PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009116442.1
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: 266aa    MW: 30010.7 Da    PI: 6.9433
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009116442.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF86.31.7e-272070151
                    S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
          SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                    k+ien   rqvtfskRrng++KKA ELS+LCdaeva+iifsstgk y++ss
  XP_009116442.1 20 KKIENVNSRQVTFSKRRNGLMKKARELSILCDAEVALIIFSSTGKAYDFSS 70
                    68***********************************************96 PP
2K-box57.84.8e-201041901399
           K-box  13 kaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                     ++  +  + + +k+e+e Lq  + +l+G++Le +s+ +L +Le+qL++sl +++++K+++ll+q+e+++ kek++ een+ Lrk++e
  XP_009116442.1 104 ENVAMLPKDDAMKSEVERLQLAIQRLKGKELEGMSFSDLISLENQLNDSLHSVKDQKTQILLNQVERSRLKEKRALEENQILRKQVE 190
                     555555666889************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.3E-391271IPR002100Transcription factor, MADS-box
PROSITE profilePS5006631.5811272IPR002100Transcription factor, MADS-box
CDDcd002651.54E-411388No hitNo description
SuperFamilySSF554551.02E-301383IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-281434IPR002100Transcription factor, MADS-box
PfamPF003195.5E-262168IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-283449IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-284970IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.819105195IPR002487Transcription factor, K-box
PfamPF014861.5E-16113189IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009555Biological Processpollen development
GO:0009910Biological Processnegative regulation of flower development
GO:0048577Biological Processnegative regulation of short-day photoperiodism, flowering
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: 266 aa     Download sequence    Send to blast
MQYPNFEKKE KMGRGRIEIK KIENVNSRQV TFSKRRNGLM KKARELSILC DAEVALIIFS  60
STGKAYDFSS GCMEQTLSRY GYSGASHDHK QREEQQLLLC SSQENVAMLP KDDAMKSEVE  120
RLQLAIQRLK GKELEGMSFS DLISLENQLN DSLHSVKDQK TQILLNQVER SRLKEKRALE  180
ENQILRKQVE MLGRGSSGPK GLSEIPQFSS PQAEPESSSS DDDDENDPHS DTSLQLGLSS  240
SGYWTKRKKP KIESPYDNSG SQVASD
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A4e-201290179MEF2C
5f28_B4e-201290179MEF2C
5f28_C4e-201290179MEF2C
5f28_D4e-201290179MEF2C
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: During the reproductive phase, accumulates in immature buds and at the base of the floral organs, and in the receptacle, ovules, anther filaments, and stigma and style of open flowers. Later observed in sporogenous tissue of anthers. During male gametogenesis, expressed in the microspores before they separate from each other. Later present at high levels within pollen grains up to stage 13 of flower development, when anthers dehisce. During carpel development, first detected in developing ovules. After fertilization, confined to globular structures or nodules of proliferating free nuclear endosperm required for embryo development. Disappears from the endosperm at to the heart stage of embryo development, when very little nuclear endosperm remains. Never detected in developing embryos at any stage. In young seedlings, present everywhere except in a portion of the hypocotyl and in newly emerging leaves. {ECO:0000269|PubMed:11115127, ECO:0000269|PubMed:17521410}.
UniprotTISSUE SPECIFICITY: Mostly expressed in pollen, roots, flowers and siliques, and to a lower extent, in stems and leaves. Expressed in the endosperm and in developing male and female gametophytes. Also present in seedlings. {ECO:0000269|PubMed:11115127, ECO:0000269|PubMed:12837945, ECO:0000269|PubMed:12949148, ECO:0000269|PubMed:16028119, ECO:0000269|PubMed:17521410}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in the negative regulation of flowering, probably through the photoperiodic pathway. Prevents premature flowering. Downstream regulator of a subset of the MIKC* MADS-controlled genes required during pollen maturation. {ECO:0000269|PubMed:17521410, ECO:0000269|PubMed:18034896, ECO:0000269|PubMed:18799658}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009116442.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1892311e-105AC189231.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB013M01, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009116442.10.0PREDICTED: agamous-like MADS-box protein AGL18
SwissprotQ9M2K81e-137AGL18_ARATH; Agamous-like MADS-box protein AGL18
TrEMBLM4CSY20.0M4CSY2_BRARP; Uncharacterized protein
STRINGBra007324.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM60612139
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G57390.11e-128AGAMOUS-like 18