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 Carubv10019520m
Common NameCARUB_v10019520mg
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: 244aa    MW: 27839.4 Da    PI: 9.3976
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10019520mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF97.74.9e-312574150
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                     krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva++ifs++g+lyey+
  Carubv10019520m 25 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALVIFSTRGRLYEYA 74
                     79***********************************************8 PP
2K-box114.41.1e-37891827100
            K-box   7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                       s++ea+++++qqe++kL+++i+ +q+ +Rh++Ge+L+sL++keL++Le +Lek+++++RskKne+l+++ie++qk+e +lq++n++Lr+k++e
  Carubv10019520m  89 PSVTEANTQYYQQEASKLRRQIRDIQNLNRHIVGESLGSLNFKELKNLEGRLEKGISRVRSKKNEMLVAEIEYMQKREMDLQHDNMYLRAKIAE 182
                      45899**************************************************************************************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006633.1651777IPR002100Transcription factor, MADS-box
SMARTSM004321.2E-391776IPR002100Transcription factor, MADS-box
CDDcd002656.83E-391884No hitNo description
SuperFamilySSF554554.71E-301894IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-321939IPR002100Transcription factor, MADS-box
PROSITE patternPS0035001973IPR002100Transcription factor, MADS-box
PfamPF003193.2E-262673IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-323954IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-325475IPR002100Transcription factor, MADS-box
PfamPF014868.8E-2794180IPR002487Transcription factor, K-box
PROSITE profilePS5129714.96196186IPR002487Transcription 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: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: 244 aa     Download sequence    Send to blast
MEEGGSSHEA DSSKKIVGRG KIEIKRIENT TNRQVTFCKR RNGLLKKAYE LSVLCDAEVA  60
LVIFSTRGRL YEYANNRYKK ACSDAVNPPS VTEANTQYYQ QEASKLRRQI RDIQNLNRHI  120
VGESLGSLNF KELKNLEGRL EKGISRVRSK KNEMLVAEIE YMQKREMDLQ HDNMYLRAKI  180
AEGARLNPGQ QESSVIQGTT VYESGVSTHH DQSHHYNRNY IPVNLLEPNQ QFSAQDQPPL  240
QLV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P2e-191776160Myocyte-specific enhancer factor 2B
1tqe_Q2e-191776160Myocyte-specific enhancer factor 2B
1tqe_R2e-191776160Myocyte-specific enhancer factor 2B
1tqe_S2e-191776160Myocyte-specific enhancer factor 2B
6c9l_A2e-191776160Myocyte-specific enhancer factor 2B
6c9l_B2e-191776160Myocyte-specific enhancer factor 2B
6c9l_C2e-191776160Myocyte-specific enhancer factor 2B
6c9l_D2e-191776160Myocyte-specific enhancer factor 2B
6c9l_E2e-191776160Myocyte-specific enhancer factor 2B
6c9l_F2e-191776160Myocyte-specific enhancer factor 2B
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Interacts genetically with TT16/AGL32 in a partially antagonistic manner during flower development. Is essential for the coordination of cell divisions in ovule, seed coat development and endosperm formation (PubMed:27776173). {ECO:0000269|PubMed:27776173}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00093SELEXTransfer from AT3G58780Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10019520m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU5517700.0EU551770.1 Capsella bursa-pastoris SHATTERPROOF1a-like protein (SHP1a) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023637931.11e-179agamous-like MADS-box protein AGL1
SwissprotP293811e-166AGL1_ARATH; Agamous-like MADS-box protein AGL1
TrEMBLR0HQ751e-180R0HQ75_9BRAS; Uncharacterized protein
STRINGXP_006293200.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM33412350
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G58780.21e-171MIKC_MADS family protein
Publications ? help Back to Top
  1. Matalon O, et al.
    Dephosphorylation of the adaptor LAT and phospholipase C-γ by SHP-1 inhibits natural killer cell cytotoxicity.
    Sci Signal, 2016. 9(429): p. ra54
    [PMID:27221712]
  2. Ehlers K, et al.
    The MADS Box Genes ABS, SHP1, and SHP2 Are Essential for the Coordination of Cell Divisions in Ovule and Seed Coat Development and for Endosperm Formation in Arabidopsis thaliana.
    PLoS ONE, 2016. 11(10): p. e0165075
    [PMID:27776173]