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 RrC3475_p2
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: 253aa    MW: 28457.6 Da    PI: 4.5856
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3475_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B356.64.6e-181299194
                EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
          B3  1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94
                ffkv+ ++ +++   + +p +f e+ + +   ++  +l+ + g +W+v +  +k ++  ++t+GW++F+++++Lk+g+f++F +dg+++fe  v
  RrC3475_p2 12 FFKVFFSETASE--SMGIPMSFNEHLEDP--LPQRAKLQGTGGGVWTVSF--TKIRDCAYFTSGWSKFAEDHELKDGEFLTFVYDGHHTFEVSV 99
                788885544444..48******9665655..7889***************..99988899*************************999995544 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019361.12E-229105IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.106.7E-219102IPR015300DNA-binding pseudobarrel domain
CDDcd100171.84E-1710100No hitNo description
PROSITE profilePS5086312.77410103IPR003340B3 DNA binding domain
PfamPF023622.0E-151299IPR003340B3 DNA binding domain
SMARTSM010192.0E-1912103IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.106.8E-6158248IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.87E-8158237IPR015300DNA-binding pseudobarrel domain
SMARTSM010190.53162250IPR003340B3 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: 253 aa     Download sequence    Send to blast
MDESEDDVLP RFFKVFFSET ASESMGIPMS FNEHLEDPLP QRAKLQGTGG GVWTVSFTKI  60
RDCAYFTSGW SKFAEDHELK DGEFLTFVYD GHHTFEVSVY GHCGCKETRA VVETVEVSDD  120
DSDGSEEEDS SADDDSDVSS NVTVSDDDAG LLSMEVTGNP CFTTKLKQRI YELLIPANVV  180
NEHGLTFEDS IKYIDAEGVM KGERGKMPDG RVCFKGWNRV CRRNRVREQD TVHCEMIHVR  240
KKVHSIKVTV TRG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1yel_A3e-201110510104At1g16640
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
GenBankAC1892691e-118AC189269.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB023B16, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018489310.11e-151PREDICTED: B3 domain-containing protein REM20-like
SwissprotQ8LAV51e-87REM20_ARATH; B3 domain-containing protein REM20
TrEMBLM4CRZ71e-134M4CRZ7_BRARP; Uncharacterized protein
STRINGBra006989.1-P1e-135(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15612380
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G53310.14e-43B3 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]
  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]