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.009G048201.1.p
Common NameSb09g004140, SORBIDRAFT_09g004140
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 B3
Protein Properties Length: 162aa    MW: 17671.8 Da    PI: 8.0675
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.009G048201.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B379.63.1e-25296185
                          EEEE-..-HHHHTT-EE--HHH.HTT.....---..--SEEEEEETTS.....-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEE CS
                    B3  1 ffkvltpsdvlksgrlvlpkkfaeeh.....ggkkeesktltledesg.....rsWevkliyrkksgryvltkGWkeFvkangLkegDfvv 81
                          f+k+ tpsdv++++r+v+pk +ae+h     +   + ++ l +ed        ++W+++++y+ +s++yvlt+GW++Fv+++gL +gD+v 
  Sobic.009G048201.1.p  2 FEKAVTPSDVGRLNRMVVPKLHAEKHfprieEAADAAPVLLAFEDVGVgggtgKVWRFRYSYWSSSQSYVLTRGWSRFVREKGLAAGDTVA 92
                          89*************************98774344466666666633234555************************************** PP

                          EEE- CS
                    B3 82 Fkld 85
                          F+  
  Sobic.009G048201.1.p 93 FSQA 96
                          *933 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019362.88E-25195IPR015300DNA-binding pseudobarrel domain
CDDcd100176.23E-14193No hitNo description
Gene3DG3DSA:2.40.330.103.3E-321121IPR015300DNA-binding pseudobarrel domain
SMARTSM010194.4E-122103IPR003340B3 DNA binding domain
PfamPF023621.7E-222108IPR003340B3 DNA binding domain
PROSITE profilePS5086313.6342112IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 162 aa     Download sequence    Send to blast
MFEKAVTPSD VGRLNRMVVP KLHAEKHFPR IEEAADAAPV LLAFEDVGVG GGTGKVWRFR  60
YSYWSSSQSY VLTRGWSRFV REKGLAAGDT VAFSQAAITD DAETTTDVKR RRMFIECRKR  120
KRKDDDGCSD GNDGDHCPDD GGERVVRLFG ANIAAAAIGA S*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A7e-42112813125DNA-binding protein RAV1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1108121KRRRMFIECRKRKR
2108122KRRRMFIECRKRKRK
3117122RKRKRK
4117123RKRKRKD
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.009G048201.1.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
GenBankKJ7278848e-33KJ727884.1 Zea mays clone pUT5977 ABI3VP1 transcription factor (ABI33) gene, partial cds.
GenBankKR0146668e-33KR014666.1 Zea mays cultivar RP4Htn1 hypothetical proteins, DUF630 domain protein, putative zinc finger protein, esterase/lipase/thioesterase, wall-associated receptor-like kinase 2 (WAK-RLK2), wall-associated receptor-like protein (WAK-RLP1), wall-associated receptor-like kinase 1 (WAK-RLK1), putative reticulon protein, cytidylyltransferase domain protein, and hypothetical proteins genes, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002440616.21e-114putative AP2/ERF and B3 domain-containing protein Os01g0140700
SwissprotQ0DXB11e-48Y2641_ORYSJ; B3 domain-containing protein Os02g0764100
TrEMBLA0A1Z5R2411e-114A0A1Z5R241_SORBI; Uncharacterized protein
STRINGSb09g004140.11e-114(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP45638203
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G13260.18e-41related to ABI3/VP1 1