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 Cc10_g16470
Common NameGSCOC_T00013409001
Organism
Coffea canephora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Rubiaceae; Ixoroideae; Coffeeae; Coffea
Family MIKC_MADS
Protein Properties Length: 171aa    MW: 19415.9 Da    PI: 10.0171
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cc10_g16470genomeCGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF81.65e-26958150
                 S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
       SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                 k+ien   rqvtf+kRr+g+lKKA+ELSvLCdae+ v+ifs +gklye +
  Cc10_g16470  9 KKIENPVHRQVTFCKRRAGLLKKAKELSVLCDAEIGVVIFSAHGKLYELA 58
                 68*********************************************965 PP
2K-box54.45.3e-19851581184
        K-box  11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkke 84 
                  e++    + e+++Lk+eie Lq+++R + G + ++++l eL  Le++Le+ + +iRs K+++++++i+ l++k 
  Cc10_g16470  85 EKEPLDPKDEISNLKQEIEVLQKSLRYMSGGGAGTMTLDELDVLEKHLETWIYHIRSAKMDIMFQEIQLLKNKV 158
                  555566789**************************************************************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004327.6E-36160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006629.801161IPR002100Transcription factor, MADS-box
SuperFamilySSF554557.46E-28173IPR002100Transcription factor, MADS-box
CDDcd002657.83E-39278No hitNo description
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PRINTSPR004044.9E-27323IPR002100Transcription factor, MADS-box
PfamPF003196.5E-241056IPR002100Transcription factor, MADS-box
PRINTSPR004044.9E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004044.9E-273859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129710.86888170IPR002487Transcription factor, K-box
PfamPF014863.8E-1891158IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0048364Biological Processroot development
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: 171 aa     Download sequence    Send to blast
MARGKIQMKK IENPVHRQVT FCKRRAGLLK KAKELSVLCD AEIGVVIFSA HGKLYELATK  60
GTMQGLIDKY GKTCRGRAPA EQAKEKEPLD PKDEISNLKQ EIEVLQKSLR YMSGGGAGTM  120
TLDELDVLEK HLETWIYHIR SAKMDIMFQE IQLLKNKVPR IYLSFQILIR *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-15159159MEF2C
5f28_B2e-15159159MEF2C
5f28_C2e-15159159MEF2C
5f28_D2e-15159159MEF2C
6byy_A2e-15170169MEF2 CHIMERA
6byy_B2e-15170169MEF2 CHIMERA
6byy_C2e-15170169MEF2 CHIMERA
6byy_D2e-15170169MEF2 CHIMERA
6bz1_A2e-15170169MEF2 CHIMERA
6bz1_B2e-15170169MEF2 CHIMERA
6bz1_C2e-15170169MEF2 CHIMERA
6bz1_D2e-15170169MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator that regulates root development by controlling cell proliferation in root meristem. May mediate responses to auxin in the root. May act as promoter of the flowering transition through up-regulation of SOC, FT and LFY. {ECO:0000269|PubMed:18203871}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin in root phloem. {ECO:0000269|PubMed:18203871}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0991423e-63BT099142.1 Soybean clone JCVI-FLGm-16J2 unknown mRNA.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_027093414.11e-113agamous-like MADS-box protein AGL12
SwissprotQ388412e-66AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBLA0A068VE631e-122A0A068VE63_COFCA; Uncharacterized protein
STRINGSolyc11g032100.1.14e-88(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA98102024
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71692.18e-69AGAMOUS-like 12
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. Pacheco-Escobedo MA, et al.
    Longitudinal zonation pattern in Arabidopsis root tip defined by a multiple structural change algorithm.
    Ann. Bot., 2018.
    [PMID:27358290]
  3. García-Cruz KV, et al.
    The MADS-box XAANTAL1 increases proliferation at the Arabidopsis root stem-cell niche and participates in transition to differentiation by regulating cell-cycle components.
    Ann. Bot., 2018.
    [PMID:27474508]