.7e-23122222198
                           EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                           f+k+lt sd++++g +++ +++aee+       ++++ +  +l+ +d++g++W +++i+r++++r++lt+GW+ Fv++++L +gD ++F
  Sobic.004G178500.1.p 122 FCKTLTASDTSTHGGFSVLRRHAEEClpqldmtQNPPWQ--ELVAKDLHGNEWHFRHIFRGQPRRHLLTTGWSVFVSSKRLVAGDAFIF 208
                           99**************************99975555545..8*********************************************** PP

                           EE-SSSEE..EEEEE- CS
                    B3  83 kldgrsefelvvkvfr 98 
                              + +++el+v+v+r
  Sobic.004G178500.1.p 209 L--RGENGELRVGVRR 222
                           *..449999*****97 PP
2Auxin_resp104.99.7e-35248333183
            Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdl...dpvrWpnSkWrsLk 83 
                           a+ha+st++ F+v+Y+Pr+s+seFvv+v+k+++a ++k+svGmRfkm+fe+++s+err+sGt++g+  +   +++ W nS+WrsLk
  Sobic.004G178500.1.p 248 ASHAISTGTLFSVFYKPRTSRSEFVVSVNKYLEAKNHKMSVGMRFKMRFEGDESPERRFSGTIIGLGSMpanSTSPWANSEWRSLK 333
                           789*************************************************************988753336789********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.62E-43113251IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.5E-41118237IPR015300DNA-binding pseudobarrel domain
CDDcd100172.71E-21120222No hitNo description
SMARTSM010191.6E-21122224IPR003340B3 DNA binding domain
PfamPF023624.5E-21122222IPR003340B3 DNA binding domain
PROSITE profilePS5086311.462122224IPR003340B3 DNA binding domain
PfamPF065074.2E-33248333IPR010525Auxin response factor
PfamPF023091.2E-6522578IPR033389AUX/IAA domain
PROSITE profilePS5174525.037542624IPR000270PB1 domain
SuperFamilySSF542775.17E-12545620No hitNo description
PfamPF023092.0E-7589633IPR033389AUX/IAA domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009734Biological Processauxin-activated signaling pathway
GO:0010150Biological Processleaf senescence
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0042802Molecular Functionidentical protein binding
Sequence ? help Back to Top
Protein Sequence    Length: 673 aa     Download sequence    Send to blast
MADAGVARGP GSAGDALFRE LWHACAGPLV TVPRQGELVY YFPQGHMEQL EASTDQQLDQ  60
HLPLFNLPPK ILCKVVNVEL RAETDSDEVY AQIMLQPEAE QNEPTSPDAE PPEPERCNVH  120
SFCKTLTASD TSTHGGFSVL RRHAEECLPQ LDMTQNPPWQ ELVAKDLHGN EWHFRHIFRG  180
QPRRHLLTTG WSVFVSSKRL VAGDAFIFLR GENGELRVGV RRLMRQLNNM PSSVISSHSM  240
HLGVLATASH AISTGTLFSV FYKPRTSRSE FVVSVNKYLE AKNHKMSVGM RFKMRFEGDE  300
SPERRFSGTI IGLGSMPANS TSPWANSEWR SLKVQWDEPS AILRPDRVSP WELEPLDATN  360
PQPPQPPLRN KRARPPASPS IAPELPPVFG FWKSPAEPAQ AFSFSGLQRT QELYHSNPNS  420
IFSSSLNVGF NSKNERSTPN NNHLYWTMRE TRTESYSASI NKAPTEKKQE SATSGCRLFG  480
IEIGSAVSPV VTVASVGQDP PPALSVDVES DQLSQPSHAN KTDAPAASSE RSPNETESRQ  540
VRSCTKVIMQ GMAVGRAVDL TRLDGYDDLH RKLEEMFDIH GELSANLRKW KVVYTDDEDD  600
MMLVGDDPWN EFCRMVKRIY IYSYEEAKSL TPKAKLPVIG DTIKPDPNKL SPESDMPQSD  660
TNSNAPVAAD KD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A0.01135813357Auxin response factor 1
4ldw_A0.01135813357Auxin response factor 1
4ldw_B0.01135813357Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.104850.0callus| embryo| leaf| panicle
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).
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00097PBMTransfer from AT1G59750Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.004G178500.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0652840.0BT065284.1 Zea mays full-length cDNA clone ZM_BFb0080F20 mRNA, complete cds.
GenBankJX4699920.0JX469992.1 Zea mays subsp. mays clone UT3352 ARF-type transcription factor mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002453992.10.0auxin response factor 7
SwissprotQ6YVY00.0ARFG_ORYSJ; Auxin response factor 7
TrEMBLC5XUU50.0C5XUU5_SORBI; Auxin response factor
STRINGSb04g022830.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP108236116
Representative plantOGRP5501582
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G59750.40.0auxin 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]