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 GSBRNA2T00127304001
Common NameGSBRNA2T00127304001
Organism
Brassica napus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family B3
Protein Properties Length: 814aa    MW: 92170.7 Da    PI: 9.6203
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00127304001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B331.82.5e-1019831182
                         HHTT-EE--HHH.HTT.---..--SEEEEEE.TTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--.TT-EEEE CS
                   B3 11 lksgrlvlpkkfaeeh.ggkkeesktltled.esgrsWevkliyrkksgryvltkGWkeFvkangLk.egDfvvF 82
                         + ++ l++p +f++++ +  + +s+   l +  s ++W++k+  ++++    l++GW+eF+ +n+L+ egD+v F
  GSBRNA2T00127304001 19 FHTH-LMIPEDFFSKYiE--EGRSMAAELISdASDKKWRLKM--TGRR----LGDGWREFAVDNNLRyEGDMV-F 83
                         4445.9**********52..567777777765999*******..8888....***************999985.5 PP
2B359.75e-19173261292
                          EEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
                   B3   2 fkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                          f +l+++++l+++ l+lp + ++++g+   + ++++l d   rsW++ l+++k+s+++ +++GW++F+++ng + g f++Fkl+g++e+ 
  GSBRNA2T00127304001 173 FVALVTASSLRTDKLYLPQHITSSNGLTR-KCRKIVLVDGGERSWTLDLSFNKSSDTFCMSRGWRNFCEENGQEPGGFFMFKLVGNRET- 260
                          5679999******************9985.557**************************************************996444. PP

                          . CS
                   B3  92 l 92 
                          +
  GSBRNA2T00127304001 261 P 261
                          4 PP
3B344.13.7e-143404201399
                          TT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
                   B3  13 sgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                          + + +lp  f++e+g++k++  ++ l  ++g +W   l   + +g++ l+kGWk+Fvkang+++g ++ ++  + +++++v+ ++++
  GSBRNA2T00127304001 340 HELGSLPALFVRENGINKPG--EIHLLGKDGTKWPTSLL-VNIRGSMSLGKGWKDFVKANGVESGFTLKLM--W-EDTTPVFCLCSA 420
                          44449**********99766..8***************5.55666789*****************998888..7.788899999985 PP
4B361.21.8e-19480567191
                          EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
                   B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                          f++ ++++  + ++rlvlp +fa+e++++k   +++ l  ++gr+W  k+ ++ k+gr+ l+kGWk+Fv+an+ k+gD++  +l++++++
  GSBRNA2T00127304001 480 FVTLTITPCCFITCRLVLPAQFARENSLNKL--RMIYLLGRDGRKWLTKI-HQDKKGRMSLGKGWKDFVEANNFKSGDSFAMELIWEDGT 566
                          5666677777889**************9965..59***************.677777899*************************96443 PP

                          . CS
                   B3  91 e 91 
                          +
  GSBRNA2T00127304001 567 R 567
                          2 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.7E-10885IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS508639.559899IPR003340B3 DNA binding domain
SuperFamilySSF1019366.47E-11995IPR015300DNA-binding pseudobarrel domain
CDDcd100172.00E-10982No hitNo description
SMARTSM010191.6E-111191IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.105.9E-20165265IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019368.44E-20167264IPR015300DNA-binding pseudobarrel domain
CDDcd100172.43E-16172264No hitNo description
PROSITE profilePS5086313.916172268IPR003340B3 DNA binding domain
PfamPF023621.7E-17173262IPR003340B3 DNA binding domain
SMARTSM010194.7E-22173268IPR003340B3 DNA binding domain
