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 Glyma.05G200800.3.p
Common NameGLYMA_05G200800, LOC100815956
Organism
Glycine max
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family ARF
Protein Properties Length: 803aa    MW: 88622.2 Da    PI: 7.0187
Description ARF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.05G200800.3.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B375.46.5e-24160261199
                          EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                          f+k+lt sd++++g +++ +++a+e+       ++  + +++l+ +d++g++W++++i+r++++r++l++GW+ Fv++++L +gD ++F 
  Glyma.05G200800.3.p 160 FCKTLTASDTSTHGGFSVLRRHADEClppldmtKQ--PPTQELVAKDLHGNEWRFRHIFRGQPRRHLLQSGWSVFVSSKRLVAGDAFIFL 247
                          99****************************97433..34459************************************************ PP

                          E-SSSEE..EEEEE-S CS
                   B3  84 ldgrsefelvvkvfrk 99 
                            + +++el+v+v+r+
  Glyma.05G200800.3.p 248 --RGENGELRVGVRRA 261
                          ..449999*****996 PP
2Auxin_resp116.91.7e-38286368183
           Auxin_resp   1 aahaastksvFevvYnPrastseFvvkvekvekalkvkvsvGmRfkmafetedsserrlsGtvvgvsdldpvrWpnSkWrsLk 83 
                          a+ha+ t+++F+v+Y+Pr+s++eF+v++++++++lk+++++GmRfkm+fe+e+++e+r++Gt+vg++d+d+ rWp+SkWrsLk
  Glyma.05G200800.3.p 286 AWHAILTGTMFTVYYKPRTSPAEFIVPYDQYMESLKNNYTIGMRFKMRFEGEEAPEQRFTGTIVGIEDADTKRWPKSKWRSLK 368
                          79*******************************************************************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.83E-40156289IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.5E-41156275IPR015300DNA-binding pseudobarrel domain
CDDcd100176.90E-22158260No hitNo description
PROSITE profilePS5086311.998160262IPR003340B3 DNA binding domain
SMARTSM010192.1E-23160262IPR003340B3 DNA binding domain
PfamPF023628.3E-22160261IPR003340B3 DNA binding domain
PfamPF065073.6E-36286368IPR010525Auxin response factor
PfamPF023098.4E-7722802IPR033389AUX/IAA domain
PROSITE profilePS5174519.453734802IPR000270PB1 domain
SuperFamilySSF542771.44E-7736802No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0008285Biological Processnegative regulation of cell proliferation
GO:0009734Biological Processauxin-activated signaling pathway
GO:0009737Biological Processresponse to abscisic acid
GO:0009911Biological Processpositive regulation of flower development
GO:0010047Biological Processfruit dehiscence
GO:0010150Biological Processleaf senescence
GO:0010227Biological Processfloral organ abscission
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0005634Cellular Componentnucleus
GO:0005515Molecular Functionprotein binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 803 aa     Download sequence    Send to blast
MATSEVSIKG NSVNGKGDNS SGGYTNDVRN GSGGGEARNS SSSSSSARDA EAALYRELWH  60
ACAGPLVTVP REGERVFYFP QGHIEQVEAS TNQVAEQHMP VYDLPPKILC RVINVMLKAE  120
PDTDEVFAQV TLLPEPNQDE NAVEKEGPPA APPRFHVHSF CKTLTASDTS THGGFSVLRR  180
HADECLPPLD MTKQPPTQEL VAKDLHGNEW RFRHIFRGQP RRHLLQSGWS VFVSSKRLVA  240
GDAFIFLRGE NGELRVGVRR AMRQQGNVPS SVISSHSMHL GVLATAWHAI LTGTMFTVYY  300
KPRTSPAEFI VPYDQYMESL KNNYTIGMRF KMRFEGEEAP EQRFTGTIVG IEDADTKRWP  360
KSKWRSLKVR WDETSNIPRP ERVSQWKIEP ALAPPALNPL PMPRPKRPRS NVVPSSPDSS  420
