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_009140371.1
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 MIKC_MADS
Protein Properties Length: 227aa    MW: 26175.9 Da    PI: 9.0651
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009140371.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF81.94e-26959151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    kri++++ rqvtfskRr+g++KKA+EL +LCdaev +iifs+t+kly++ss
  XP_009140371.1  9 KRIDDSTSRQVTFSKRRKGLIKKAKELAILCDAEVGLIIFSNTDKLYDFSS 59
                    79***********************************************96 PP
2K-box78.41.8e-2681171999
           K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                     + +++   +q+e+a L++e+++Lq+ +R+l+Ge+L+ Ls++eL+++e+ Le sl+ iR kK+++l+++i+el kk + +++en +L++k++
  XP_009140371.1  81 NPASEVMFWQREAATLRQELHSLQEYHRQLMGEQLNGLSVNELHNIESTLEMSLRGIRMKKEQMLTDEIKELTKKRNLIHHENLELSRKVQ 171
                     55678899*********************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.1E-37160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.6161IPR002100Transcription factor, MADS-box
SuperFamilySSF554555.89E-31291IPR002100Transcription factor, MADS-box
CDDcd002654.68E-40278No hitNo description
PRINTSPR004042.6E-26323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003194.5E-241057IPR002100Transcription factor, MADS-box
PRINTSPR004042.6E-262338IPR002100Transcription factor, MADS-box
PRINTSPR004042.6E-263859IPR002100Transcription factor, MADS-box
PfamPF014861.1E-2485170IPR002487Transcription factor, K-box
PROSITE profilePS5129714.59186176IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 227 aa     Download sequence    Send to blast
MGRGKIVIKR IDDSTSRQVT FSKRRKGLIK KAKELAILCD AEVGLIIFSN TDKLYDFSSS  60
SMKSAIERFN KTKMEQQQLL NPASEVMFWQ REAATLRQEL HSLQEYHRQL MGEQLNGLSV  120
NELHNIESTL EMSLRGIRMK KEQMLTDEIK ELTKKRNLIH HENLELSRKV QRIHQENVEL  180
HKKAYATSNT NVLGLGELED AADESHAQVR LQLSQPEQSC YDSPPKS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A5e-19169169MEF2C
5f28_B5e-19169169MEF2C
5f28_C5e-19169169MEF2C
5f28_D5e-19169169MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Preferentially expressed in roots.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009140371.1
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_009140371.11e-168PREDICTED: agamous-like MADS-box protein AGL17 isoform X1
SwissprotQ388401e-133AGL17_ARATH; Agamous-like MADS-box protein AGL17
TrEMBLA0A397ZKL81e-166A0A397ZKL8_BRACM; Uncharacterized protein
TrEMBLM4EN521e-166M4EN52_BRARP; Uncharacterized protein
STRINGBra030222.1-P1e-167(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM53024105
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22630.11e-135AGAMOUS-like 17
Publications ? help Back to Top
  1. Zimmermann P,Hirsch-Hoffmann M,Hennig L,Gruissem W
    GENEVESTIGATOR. Arabidopsis microarray database and analysis toolbox.
    Plant Physiol., 2004. 136(1): p. 2621-32
    [PMID:15375207]
  2. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]