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 evm.model.supercontig_6.199
Organism
Carica papaya
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Caricaceae; Carica
Family MIKC_MADS
Protein Properties Length: 213aa    MW: 24519.8 Da    PI: 9.9429
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm.model.supercontig_6.199genomeASGPBView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF92.22.6e-29959151
                                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
                       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                                 krien +nrqvt+skRrngi+KKA+EL vLCda+v++i++s+tgkl+e++s
  evm.model.supercontig_6.199  9 KRIENPTNRQVTYSKRRNGIFKKAQELTVLCDAKVSLIMISNTGKLHEFIS 59
                                 79***********************************************86 PP
2K-box78.41.8e-2671158188
                        K-box   1 yqkssgksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqk 82 
                                  yq++ g++l++++++++q +l+kL++ +++L+re+R++ GedL++ s++eL+ Leq++ ++l+ iR++K + +++q+++ +k
  evm.model.supercontig_6.199  71 YQSTLGVDLWSTHYQKMQDNLKKLREINNKLRREIRQRSGEDLHDASVEELRGLEQNMASALEVIRERKFHTIKTQTDTYKK 152
                                  78888999************************************************************************** PP

                        K-box  83 kekelq 88 
                                  ke + +
  evm.model.supercontig_6.199 153 KETRYH 158
                                  **9877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004326.4E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.436161IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.83E-36294IPR002100Transcription factor, MADS-box
CDDcd002652.49E-40280No hitNo description
PRINTSPR004048.0E-28323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003194.7E-241057IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-282338IPR002100Transcription factor, MADS-box
PRINTSPR004048.0E-283859IPR002100Transcription factor, MADS-box
PfamPF014861.1E-1882158IPR002487Transcription factor, K-box
PROSITE profilePS5129713.1984169IPR002487Transcription 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: 213 aa     Download sequence    Send to blast
MGRGKIEIKR IENPTNRQVT YSKRRNGIFK KAQELTVLCD AKVSLIMISN TGKLHEFISP  60
TATTKKMIDQ YQSTLGVDLW STHYQKMQDN LKKLREINNK LRREIRQRSG EDLHDASVEE  120
LRGLEQNMAS ALEVIRERKF HTIKTQTDTY KKKETRYHGD PHYGLIENER DYESAIALAN  180
GASNLHAFRL HHNHHPNDLH LGGFGCSDLR LA*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-14159159MEF2C
5f28_B1e-14159159MEF2C
5f28_C1e-14159159MEF2C
5f28_D1e-14159159MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in flower development. {ECO:0000250|UniProtKB:Q0HA25}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapevm.model.supercontig_6.199
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF5624990.0EF562499.1 Carica papaya B-class MADS-box protein TM6-2 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_021908245.11e-154floral homeotic protein DEFICIENS-like
SwissprotQ003J21e-114TM6_VITVI; Agamous-like MADS-box protein TM6
TrEMBLA5JSC61e-153A5JSC6_CARPA; B-class MADS-box protein TM6-2
STRINGevm.model.supercontig_6.1991e-158(Carica papaya)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM52612750
Representative plantOGRP51991121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G54340.12e-67MIKC_MADS family protein
Publications ? help Back to Top
  1. Jaillon O, et al.
    The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla.
    Nature, 2007. 449(7161): p. 463-7
    [PMID:17721507]
  2. Ackerman CM, et al.
    B-class MADS-box genes in trioecious papaya: two paleoAP3 paralogs, CpTM6-1 and CpTM6-2, and a PI ortholog CpPI.
    Planta, 2008. 227(4): p. 741-53
    [PMID:17985156]
  3. Díaz-Riquelme J,Lijavetzky D,Martínez-Zapater JM,Carmona MJ
    Genome-wide analysis of MIKCC-type MADS box genes in grapevine.
    Plant Physiol., 2009. 149(1): p. 354-69
    [PMID:18997115]
  4. Grimplet J,Martínez-Zapater JM,Carmona MJ
    Structural and functional annotation of the MADS-box transcription factor family in grapevine.
    BMC Genomics, 2016. 17: p. 80
    [PMID:26818751]