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 Potri.017G044200.1
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family MIKC_MADS
Protein Properties Length: 221aa    MW: 25173.8 Da    PI: 9.6544
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.017G044200.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF83.41.4e-26959151
                        S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
              SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                        k+i+n+s rqv+fskRr g++KKA+ELS+LCdae+a+++fs tgk++eys+
  Potri.017G044200.1  9 KKIDNTSARQVSFSKRRRGLFKKAFELSILCDAEIALMVFSATGKFFEYSN 59
                        68***********************************************95 PP
2K-box471.1e-16911711999
               K-box  19 qelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                           +a L+kei +  re+R+  GedL+ L+++eL++Le+ +eksl ++ ++K e +l++++ l+ ke++l een++L+++l+
  Potri.017G044200.1  91 AVHAMLNKEIAEKTRELRRTRGEDLQGLNMEELEKLEKLIEKSLCRVIETKGEKILKEVDALKSKEHQLIEENQRLKQRLM 171
                         55678999999999***************************************************************9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006629.142161IPR002100Transcription factor, MADS-box
SMARTSM004321.2E-35160IPR002100Transcription factor, MADS-box
CDDcd002651.18E-34268No hitNo description
SuperFamilySSF554551.07E-27373IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-25323IPR002100Transcription factor, MADS-box
PfamPF003192.4E-231057IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-252338IPR002100Transcription factor, MADS-box
PRINTSPR004041.0E-253859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129711.45286179IPR002487Transcription factor, K-box
PfamPF014863.7E-1394170IPR002487Transcription 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: 221 aa     Download sequence    Send to blast
MARKKIQIKK IDNTSARQVS FSKRRRGLFK KAFELSILCD AEIALMVFSA TGKFFEYSNS  60
SIGQVIERRN LHPKNLDTFS QPSVELQLDS AVHAMLNKEI AEKTRELRRT RGEDLQGLNM  120
EELEKLEKLI EKSLCRVIET KGEKILKEVD ALKSKEHQLI EENQRLKQRL MSLSKGQGHL  180
LEQGQSSDSM VNNISSNSAN PRQDYDNYSS FLTLGLPFPD *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A3e-19166166MEF2C
5f28_B3e-19166166MEF2C
5f28_C3e-19166166MEF2C
5f28_D3e-19166166MEF2C
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.92680.0stem
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Widely expressed with highest levels in shoot tips and axillary buds. Also found in fully developed pedicels and flowers.
Functional Description ? help Back to Top
Source Description
UniProtPutative transcription factor that coordinates gene expression underlying the differentiation of the pedicel abscission zone. May also be involved in the maintenance of the inflorescence meristem state.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.017G044200.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF1447390.0EF144739.1 Populus trichocarpa clone WS01117_K02 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006373014.21e-160MADS-box protein JOINTLESS
RefseqXP_024444644.11e-160MADS-box protein JOINTLESS
RefseqXP_024444645.11e-160MADS-box protein JOINTLESS
RefseqXP_024444646.11e-160MADS-box protein JOINTLESS
SwissprotQ9FUY64e-73JOIN_SOLLC; MADS-box protein JOINTLESS
TrEMBLA0A2K1X3701e-159A0A2K1X370_POPTR; Uncharacterized protein
STRINGXP_010254524.11e-90(Nelumbo nucifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF89033106
Representative plantOGRP1617761
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22540.15e-68MIKC_MADS family protein
Publications ? help Back to Top
  1. Ralph SG, et al.
    Analysis of 4,664 high-quality sequence-finished poplar full-length cDNA clones and their utility for the discovery of genes responding to insect feeding.
    BMC Genomics, 2008. 9: p. 57
    [PMID:18230180]
  2. Nakano T,Kato H,Shima Y,Ito Y
    Apple SVP Family MADS-Box Proteins and the Tomato Pedicel Abscission Zone Regulator JOINTLESS have Similar Molecular Activities.
    Plant Cell Physiol., 2015. 56(6): p. 1097-106
    [PMID:25746985]