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 Rsa1.0_05361.1_g00003.1
Organism
Raphanus sativus
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: 259aa    MW: 29054 Da    PI: 7.3024
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_05361.1_g00003.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3104.17.4e-3327139199
                              EEEE-..-HHHHTT-EE--HHH.HTT..............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHH CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkan 72 
                              f+k ltpsdv+k++rlv+pk++ae++               +++e+++ l++edesg+sW+++++y+++s++yvltkGW+++vk++
  Rsa1.0_05361.1_g00003.1  27 FEKSLTPSDVGKLNRLVIPKQHAERYlplnnnggggddvtAESTEKGVLLSFEDESGKSWKFRYSYWNSSQSYVLTKGWSRYVKDK 112
                              99********************************999999777789**************************************** PP

                              T--TT-EEEEEE-SS.SEE..EEEEE-S CS
                       B3  73 gLkegDfvvFkldgr.sefelvvkvfrk 99 
                              +L++gD+v+F+++ r +  +l+++++r+
  Rsa1.0_05361.1_g00003.1 113 HLNAGDVVLFQRH-RfDIHRLFIGWRRR 139
                              ***********65.44888899999987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.105.7E-4021148IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019369.03E-3123140IPR015300DNA-binding pseudobarrel domain
CDDcd100175.92E-2926128No hitNo description
PfamPF023624.9E-3027139IPR003340B3 DNA binding domain
PROSITE profilePS5086313.59227140IPR003340B3 DNA binding domain
SMARTSM010193.4E-2527140IPR003340B3 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: 259 aa     Download sequence    Send to blast
MSVNHSSRDI HHNTHSSLHN DHRESLFEKS LTPSDVGKLN RLVIPKQHAE RYLPLNNNGG  60
GGDDVTAEST EKGVLLSFED ESGKSWKFRY SYWNSSQSYV LTKGWSRYVK DKHLNAGDVV  120
LFQRHRFDIH RLFIGWRRRG EASSAVSTVS QDARGDTTAY WSGLTTPYRQ VHASTSSYPN  180
IHQEYSHYGA VAETPTVVAG SSRTVRLFGV NLECHGDVVE PPPCPDAYNG QHIYYYPTPH  240
PMSISFAGEA MEQVGDGRG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A4e-48231394113B3 domain-containing transcription factor NGA1
5os9_B4e-48231394113B3 domain-containing transcription factor NGA1
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_05361.1_g00003.1
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_022575501.11e-165B3 domain-containing protein At3g11580-like
SwissprotQ8RYD31e-141Y3158_ARATH; B3 domain-containing protein At3g11580
TrEMBLA0A397ZG791e-165A0A397ZG79_BRACM; Uncharacterized protein
STRINGBra034828.1-P1e-161(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-140B3 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]