VLTREASSKV SVDPLPTSGF QRVLQGQELS TLRGNFAESN ESDTVEKSAV WPPVADDEKI  480
DVSTSRRYGS DSWMSMGRHE LTYPDLLSGF GTHGDHSSHP SFVDQNGPVA NVGRKHLLDC  540
EGKHNVLSPW SGVPSSLSLN LLDSNTKGSA QGGDTTYQVR GNLRYSSAFG EYPMLHGHKV  600
EHSHGNFLMP PPPSTPYESP RSRELLPKPI SGKPCEVSKP KDSDCKLFGI SLLSSPIAPE  660
PSVSQRNVPS EPVGHMHTTS HQQRAFDNDQ KSEHSRGGSK PADGLLIDDH EKVLQTSQTH  720
LKDIQAKSHS GSARSCTKVH KKGIALGRSV DLTKFSDYGE LIAELDQLFE FGGLLTSPQK  780
DWLIVYTDNE GDMMLVGDDP WQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4ldv_A1e-1785339018354Auxin response factor 1
4ldw_A1e-1785339018354Auxin response factor 1
4ldw_B1e-1785339018354Auxin response factor 1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Gma.25630.0cotyledon| epicotyl| flower| hypocotyl| leaf| meristem| pod| root| somatic embryo| stem
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expression increases during floral development. Expressed during ovary development with the highest expression on the third day after the flower fully opened. {ECO:0000269|PubMed:21735233}.
UniprotTISSUE SPECIFICITY: Expressed in root, leaf and stem (PubMed:26716451, PubMed:21735233). Also expressed in flower and fruit (PubMed:26716451). Expressed in flower buds about three days before opening including stamen, petal and sepal with the highest in ovary (PubMed:21735233). {ECO:0000269|PubMed:21735233, ECO:0000269|PubMed:26716451}.
Functional Description ? help Back to Top
Source Description
UniProtAuxin response factors (ARFs) are transcriptional factors that binds specifically to the DNA sequence 5'-TGTCTC-3' found in the auxin-responsive promoter elements (AuxREs) (By similarity). Could act as transcriptional activator or repressor. Involved in the control of fruit ripening process. Regulates expression of a number of ripening regulators, transcription factors, and ethylene biosynthesis and signaling components (PubMed:26716451, PubMed:26959229). May act as a transcriptional repressor of auxin-responsive genes (PubMed:26716451). {ECO:0000255|RuleBase:RU004561, ECO:0000269|PubMed:26716451, ECO:0000269|PubMed:26959229}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00574DAPTransfer from AT5G62000Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.05G200800.3.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By tomato fruit ripening. Expression is up-regulated by plant hormone auxin in tomato fruits. {ECO:0000269|PubMed:26716451}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2354310.0AC235431.1 Glycine max strain Williams 82 clone GM_WBb0144O21, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003525433.10.0auxin response factor 2B-like isoform X1
RefseqXP_028233438.10.0auxin response factor 2B-like isoform X1
SwissprotK4DF010.0ARF2B_SOLLC; Auxin response factor 2B
TrEMBLA0A0B2QCB40.0A0A0B2QCB4_GLYSO; Auxin response factor
TrEMBLI1K6T10.0I1K6T1_SOYBN; Auxin response factor
STRINGGLYMA05G38540.40.0(Glycine max)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G62000.30.0auxin response factor 2
Publications ? help Back to Top
  1. Tomato Genome Consortium
    The tomato genome sequence provides insights into fleshy fruit evolution.
    Nature, 2012. 485(7400): p. 635-41
    [PMID:22660326]
  2. Breitel DA, et al.
    AUXIN RESPONSE FACTOR 2 Intersects Hormonal Signals in the Regulation of Tomato Fruit Ripening.
    PLoS Genet., 2016. 12(3): p. e1005903
    [PMID:26959229]