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 Pp3c4_540V3.2.p
Organism
Physcomitrella patens
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Bryophyta; Bryophytina; Bryopsida; Funariidae; Funariales; Funariaceae; Physcomitrella
Family MIKC_MADS
Protein Properties Length: 349aa    MW: 38479.4 Da    PI: 7.3289
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pp3c4_540V3.2.pgenomeCOSMOSSView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF83.11.8e-2676126151
                      S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF   1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51 
                      k+ien++ rqvtfskRr g+lKKA+EL vLCdaeva++ifsstgk +e++s
  Pp3c4_540V3.2.p  76 KKIENTTSRQVTFSKRRGGLLKKAHELAVLCDAEVALVIFSSTGKHFEFAS 126
                      68***********************************************86 PP
2K-box85.89e-29146236999
            K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                      +  +++  l +e+ kLk+++e L+++qRh+lGedL+ L++ +L +LeqqL+++ +++R++Kn+l+le+ie+l++ke+el  +n+aLrkk++
  Pp3c4_540V3.2.p 146 KRGTNTDLLGREVIKLKQQVERLESSQRHMLGEDLSALKVSDLLELEQQLDQGASRVRARKNQLILEEIEDLRRKEHELMIANEALRKKIA 236
                      55677778889******************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.25468128IPR002100Transcription factor, MADS-box
SMARTSM004321.0E-4068127IPR002100Transcription factor, MADS-box
CDDcd002652.00E-4369143No hitNo description
SuperFamilySSF554553.14E-3269142IPR002100Transcription factor, MADS-box
PRINTSPR004044.8E-297090IPR002100Transcription factor, MADS-box
PfamPF003199.2E-2577124IPR002100Transcription factor, MADS-box
PRINTSPR004044.8E-2990105IPR002100Transcription factor, MADS-box
PRINTSPR004044.8E-29105126IPR002100Transcription factor, MADS-box
PROSITE profilePS5129715.561151241IPR002487Transcription factor, K-box
PfamPF014863.4E-26153235IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048481Biological Processplant ovule development
GO:0090376Biological Processseed trichome differentiation
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: 349 aa     Download sequence    Send to blast
MMTTASGQPS DQWQFGVVAP STATATQELS VGEILDEDCE VPTCLSLGMS SGKGDSSTES  60
TRRKGGVMGR GKIEIKKIEN TTSRQVTFSK RRGGLLKKAH ELAVLCDAEV ALVIFSSTGK  120
HFEFASSGSM RDIIERYRKS SDGAVKRGTN TDLLGREVIK LKQQVERLES SQRHMLGEDL  180
SALKVSDLLE LEQQLDQGAS RVRARKNQLI LEEIEDLRRK EHELMIANEA LRKKIADAEG  240
AAEAAARANF PDARLESPKP FASDFSRDMS VSSQLAASVY PHPNLLQAQR SQTSLQLGWL  300
SEQQIPSTEE GCAGESSLKW DHPHFHIQNR LHANISPSVR IYKLHVDR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A1e-1868164193MEF2 CHIMERA
6byy_B1e-1868164193MEF2 CHIMERA
6byy_C1e-1868164193MEF2 CHIMERA
6byy_D1e-1868164193MEF2 CHIMERA
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Ppa.1360.0gametophore| protonema| sporophyte
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expression specific for female reproductive structures: strong at the adaxial base of the cupules, where ovules will later develop, then in the outermost cell layer of the nucellus, in the inner envelope, and in the inner half of the middle envelope at late stage of ovule development. {ECO:0000269|PubMed:11862488}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0676880.0AB067688.1 Physcomitrella patens PpMADS1 mRNA for MADS-box protein PpMADS1, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024374643.10.0MADS-box protein GGM13-like
SwissprotQ9XGJ44e-58GGM13_GNEGN; MADS-box protein GGM13
TrEMBLA0A2K1KLN90.0A0A2K1KLN9_PHYPA; Uncharacterized protein
STRINGPP1S267_56V6.10.0(Physcomitrella patens)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58780.15e-50MIKC_MADS family protein
Publications ? help Back to Top
  1. Winter KU, et al.
    MADS-box genes reveal that gnetophytes are more closely related to conifers than to flowering plants.
    Proc. Natl. Acad. Sci. U.S.A., 1999. 96(13): p. 7342-7
    [PMID:10377416]