SMARTSM010199.3E-16326421IPR003340B3 DNA binding domain
SuperFamilySSF1019364.51E-14327418IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.102.5E-13327422IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086310.743328421IPR003340B3 DNA binding domain
CDDcd100171.12E-12330419No hitNo description
PfamPF023628.3E-13340420IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.9E-21474575IPR015300DNA-binding pseudobarrel domain
PfamPF023627.5E-18480568IPR003340B3 DNA binding domain
SMARTSM010191.6E-26480575IPR003340B3 DNA binding domain
PROSITE profilePS5086314.96480575IPR003340B3 DNA binding domain
CDDcd100174.01E-17480571No hitNo description
SuperFamilySSF1019361.37E-18480570IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:3.30.70.3304.5E-20618693IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5010215.443618687IPR000504RNA recognition motif domain
SuperFamilySSF549282.17E-19618704IPR012677Nucleotide-binding alpha-beta plait domain
CDDcd123737.16E-36619687No hitNo description
SMARTSM003601.3E-16619683IPR000504RNA recognition motif domain
PfamPF000761.0E-15620677IPR000504RNA recognition motif domain
SuperFamilySSF577562.3E-5699726IPR001878Zinc finger, CCHC-type
Gene3DG3DSA:4.10.60.102.4E-6705728IPR001878Zinc finger, CCHC-type
PROSITE profilePS5015810.889708724IPR001878Zinc finger, CCHC-type
PfamPF000982.0E-6708723IPR001878Zinc finger, CCHC-type
SMARTSM003438.3E-5708724IPR001878Zinc finger, CCHC-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0000166Molecular Functionnucleotide binding
GO:0003677Molecular FunctionDNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 814 aa     Download sequence    Send to blast
MAKSRLLRPQ FFHTLVPGFH THLMIPEDFF SKYIEEGRSM AAELISDASD KKWRLKMTGR  60
RLGDGWREFA VDNNLRYEGD MVFHVSNLGQ NCCEIQDISP PCNNIDKTLL KKRLYPRTQV  120
DRCDEDEDED GIVQLQSLRC GTDTELPINK KTEMRSPEAE AEPLSSSSDN SCFVALVTAS  180
SLRTDKLYLP QHITSSNGLT RKCRKIVLVD GGERSWTLDL SFNKSSDTFC MSRGWRNFCE  240
ENGQEPGGFF MFKLVGNRET PVLTSERESL STELSSEDEY IQGESSEDDC SSMESLMETG  300
KKKCSPKRRV TSYASYSSYL PYYKRYVTFT LRHGYATHKH ELGSLPALFV RENGINKPGE  360
IHLLGKDGTK WPTSLLVNIR GSMSLGKGWK DFVKANGVES GFTLKLMWED TTPVFCLCSA  420
DSTSDREQEE YFKAIRKQSL FMDPSNIENS SKDEKNKEEN MSWERKKRGR GSTPLSLKQF  480
VTLTITPCCF ITCRLVLPAQ FARENSLNKL RMIYLLGRDG RKWLTKIHQD KKGRMSLGKG  540
WKDFVEANNF KSGDSFAMEL IWEDGTRMLR LSGAESRSSK AYVSTEAGSS SDSSSAIQNR  600
SVRLTLTPEE VRAFSLMSRV YVGNLDPRVT ERELEDEFRV YGVIKSVWVA RRPPGYAFLD  660
FEDSRDARDA IRDLDGKNGW RVEQSHNRGG GGGGRGDGGR GRGGSDLKCY ECGESGHFAR  720
ECRSRGGGGS RRGRSPSPRG RSRSRSPPRY RKSPTYGGRR SYSPRARSPL PPRRRSPSPR  780
VRNYSRSPPP YRAREEVPYT NGNGLKDVRR SRS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2i38_A2e-1661668972147Fusion protein consists of immunoglobulin G-Binding Protein G and Splicing factor, arginine/serine-rich 3
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Bna.75990.0flower| leaf| microspore| microspore-derived embryo| root| seed
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00127304001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankDQ2460101e-164DQ246010.1 Zea mays clone 94573 mRNA sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013604126.10.0PREDICTED: B3 domain-containing protein REM13-like isoform X2
SwissprotP0CAP51e-177REM13_ARATH; B3 domain-containing protein REM13
TrEMBLA0A3P6GX540.0A0A3P6GX54_BRAOL; Uncharacterized protein
STRINGBra007840.1-P0.0(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-156DNA 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]
  3. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]