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 XP_009117116.1
Organism
Brassica rapa
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: 709aa    MW: 79730.5 Da    PI: 8.3534
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009117116.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B359.65.3e-19168257293
                     EEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..E CS
              B3   2 fkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelv 93 
                     f +l+++++l+++ l+lp + ++++g+  ++  +++l d   rsW++ l+++k+s+++ +++GW++F+++ng + g f++Fkl+g+ ++++v
  XP_009117116.1 168 FVALVTASSLRTDKLYLPQHVTSSNGLTRKC-CKIVLVDGGERSWTLDLSFNKSSDTFCMSRGWRNFCEENGQEPGGFFMFKLVGN-GETPV 257
                     5679999******************998655.6***************************************************96.33344 PP
2B3536.1e-17340424999
                     HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE-S CS
              B3   9 dvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfrk 99 
                     +++ ++ l+lp  f++e+g++k++  ++ l  ++g +W   l   + +g++ l+kGWkeFvkang+++g ++ F+  + +++++v++++++
  XP_009117116.1 340 YATHNHTLSLPALFVRENGINKPG--EVHLLGKDGTKWPTSLL-VNIRGSMSLGKGWKEFVKANGVESGFTLKFM--W-EDTTPVFSLCSA 424
                     6678999************99766..8***************5.55666789***********************..6.788899999986 PP
3B360.62.6e-19484570190
                     EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsef 90 
                     f++ ++++  + ++rlv+p +fa+e++++k   +++ l  ++gr+W  k+ +r k+gr+ l+kGWk+Fv+an+ k+gD++  +l++++++
  XP_009117116.1 484 FVTLTITPCCFITCRLVVPAQFARENSLNKL--RMIYLLGRDGRKWLTKI-HRDKKGRMSLGKGWKDFVEANNFKSGDSFAMELIWKDGT 570
                     5666677777889**************9965..59***************.677888899*************************96433 PP
4B350.53.7e-16611699798
                     .-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS.SEE..EEEEE- CS
              B3   7 psdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr.sefelvvkvfr 98 
                     ++   + + l+lp +f++++g++     ++tl  e+  +W+ +l    ++g++ l+ GW eF+kang+  g++++++++++ +++++v+k+++
  XP_009117116.1 611 TPEEVRACKLYLPSEFMKANGINRL--GKITLLGENKMEWSAYL--LTRDGTVALGMGWDEFCKANGVSLGETFTLEFSKEqNRTTPVLKFCS 699
                     455566788***********99844..48***************..99999****************************998*******9997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS508637.8958101IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.7E-128103IPR015300DNA-binding pseudobarrel domain
CDDcd100173.88E-9996No hitNo description
SuperFamilySSF1019366.28E-129105IPR015300DNA-binding pseudobarrel domain
SMARTSM010191.1E-1411101IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.3E-20159260IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.67E-21162263IPR015300DNA-binding pseudobarrel domain
CDDcd100179.69E-17167260No hitNo description
PROSITE profilePS5086313.479167263IPR003340B3 DNA binding domain
SMARTSM010193.1E-23168264IPR003340B3 DNA binding domain
PfamPF023621.8E-17168258IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.4E-15330426IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.69E-16331417IPR015300DNA-binding pseudobarrel domain
SMARTSM010196.3E-21331425IPR003340B3 DNA binding domain
PROSITE profilePS5086312.28332425IPR003340B3 DNA binding domain
CDDcd100172.78E-13335419No hitNo description
PfamPF023623.5E-15340424IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.103.3E-22475582IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086314.974484579IPR003340B3 DNA binding domain
CDDcd100171.61E-17484575No hitNo description
SMARTSM010192.0E-26484579IPR003340B3 DNA binding domain
SuperFamilySSF1019365.69E-19484574IPR015300DNA-binding pseudobarrel domain
PfamPF023621.1E-17484572IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.4E-18598698IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019368.04E-18601698IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086312.323605700IPR003340B3 DNA binding domain
SMARTSM010192.1E-20605701IPR003340B3 DNA binding domain
CDDcd100173.13E-11609687No hitNo description
PfamPF023621.3E-14610699IPR003340B3 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: 709 aa     Download sequence    Send to blast
MAKPRLLRPQ FFHALVPGFH THLMIPEDFF SKYIEEGTSM AAELISDASD KKWRVKMTGR  60
RLGDGWREFA FAVANNLRFG GVLLVRYEGD MVFHVSNLGQ SCCEIQDIWP ACNNIDKTLL  120
KKRLSPRTQV DRCDEDGIEL PRNKKVKMKS PEAEAEPLSS SSSDNSCFVA LVTASSLRTD  180
KLYLPQHVTS SNGLTRKCCK IVLVDGGERS WTLDLSFNKS SDTFCMSRGW RNFCEENGQE  240
PGGFFMFKLV GNGETPVLSL GLTDSNNDTR DCSQASERES LSTEFSSKDE YIQGEDSEDD  300
CSSMESMMET GKKKCSPKRR VTSYSSYYKR YVTFTLPHGY ATHNHTLSLP ALFVRENGIN  360
KPGEVHLLGK DGTKWPTSLL VNIRGSMSLG KGWKEFVKAN GVESGFTLKF MWEDTTPVFS  420
LCSADSTSER EQEEYFKGIK KQSLFIDPSN IDNSSKDENN KEENMSWEGQ KRGRDSTPLS  480
LKQFVTLTIT PCCFITCRLV VPAQFARENS LNKLRMIYLL GRDGRKWLTK IHRDKKGRMS  540
LGKGWKDFVE ANNFKSGDSF AMELIWKDGT RMLRLSGAES SSSKAYVSTE AGSSSDSSSA  600
IQNRSVRLTL TPEEVRACKL YLPSEFMKAN GINRLGKITL LGENKMEWSA YLLTRDGTVA  660
LGMGWDEFCK ANGVSLGETF TLEFSKEQNR TTPVLKFCSL ETNKKVGKC
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009117116.1
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_009117116.10.0PREDICTED: LOW QUALITY PROTEIN: B3 domain-containing protein REM13-like
SwissprotP0CAP50.0REM13_ARATH; B3 domain-containing protein REM13
TrEMBLA0A0D3DVL70.0A0A0D3DVL7_BRAOL; Uncharacterized protein
STRINGBo8g099680.10.0(Brassica oleracea)
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
AT2G24650.10.0DNA 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]