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 Rsa1.0_00173.1_g00029.1
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: 264aa    MW: 29754.2 Da    PI: 4.8691
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00173.1_g00029.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B362.76.1e-2013101197
                              EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                              f kv+   + ++s  + +p +f e+ + +   ++t +l+ + g +W+v +  +k ++r ++t+GW++F+++++Lk+g+f++F +dg
  Rsa1.0_00173.1_g00029.1  13 FSKVF--LSQTASESMAIPESFSEHLEDP--LPQTAKLQGTGGGVWTVSF--KKIRDRAYFTSGWSKFAEDHELKDGEFLTFVYDG 92 
                              55666..556666779******9655655..889****************..********************************99 PP

                              SSEE..EEEEE CS
                       B3  87 rsefelvvkvf 97 
                              +++f   v+vf
  Rsa1.0_00173.1_g00029.1  93 SHTF--EVSVF 101
                              8888..66665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019363.14E-2410106IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.108.4E-2410106IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086314.18411104IPR003340B3 DNA binding domain
CDDcd100172.76E-1911101No hitNo description
SMARTSM010191.2E-2213104IPR003340B3 DNA binding domain
PfamPF023626.6E-1714100IPR003340B3 DNA binding domain
SuperFamilySSF1019368.63E-12169248IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.0E-8169248IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS508636.597169264IPR003340B3 DNA binding domain
SMARTSM010190.11172261IPR003340B3 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: 264 aa     Download sequence    Send to blast
MSGSEEDDVL PRFSKVFLSQ TASESMAIPE SFSEHLEDPL PQTAKLQGTG GGVWTVSFKK  60
IRDRAYFTSG WSKFAEDHEL KDGEFLTFVY DGSHTFEVSV FGLSGCKEIR AAVESVNLSD  120
VDSDKKEEEE GDDDDPSFDA GEDDEVSQSA DTVSNAEVVE GFSNLEVESN PCFTTTLKSR  180
IYELLIPAKV VKKHKLKFGD RIKYIDGEGI MHGVKGKWTD DRIFFKGWNK ICRRNRLKEH  240
DTVHCEMLHI RKEVHSIKIT VTRG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1yel_A1e-1931061104At1g16640
Search in ModeBase
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00173.1_g00029.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892221e-105AC189222.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB010M19, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018475154.11e-178PREDICTED: B3 domain-containing protein REM20-like
RefseqXP_018475155.11e-178PREDICTED: B3 domain-containing protein REM20-like
SwissprotQ8LAV54e-93REM20_ARATH; B3 domain-containing protein REM20
TrEMBLA0A397YLL81e-150A0A397YLL8_BRACM; Uncharacterized protein
TrEMBLM4CFZ81e-150M4CFZ8_BRARP; Uncharacterized protein
STRINGBra003130.1-P1e-151(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
AT3G53310.12e-90B3 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]