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 Carubv10001906m
Common NameCARUB_v10001906mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family MIKC_MADS
Protein Properties Length: 224aa    MW: 25756.4 Da    PI: 9.8546
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10001906mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF96.89.3e-31959151
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     krien + rqvtfskRrng+lKKA+ELSvLCdaeva+iifs++gklye+ss
  Carubv10001906m  9 KRIENATSRQVTFSKRRNGLLKKAFELSVLCDAEVALIIFSPRGKLYEFSS 59
                     79***********************************************96 PP
2K-box74.23.7e-2580172799
            K-box   7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                      +++ + ++++++ e   L ++ie L+ + R+++Ge+L+  s++eLqqLe+qL++sl kiR++K++ll+e+ie+l++ke++l  enk+L +k+e
  Carubv10001906m  80 NQKRNDNSQQSKDETYGLARKIEHLEISTRKMMGEGLDASSIEELQQLENQLDRSLLKIRARKYQLLREEIEKLKEKERSLIAENKMLMEKYE 172
                      4467788999*******************************************************************************9987 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004321.2E-41160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006632.071161IPR002100Transcription factor, MADS-box
SuperFamilySSF554555.1E-32374IPR002100Transcription factor, MADS-box
CDDcd002657.13E-41372No hitNo description
PRINTSPR004044.8E-31323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003195.4E-271057IPR002100Transcription factor, MADS-box
PRINTSPR004044.8E-312338IPR002100Transcription factor, MADS-box
PRINTSPR004044.8E-313859IPR002100Transcription factor, MADS-box
PfamPF014861.5E-2483171IPR002487Transcription factor, K-box
PROSITE profilePS5129715.75987177IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010076Biological Processmaintenance of floral meristem identity
GO:0010082Biological Processregulation of root meristem growth
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:2000012Biological Processregulation of auxin polar transport
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 224 aa     Download sequence    Send to blast
MVRGKTEMKR IENATSRQVT FSKRRNGLLK KAFELSVLCD AEVALIIFSP RGKLYEFSSS  60
SSIPKTVERY QKRIQDLGSN QKRNDNSQQS KDETYGLARK IEHLEISTRK MMGEGLDASS  120
IEELQQLENQ LDRSLLKIRA RKYQLLREEI EKLKEKERSL IAENKMLMEK YEKQGRGITA  180
RTPSSSTSSE LDIDNNDEME VVTDLFIGPP PETRHFKKFP PPN*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A1e-16160160MEF2C
5f28_B1e-16160160MEF2C
5f28_C1e-16160160MEF2C
5f28_D1e-16160160MEF2C
6byy_A2e-16160160MEF2 CHIMERA
6byy_B2e-16160160MEF2 CHIMERA
6byy_C2e-16160160MEF2 CHIMERA
6byy_D2e-16160160MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that regulates root development by controlling meristem size and patterning of the root apical meristem. Regulates auxin transport and gradients in the root meristematic cells via direct regulation of the auxin efflux carrier PIN1 and PIN4 gene expression. Binds specifically to the CArG-box DNA sequences in the promoter regions of PIN1 and PIN4 genes (PubMed:24121311). Involved in the regulation of shoot apical meristem (SAM) cell identities and transitions. Promotes flowering transition and participates in flower meristem maintenance and determinacy. Positively regulates TFL1 and WUS expression. Binds directly to the TFL1 regulatory sequences (PubMed:25636918). {ECO:0000269|PubMed:24121311}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10001906m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin. {ECO:0000269|PubMed:24121311}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2304640.0AK230464.1 Arabidopsis thaliana mRNA for MADS-box protein AGL14, complete cds, clone: RAFL26-03-G06.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006288611.11e-162agamous-like MADS-box protein AGL14
RefseqXP_023637132.11e-162agamous-like MADS-box protein AGL14
SwissprotQ388381e-131AGL14_ARATH; Agamous-like MADS-box protein AGL14
TrEMBLR0GXA61e-161R0GXA6_9BRAS; Uncharacterized protein
STRINGXP_006288611.11e-162(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM7828413
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G11880.11e-127AGAMOUS-like 14
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. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  3. Qu Y, et al.
    Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]