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 RrC3296_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family B3
Protein Properties Length: 263aa    MW: 29551.5 Da    PI: 7.591
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3296_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3104.17.6e-3329141199
                 EEEE-..-HHHHTT-EE--HHH.HTT..............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
          B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                 f+k ltpsdv+k++rlv+pk++ae++               +++e+++ l++edesg+sW+++++y+++s++yvltkGW+++vk+++L++gD+v+F+++
  RrC3296_p1  29 FEKSLTPSDVGKLNRLVIPKQHAERYlplnnnggggddvtAESTEKGVLLSFEDESGKSWKFRYSYWNSSQSYVLTKGWSRYVKDKHLNAGDVVLFQRH 127
                 99********************************999999777789***************************************************65 PP

                 SS.SEE..EEEEE-S CS
          B3  86 gr.sefelvvkvfrk 99 
                  r +  +l+++++r+
  RrC3296_p1 128 -RfDIHRLFIGWRRR 141
                 .44888899999987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.9E-4022150IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.93E-3125143IPR015300DNA-binding pseudobarrel domain
CDDcd100177.86E-2928130No hitNo description
SMARTSM010193.4E-2529142IPR003340B3 DNA binding domain
PfamPF023625.0E-3029141IPR003340B3 DNA binding domain
PROSITE profilePS5086313.59229142IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
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: 263 aa     Download sequence    Send to blast
MSVNHSSRDI HRNTHSLHHH HNDHRESLFE KSLTPSDVGK LNRLVIPKQH AERYLPLNNN  60
GGGGDDVTAE STEKGVLLSF EDESGKSWKF RYSYWNSSQS YVLTKGWSRY VKDKHLNAGD  120
VVLFQRHRFD IHRLFIGWRR RGEASSPSAV SAVSQDARGD TTAYWSGLTT PYRQVHASTS  180
SYPNIHQEYS HYGAVAETPT VVAGSSRTVR LFGVNLECHG DVVEPPPCPD AYNGQHIYYY  240
PTPHPMSISF AGEAMEQVGD GRG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A5e-48251414113B3 domain-containing transcription factor NGA1
5os9_B5e-48251414113B3 domain-containing transcription factor NGA1
Search in ModeBase
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1895470.0AC189547.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH004P05, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018464586.10.0PREDICTED: B3 domain-containing protein At3g11580-like isoform X1
SwissprotQ8RYD31e-145Y3158_ARATH; B3 domain-containing protein At3g11580
TrEMBLA0A397ZG791e-167A0A397ZG79_BRACM; Uncharacterized protein
STRINGBra034828.1-P1e-165(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM122028100
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G11580.11e-136B3 family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]