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_03642.1_g00003.1
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: 936aa    MW: 105471 Da    PI: 8.6313
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_03642.1_g00003.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B334.82.9e-1120961294
                             HTT-EE--HHH.HTT.---..--SEEEEEE.TTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
                       B3 12 ksgrlvlpkkfaeeh.ggkkeesktltled.esgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94
                             ++  l++p +f++++ +++   s+t  l++    r+W+ k+  ++++    l++GW+eF+ an+L+ g +++ +++g++ f  +v
  Rsa1.0_03642.1_g00003.1 20 SHTHLMIPEDFFSKYiEEEGGASVTAELKSdAADRTWKAKM--TGRR----LGQGWREFAVANNLRFGGVILVRYEGDMVF--HV 96
                             44459**********8444456778888875777*******..8888....************************999888..54 PP
2B362.57e-20163252293
                              EEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
                       B3   2 fkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                              f +l+++++l+++ l lp + ++++g+   + ++++l d + +sW++ l+++k+s+++++++GW++F+++ng + g f++Fkl+g+
  Rsa1.0_03642.1_g00003.1 163 FVALVTPSSLRTDKLFLPQHVTSSNGLTR-KCRKIVLVDGREKSWTLDLSFNKSSDTFYMSRGWRNFCEENGQEPGGFFMFKLVGN 247
                              56789999*****************9985.567**************************************************996 PP

                              SEE..E CS
                       B3  88 sefelv 93 
                               ++++v
  Rsa1.0_03642.1_g00003.1 248 -GETPV 252
                              .44444 PP
3B360.23.5e-19374468198
                              EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-S CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldg 86 
                              f++ ++++++ +++rl l k+f+++++++k++  ++tl  ++g + + +l ++k ++ + l++GWk+F++angLk+gD++++kl++
  Rsa1.0_03642.1_g00003.1 374 FVTLTITPSSVRQCRLGLLKSFTRDNDINKPG--MITLLGRDGTRHQTRLVFDKVKRIMALEGGWKDFAEANGLKTGDSFTLKLIW 457
                              7788999*******************999766..8*************************************************** PP

                              SSEE..EEEEE- CS
                       B3  87 rsefelvvkvfr 98 
                               +++++v++++ 
  Rsa1.0_03642.1_g00003.1 458 -EDTTPVLSLCP 468
                              .88889999986 PP
4B359.17.6e-19540631398
                              EE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
                       B3   3 kvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                                 ++++ + ++rl lp +fa+e++++k   +++ l  ++gr+W  k++ + k+gr+ l++GW++F++an+ k+gD+++ +l++ +
  Rsa1.0_03642.1_g00003.1 540 ILKITPSCFIQCRLGLPAQFARENSMSK--LRMIYLLGRDGRKWLTKVQ-QDKKGRVSLGNGWRDFADANNFKSGDSFTMELIW-E 621
                              5667899999**************9885..459***************6.5555789***************************.6 PP

