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 PGSC0003DMP400048917
Organism
Solanum tuberosum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum
Family B3
Protein Properties Length: 289aa    MW: 32648.7 Da    PI: 6.8963
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400048917genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3100.41.1e-3130135199
                           EEEE-..-HHHHTT-EE--HHH.HTT.......---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.......ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                           f+k ltpsdv+k++rlv+pk+ ae++       + + e+++ l++ede g+ W+++++y+++s++yvltkGW++Fvk+++L++gD+v+F
  PGSC0003DMP400048917  30 FEKPLTPSDVGKLNRLVIPKQNAEKYfplndsiNDSGEKGFLLSFEDELGKLWKFRYSYWNSSQSYVLTKGWSRFVKEKKLDAGDVVLF 118
                           99****************************99944556899************************************************ PP

                           EE-SSSEE..EEEEE-S CS
                    B3  83 kldgrsefelvvkvfrk 99 
                           ++++ ++ + +++++rk
  PGSC0003DMP400048917 119 ERHRVDGDRQFIGWRRK 135
                           *8777888899**9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.107.8E-3924136IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019369.03E-3125133IPR015300DNA-binding pseudobarrel domain
CDDcd100177.57E-2928125No hitNo description
PROSITE profilePS5086313.98730135IPR003340B3 DNA binding domain
PfamPF023621.5E-2830136IPR003340B3 DNA binding domain
SMARTSM010198.9E-2430136IPR003340B3 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: 289 aa     Download sequence    Send to blast
MEESSRNSSS PPKQNSNQLE EIEIPKEHLF EKPLTPSDVG KLNRLVIPKQ NAEKYFPLND  60
SINDSGEKGF LLSFEDELGK LWKFRYSYWN SSQSYVLTKG WSRFVKEKKL DAGDVVLFER  120
HRVDGDRQFI GWRRKNGDAV AAAAATTVAP PGGGGGWGQV HPFPSAGVPY QTDFLHAGRG  180
VMHNQLTTPN GNNTRRQVRL FGVNLECEVD DSSSWSESST PDGSISSNHH QQSQEYYQSQ  240
AGQHYYQYQV HYSNPHATPP ASSYNNNHHY NTDMDHSRDV NQMRYHQG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A4e-47261354113B3 domain-containing transcription factor NGA1
5os9_B4e-47261354113B3 domain-containing transcription factor NGA1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400048917
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHQ1979790.0HQ197979.1 Solanum tuberosum clone BAC BC163l15, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006339143.20.0PREDICTED: B3 domain-containing protein At2g36080
SwissprotQ8GYJ26e-67Y2608_ARATH; B3 domain-containing protein At2g36080
TrEMBLM1CQ490.0M1CQ49_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000723540.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA38012446
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G06250.22e-62B3 family protein
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Tanaka M, et al.
    The Minimum Open Reading Frame, AUG-Stop, Induces Boron-Dependent Ribosome Stalling and mRNA Degradation.
    Plant Cell, 2016. 28(11): p. 2830-2849
    [PMID:27760805]