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 Carubv10023996m
Common NameCARUB_v10023996mg
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: 229aa    MW: 26295.9 Da    PI: 10.1171
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10023996mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF79.22.8e-251059251
                     ---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE- CS
           SRF-TF  2 rienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeyss 51
                     +i++++ rqvtfskRr+g++KKA+EL +LCdaev +iifs+t+kly+++s
  Carubv10023996m 10 KIDDSTSRQVTFSKRRKGLIKKAKELAILCDAEVGLIIFSNTDKLYDFAS 59
                     79**********************************************86 PP
2K-box74.82.4e-2581171999
            K-box   9 leeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                      + +++ + +q+e++ L+ke+++Lq+++R+l G++L+ L +k+Lq+Le+qLe sl+ iR kK+++l+++i+el +k + +++en +L++k++
  Carubv10023996m  81 NPASEVKFWQREAETLRKELHSLQENHRQLTGQQLNGLGVKQLQNLESQLEMSLRGIRMKKEQILTNEIKELTRKRNLVHHENLELSRKVQ 171
                      567889***********************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004325.4E-37160IPR002100Transcription factor, MADS-box
PROSITE profilePS5006630.025161IPR002100Transcription factor, MADS-box
CDDcd002652.86E-38278No hitNo description
SuperFamilySSF554552.88E-30291IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-25323IPR002100Transcription factor, MADS-box
PROSITE patternPS003500357IPR002100Transcription factor, MADS-box
PfamPF003195.1E-241057IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-252338IPR002100Transcription factor, MADS-box
PRINTSPR004041.8E-253859IPR002100Transcription factor, MADS-box
PfamPF014865.2E-2484170IPR002487Transcription factor, K-box
PROSITE profilePS5129714.76786176IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048578Biological Processpositive regulation of long-day photoperiodism, flowering
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: 229 aa     Download sequence    Send to blast
MGRGKIVIQK IDDSTSRQVT FSKRRKGLIK KAKELAILCD AEVGLIIFSN TDKLYDFASS  60
SVKSTIERFN KTKMEQQQLL NPASEVKFWQ REAETLRKEL HSLQENHRQL TGQQLNGLGV  120
KQLQNLESQL EMSLRGIRMK KEQILTNEIK ELTRKRNLVH HENLELSRKV QRIHQENIEL  180
YKKAYATSNA NGLGNNELVD AVDESHAEVR LQLSQPEQSH YETSSKSK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5f28_A2e-18169169MEF2C
5f28_B2e-18169169MEF2C
5f28_C2e-18169169MEF2C
5f28_D2e-18169169MEF2C
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10023996m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB4935580.0AB493558.1 Arabidopsis thaliana At2g22630 mRNA for hypothetical protein, partial cds, clone: RAAt2g22630.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006294943.11e-166agamous-like MADS-box protein AGL17
SwissprotQ388401e-150AGL17_ARATH; Agamous-like MADS-box protein AGL17
TrEMBLR0FYJ81e-165R0FYJ8_9BRAS; Uncharacterized protein
STRINGXP_006294943.11e-165(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM53024105
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G22630.11e-152AGAMOUS-like 17
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]