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 PGSC0003DMP400015722
Common NameLOC102586434
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: 326aa    MW: 36294.3 Da    PI: 7.0337
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400015722genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3108.14.2e-3438150199
                           EEEE-..-HHHHTT-EE--HHH.HTT..............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT-- CS
                    B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLk 75 
                           f+k ltpsdv+k++rlv+pk++ae++              +g +e++  l++edesg+sW+++++y+++s++yvltkGW++Fvk+++L+
  PGSC0003DMP400015722  38 FEKPLTPSDVGKLNRLVIPKQHAEKYfplsgnnnnntnnnDGGTEKGLLLSFEDESGKSWRFRYSYWNSSQSYVLTKGWSRFVKEKRLD 126
                           99*****************************99999999955567999***************************************** PP

                           TT-EEEEEE-SSSEE..EEEEE-S CS
                    B3  76 egDfvvFkldgrsefelvvkvfrk 99 
                           +gD+v+F ++++++ +l+++++r+
  PGSC0003DMP400015722 127 AGDIVLFDRHRSESDRLFIGWRRR 150
                           ********98889999******98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.106.5E-4230158IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.22E-3035150IPR015300DNA-binding pseudobarrel domain
CDDcd100179.25E-2836140No hitNo description
PROSITE profilePS5086314.69238151IPR003340B3 DNA binding domain
PfamPF023625.0E-3138151IPR003340B3 DNA binding domain
SMARTSM010194.3E-2838151IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0080167Biological Processresponse to karrikin
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 326 aa     Download sequence    Send to blast
MFEFNLNNNM SNNTHNEHDD ELGQSEDKLE EIPRDHLFEK PLTPSDVGKL NRLVIPKQHA  60
EKYFPLSGNN NNNTNNNDGG TEKGLLLSFE DESGKSWRFR YSYWNSSQSY VLTKGWSRFV  120
KEKRLDAGDI VLFDRHRSES DRLFIGWRRR NTVSASTSIS TPAAVHNTAA AAVTRNMGGG  180
GGGGGWAHVY YGGHPYPSAG AGLLYQPDCL HAGGGAMPNQ TTSVNNNTRR HVRLFGVNLE  240
CEADDSSWSE PPPTPDGGGS STSSHNQDHG RSQDQASQHY YQYQFQYSKP HVTVSAAASS  300
YNNNHHNHKD MSFSRDVNQM RYHQG*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A1e-50341534116B3 domain-containing transcription factor NGA1
5os9_B1e-50341534116B3 domain-containing transcription factor NGA1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapPGSC0003DMP400015722
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754480.0HG975448.1 Solanum pennellii chromosome ch09, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006341227.10.0PREDICTED: B3 domain-containing protein At2g36080-like
SwissprotQ8GYJ22e-66Y2608_ARATH; B3 domain-containing protein At2g36080
TrEMBLM1AHR00.0M1AHR0_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000230770.0(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G06250.29e-65B3 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]