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 RrC4729_p3
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: 143aa    MW: 16169.3 Da    PI: 8.7477
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4729_p3genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B335.41.9e-1119941194
                HHTT-EE--HHH.HTT.---..--SEEEEEE.TTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
          B3 11 lksgrlvlpkkfaeeh.ggkkeesktltled.esgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94
                + ++ l++p +f++++ +g +  + t +l++ +s  +W+vk+    +    +l++GW+eF+ an L++g  ++ +++g++ f  +v
  RrC4729_p3 19 FHTH-LTIPVNFFSKYiEGRS-VDNTAQLKSgSSDITWQVKI--ADR----ILSDGWREFAVANSLRAGHLILVRYEGDMVF--HV 94
                4455.9**********85554.4459999996777*******..333....69***********************998888..55 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.8E-15895IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086310.1658100IPR003340B3 DNA binding domain
CDDcd100178.25E-12995No hitNo description
SuperFamilySSF1019366.28E-13995IPR015300DNA-binding pseudobarrel domain
SMARTSM010191.5E-1411100IPR003340B3 DNA binding domain
PfamPF023621.7E-72192IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 143 aa     Download sequence    Send to blast
MAKSTLLRPQ FFHKLVPGFH THLTIPVNFF SKYIEGRSVD NTAQLKSGSS DITWQVKIAD  60
RILSDGWREF AVANSLRAGH LILVRYEGDM VFHVSDCGEI PSNCNDDDDK HSHPRPDVDD  120
DLPNKKRAKT NISSATLHKL KRS
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018436183.12e-81PREDICTED: B3 domain-containing protein REM12-like
SwissprotP0CAP53e-32REM13_ARATH; B3 domain-containing protein REM13
TrEMBLA0A3P6GP014e-60A0A3P6GP01_BRAOL; Uncharacterized protein
STRINGBra007836.1-P3e-55(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM137801326
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G24650.11e-34DNA binding;DNA binding;sequence-specific DNA binding transcription factors
Publications ? help Back to Top
  1. Bindschedler LV,Palmblad M,Cramer R
    Hydroponic isotope labelling of entire plants (HILEP) for quantitative plant proteomics; an oxidative stress case study.
    Phytochemistry, 2008. 69(10): p. 1962-72
    [PMID:18538804]
  2. Mantegazza O, et al.
    Analysis of the arabidopsis REM gene family predicts functions during flower development.
    Ann. Bot., 2014. 114(7): p. 1507-15
    [PMID:25002525]