PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Sobic.002G071600.2.p
Common NameSb02g006023, SORBIDRAFT_02g006023
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 ERF
Protein Properties Length: 237aa    MW: 24867.6 Da    PI: 10.5732
Description ERF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.002G071600.2.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP2605.6e-1950100155
                   AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                           s++ GVr+++ +grWvAeI+d +   ++ r +lg+f taeeAa+a+++a+  l+g
  Sobic.002G071600.2.p  50 SKFVGVRQRP-SGRWVAEIKDTT---QKIRMWLGTFETAEEAARAYDEAACLLRG 100
                           79********.7*********32...35**********************99998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008472.0E-1350100IPR001471AP2/ERF domain
SuperFamilySSF541711.31E-1950108IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.103.7E-2851108IPR001471AP2/ERF domain
PROSITE profilePS5103219.83651108IPR001471AP2/ERF domain
CDDcd000181.25E-2851110No hitNo description
SMARTSM003809.1E-3451114IPR001471AP2/ERF domain
PRINTSPR003677.3E-85263IPR001471AP2/ERF domain
PRINTSPR003677.3E-87490IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000302Biological Processresponse to reactive oxygen species
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009723Biological Processresponse to ethylene
GO:0035865Biological Processcellular response to potassium ion
GO:0048528Biological Processpost-embryonic root development
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 237 aa     Download sequence    Send to blast
MELHFQQPPQ SHPQQQYSSY QQPPATTKET KPRTRTKCGS GGGGGGGSGS KFVGVRQRPS  60
GRWVAEIKDT TQKIRMWLGT FETAEEAARA YDEAACLLRG ANTRTNFAAA GAHASPPDSP  120
LAARIRGILN HKRMKKNASQ QHTVNFFPAG AYHRAAGAAA TAASTTSTST ITTTTSSVSP  180
SSSPSSSIVS FAMSSHGVRT PILPAAQSIA EEAYRPYLVS GGGEEFQLAT RQGGQG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5wx9_A8e-1541107471Ethylene-responsive transcription factor ERF096
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, root hairs and leaves (PubMed:17827349). Expressed in root epidermis and root hairs (PubMed:23077241). {ECO:0000269|PubMed:17827349, ECO:0000269|PubMed:23077241}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in symbiotic nodule signaling in response to rhizobial Nod factors (NFs) (PubMed:17449807, PubMed:17827349). Binds to the GCC-box (NF-responsive box) of ENOD11 promoter. Acts as transcriptional activator of NF-responsive box-containing target gene promoters in root hairs (PubMed:17827349). Functions as a transcriptional regulator required for root infection by symbiotic rhizobia, infection thread (IT) formation and maintenance, and nodule development. Necessary for NF-induced gene expression and spontaneous nodulation activated by CCAMK. Functions downstream of CCAMK to activate nodulation gene expression (PubMed:17449807). Involved in early stages of root nodule development. Functions redundantly with ERN2. Is essential with ERN2 for the initiation of root hair infection, and nodule organogenesis and development. Required for accurate expression of the NF signaling genes ENOD11 and ENOD12 (PubMed:23077241, PubMed:27208242). {ECO:0000269|PubMed:17449807, ECO:0000269|PubMed:17827349, ECO:0000269|PubMed:23077241, ECO:0000269|PubMed:27208242}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00521DAPTransfer from AT5G19790Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.002G071600.2.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced in roots from 1 to 21 day after inoculation with Sinorhizobium meliloti (PubMed:17449807). Induced by Nod factors in root hairs (PubMed:17827349). {ECO:0000269|PubMed:17449807, ECO:0000269|PubMed:17827349}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0042737e-62AP004273.2 Oryza sativa Japonica Group genomic DNA, chromosome 7, PAC clone:P0431A02.
GenBankAP0149637e-62AP014963.1 Oryza sativa Japonica Group DNA, chromosome 7, cultivar: Nipponbare, complete sequence.
GenBankCP0126157e-62CP012615.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 7 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021310283.11e-172ethylene-responsive transcription factor RAP2-11 isoform X2
SwissprotA2Q5W11e-43ERN1_MEDTR; Ethylene-responsive transcription factor ERN1
TrEMBLA0A1W0W2M81e-171A0A1W0W2M8_SORBI; Uncharacterized protein
STRINGSb02g006023.11e-169(Sorghum bicolor)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G19790.11e-25related to AP2 11
Publications ? help Back to Top
  1. Cerri MR, et al.
    Medicago truncatula ERN transcription factors: regulatory interplay with NSP1/NSP2 GRAS factors and expression dynamics throughout rhizobial infection.
    Plant Physiol., 2012. 160(4): p. 2155-72
    [PMID:23077241]
  2. Tang H, et al.
    An improved genome release (version Mt4.0) for the model legume Medicago truncatula.
    BMC Genomics, 2014. 15: p. 312
    [PMID:24767513]
  3. Cerri MR, et al.
    The Symbiosis-Related ERN Transcription Factors Act in Concert to Coordinate Rhizobial Host Root Infection.
    Plant Physiol., 2016. 171(2): p. 1037-54
    [PMID:27208242]