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.008G041100.1.p
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: 321aa    MW: 35313.9 Da    PI: 8.7191
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.008G041100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B391.65.7e-2989182186
                           EEEE-..-HHHHTT-EE--HHH.HTT..........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-E CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDf 79 
                           f+k ltpsdv+k++rlv+pk++ae++          g  + ++  l +ede g+ W+++++y+ +s++yvltkGW+++vk+++L++gD+
  Sobic.008G041100.1.p  89 FEKPLTPSDVGKLNRLVIPKQHAERYfplggngagdG--SDKGLLLAFEDEAGKPWRFRYSYWTSSQSYVLTKGWSRYVKEKRLDAGDV 175
                           99***************************99999644..447779******************************************** PP

                           EEEEE-S CS
                    B3  80 vvFkldg 86 
                           v F++++
  Sobic.008G041100.1.p 176 VRFERVR 182
                           ****763 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.4E-3982204IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.09E-2986193IPR015300DNA-binding pseudobarrel domain
CDDcd100171.22E-2787184No hitNo description
PfamPF023621.4E-2689186IPR003340B3 DNA binding domain
SMARTSM010191.3E-2289199IPR003340B3 DNA binding domain
PROSITE profilePS5086313.49389198IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0080113Biological Processregulation of seed growth
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 321 aa     Download sequence    Send to blast
MTYACLPLHS TPPLSLPSPR CQSFGKNLSF FLPPLVVSSL LAFLHTTKAG MAMHHLAQGH  60
PQAWPWGMAM YTNLHYHQHH HQYEREHLFE KPLTPSDVGK LNRLVIPKQH AERYFPLGGN  120
GAGDGSDKGL LLAFEDEAGK PWRFRYSYWT SSQSYVLTKG WSRYVKEKRL DAGDVVRFER  180
VRGGLGTGDR LFICCRRRGE SAAPTPTPPL PVRAPAPALN AAGEQQPWSP MCYSTSGSSY  240
PTSPASPYAY HNDTPHAGEA DAKSSGTPTA PSRKLRLFGV NLDCGPEPEP EPETPTAMYS  300
YMHQSPYAAV SAVPSYWGSS *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A3e-50841983113B3 domain-containing transcription factor NGA1
5os9_B3e-50841983113B3 domain-containing transcription factor NGA1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Sbi.109464e-43callus
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.008G041100.1.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
GenBankBT0861901e-177BT086190.1 Zea mays full-length cDNA clone ZM_BFc0127O14 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002442830.20.0B3 domain-containing protein Os11g0156000
SwissprotQ53QI01e-121Y1160_ORYSJ; B3 domain-containing protein Os11g0156000
TrEMBLA0A1B6PBE20.0A0A1B6PBE2_SORBI; Uncharacterized protein
STRINGSb08g003550.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP24463889
Representative plantOGRP36516108
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G06250.29e-49B3 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]