                              EE..EEEEE- CS
                       B3  89 efelvvkvfr 98 
                              ++++++++ +
  Rsa1.0_03642.1_g00003.1 622 DETCMLRLSD 631
                              6667777665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086311.0259102IPR003340B3 DNA binding domain
SuperFamilySSF1019363.73E-1410106IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.103.2E-1510104IPR015300DNA-binding pseudobarrel domain
CDDcd100175.13E-121097No hitNo description
SMARTSM010192.2E-1912102IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.7E-20156255IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.08E-21157260IPR015300DNA-binding pseudobarrel domain
CDDcd100172.24E-17162255No hitNo description
PROSITE profilePS5086314.269162258IPR003340B3 DNA binding domain
PfamPF023622.0E-18163253IPR003340B3 DNA binding domain
SMARTSM010191.6E-24163259IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.9E-22364472IPR015300DNA-binding pseudobarrel domain
PfamPF023621.9E-18374468IPR003340B3 DNA binding domain
SMARTSM010192.6E-25374470IPR003340B3 DNA binding domain
CDDcd100172.01E-19374468No hitNo description
SuperFamilySSF1019362.35E-21374473IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086312.266374470IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.108.4E-20528630IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-18532626IPR015300DNA-binding pseudobarrel domain
PfamPF023621.4E-17538631IPR003340B3 DNA binding domain
SMARTSM010191.6E-25538633IPR003340B3 DNA binding domain
PROSITE profilePS5086314.311538633IPR003340B3 DNA binding domain
CDDcd100172.15E-15538624No hitNo description
Gene3DG3DSA:2.40.330.101.8E-6654719IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.79E-6656719IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS508636.682683745IPR003340B3 DNA binding domain
SuperFamilySSF549285.93E-16729834IPR012677Nucleotide-binding alpha-beta plait domain
Gene3DG3DSA:3.30.70.3305.4E-15740834IPR012677Nucleotide-binding alpha-beta plait domain
PROSITE profilePS5010211.912781834IPR000504RNA recognition motif domain
SMARTSM003603.9E-10782854IPR000504RNA recognition motif domain
PfamPF000765.2E-10783834IPR000504RNA recognition motif domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000166Molecular Functionnucleotide binding
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 936 aa     Download sequence    Send to blast
MANSRLLLRP QFFHTLLPGS HTHLMIPEDF FSKYIEEEGG ASVTAELKSD AADRTWKAKM  60
TGRRLGQGWR EFAVANNLRF GGVILVRYEG DMVFHVSNLG QNCCEIQDIS PACGDKTLLK  120
KRLYPRTQVD RCEEDDIELP RNKKVKMKSP EAEEPLSSDN SCFVALVTPS SLRTDKLFLP  180
QHVTSSNGLT RKCRKIVLVD GREKSWTLDL SFNKSSDTFY MSRGWRNFCE ENGQEPGGFF  240
MFKLVGNGET PVLSLGLTES NNDTRYCAQA SERESLSTEP SSKDEYIQGE SSEEDCSSMD  300
SLMEAGVSFS LCSADSTSDS EQEEYFKAIK KQSLFKDPSN IDNSSKDQNN KEENMSWERK  360
KRGRDSTPSS LKQFVTLTIT PSSVRQCRLG LLKSFTRDND INKPGMITLL GRDGTRHQTR  420
LVFDKVKRIM ALEGGWKDFA EANGLKTGDS FTLKLIWEDT TPVLSLCPEE CSFDRGQGGC  480
SETNQKKSPP PIERSSCGKV IKERNNREND SKEQTRSMEK EKNHVRGRDS TSSSKKQFVI  540
LKITPSCFIQ CRLGLPAQFA RENSMSKLRM IYLLGRDGRK WLTKVQQDKK GRVSLGNGWR  600
DFADANNFKS GDSFTMELIW EDETCMLRLS DAESSSLKAY VSTEPGSSSE SSSAIQNRSV  660
TLTLTPEEVR ACKLANGINR LGKITLLGEN KREWSAYLLT RDGTVALGIG WEEFCEANGR  720
LERAVEAVMG SINSAKNVIA SLDGKEVGGW EMRFRYSVDM NPGTKRDTSA LNSTPKKILT  780
YKVYVGNLPW LTQPNGLRNH FSQFGTAVST RVLHDRKTGE NRVFAFLSFA NLEQLILQNS  840
APPPIKAFRR WNIGSTTTVL EMVVVGPGWA FLRLTEIRRI PSFPALEKYE NGSGFRWVDL  900
ELNALNQAVC WEDSQATWKP SKRVGRTTHC WVFVRR
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_03642.1_g00003.1
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_018433753.10.0PREDICTED: B3 domain-containing protein REM13-like
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
AT2G24650.11e-118DNA binding;DNA binding;sequence-specific DNA binding transcription factors