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_00064.1_g00013.1
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: 298aa    MW: 34046.1 Da    PI: 6.9244
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00064.1_g00013.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3100.88e-3235140199
                              EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                              f+kv tpsdv+k++rlv+pk++ae++    + ++e++  l +ed+ g+sW+++++y+++s++yv+tkGW++Fvk+++L++gD+v F
  Rsa1.0_00064.1_g00013.1  35 FDKVVTPSDVGKLNRLVIPKQYAERYfpldSTSNEKGLLLNFEDLAGKSWRFRYSYWNSSQSYVMTKGWSRFVKDKKLDAGDIVSF 120
                              89***************************955567889************************************************ PP

                              EE-.SS..SEE..EEEEE-S CS
                       B3  83 kld.gr..sefelvvkvfrk 99 
                              ++  g+  ++ +l++ ++r+
  Rsa1.0_00064.1_g00013.1 121 QRCvGDsgRDSRLFIDWRRR 140
                              *4433324677788888876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.5E-4129142IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.98E-3032127IPR015300DNA-binding pseudobarrel domain
CDDcd100171.01E-2533135No hitNo description
PROSITE profilePS5086315.12935141IPR003340B3 DNA binding domain
SMARTSM010197.2E-2435141IPR003340B3 DNA binding domain
PfamPF023623.2E-2935140IPR003340B3 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: 298 aa     Download sequence    Send to blast
MMMTNLSLTR EAEDEEEEQE EAKKPMEEVE REHMFDKVVT PSDVGKLNRL VIPKQYAERY  60
FPLDSTSNEK GLLLNFEDLA GKSWRFRYSY WNSSQSYVMT KGWSRFVKDK KLDAGDIVSF  120
QRCVGDSGRD SRLFIDWRRR PKVPDHPTSI AHFAAGSMFP RFYGFPTATS YNLYNYQQPR  180
HHHHHHSGYN YPQIPREFGY GYLVDQRAVV ADPLVIDSVP VMLHGGAQVS QAVVGTAGKR  240
LRLFGVDMEE ESSSSVRSLP RGGDSPSSSL FQLRLGSSSE DDHFSKKGKS SLPFDLDQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A8e-77291432116B3 domain-containing transcription factor NGA1
5os9_B8e-77291432116B3 domain-containing transcription factor NGA1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtRegulates lateral organ growth. Functionally redundant with NGA2, NGA3 and NGA4. {ECO:0000269|PubMed:16603651}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00064.1_g00013.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2324910.0AC232491.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB049N04, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018436810.10.0PREDICTED: B3 domain-containing transcription factor NGA1
SwissprotO827991e-151NGA1_ARATH; B3 domain-containing transcription factor NGA1
TrEMBLA0A3P5YNX10.0A0A3P5YNX1_BRACM; Uncharacterized protein
TrEMBLM4CJW70.0M4CJW7_BRARP; Uncharacterized protein
STRINGBra004501.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM13072899
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G46870.11e-143B3 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. Lee BH, et al.
    The Arabidopsis thaliana NGATHA transcription factors negatively regulate cell proliferation of lateral organs.
    Plant Mol. Biol., 2015. 89(4-5): p. 529-38
    [PMID:26433582]
  3. Lozano-Sotomayor P, et al.
    Altered expression of the bZIP transcription factor DRINK ME affects growth and reproductive development in Arabidopsis thaliana.
    Plant J., 2016. 88(3): p. 437-451
    [PMID:27402171]
  4. Alvarez JP,Furumizu C,Efroni I,Eshed Y,Bowman JL
    Active suppression of a leaf meristem orchestrates determinate leaf growth.
    Elife, 2017.
    [PMID:27710768]
  5. Sasnauskas G,Manakova E,Lapėnas K,Kauneckaitė K,Siksnys V
    DNA recognition by Arabidopsis transcription factors ABI3 and NGA1.
    FEBS J., 2018. 285(21): p. 4041-4059
    [PMID:30183137]
  6. Sato H, et al.
    Arabidopsis thaliana NGATHA1 transcription factor induces ABA biosynthesis by activating NCED3 gene during dehydration stress.
    Proc. Natl. Acad. Sci. U.S.A., 2018. 115(47): p. E11178-E11187
    [PMID:30397148]