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 Carubv10025002m
Common NameCARUB_v10025002mg
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: 249aa    MW: 28463.1 Da    PI: 9.5433
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10025002mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF97.65.1e-312473150
                     S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
           SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                     krien++nrqvtf+kRrng+lKKA+ELSvLCdaeva++ifs++g+lyey+
  Carubv10025002m 24 KRIENTTNRQVTFCKRRNGLLKKAYELSVLCDAEVALVIFSTRGRLYEYA 73
                     79***********************************************8 PP
2K-box106.72.8e-35951907100
            K-box   7 ksleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqk..kekelqeenkaLrkkl 98 
                       s++ea+++++qqe++kL+++i+ +q+ +Rh+lGe+L+sL++keL++Le++Lek+++++RskK+e+l+++ie++qk  ke elq++n++Lr+k+
  Carubv10025002m  95 PSVTEANTQYYQQEASKLRRQIRDIQNLNRHILGESLGSLNFKELKNLESRLEKGISRVRSKKHEMLVAEIEYMQKrvKEIELQNDNMYLRSKI 188
                      45899**********************************************************************94457789999******99 PP

            K-box  99 ee 100
                       e
  Carubv10025002m 189 TE 190
                      75 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004329.1E-401675IPR002100Transcription factor, MADS-box
PROSITE profilePS5006633.3891676IPR002100Transcription factor, MADS-box
CDDcd002653.32E-431790No hitNo description
SuperFamilySSF554551.96E-321788IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-321838IPR002100Transcription factor, MADS-box
PROSITE patternPS0035001872IPR002100Transcription factor, MADS-box
PfamPF003193.3E-262572IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-323853IPR002100Transcription factor, MADS-box
PRINTSPR004041.2E-325374IPR002100Transcription factor, MADS-box
PfamPF014861.2E-24100188IPR002487Transcription factor, K-box
PROSITE profilePS5129714.927102194IPR002487Transcription 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: 249 aa     Download sequence    Send to blast
MEDGASNEAA ESSKKIGRGK IEIKRIENTT NRQVTFCKRR NGLLKKAYEL SVLCDAEVAL  60
VIFSTRGRLY EYANNSVRGT IERYKKACSD AVNPPSVTEA NTQYYQQEAS KLRRQIRDIQ  120
NLNRHILGES LGSLNFKELK NLESRLEKGI SRVRSKKHEM LVAEIEYMQK RVKEIELQND  180
NMYLRSKITE RAGLQQQESS VIHQGTVYES GVTSSHQSEQ YNRNYIPVNL LEPNHNSSNQ  240
DQPPLQLV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tqe_P4e-201684169Myocyte-specific enhancer factor 2B
1tqe_Q4e-201684169Myocyte-specific enhancer factor 2B
1tqe_R4e-201684169Myocyte-specific enhancer factor 2B
1tqe_S4e-201684169Myocyte-specific enhancer factor 2B
5f28_A5e-201684169MEF2C
5f28_B5e-201684169MEF2C
5f28_C5e-201684169MEF2C
5f28_D5e-201684169MEF2C
6c9l_A4e-201684169Myocyte-specific enhancer factor 2B
6c9l_B4e-201684169Myocyte-specific enhancer factor 2B
6c9l_C4e-201684169Myocyte-specific enhancer factor 2B
6c9l_D4e-201684169Myocyte-specific enhancer factor 2B
6c9l_E4e-201684169Myocyte-specific enhancer factor 2B
6c9l_F4e-201684169Myocyte-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10025002m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU5517690.0EU551769.1 Capsella bursa-pastoris SCHATTERPROOF2-like protein (SHP2b) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006295872.10.0agamous-like MADS-box protein AGL5 isoform X1
SwissprotP293851e-174AGL5_ARATH; Agamous-like MADS-box protein AGL5
TrEMBLR0HTN50.0R0HTN5_9BRAS; Uncharacterized protein
STRINGCagra.0202s0031.1.p0.0(Capsella grandiflora)
STRINGXP_006295872.10.0(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
AT2G42830.21e-167MIKC_MADS family protein
Publications ? help Back to Top
  1. 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]
  2. Pabón-Mora N,Wong GK,Ambrose BA
    Evolution of fruit development genes in flowering plants.
    Front Plant Sci, 2014. 5: p. 300
    [PMID:25018763]
  3. Rathnakumar K, et al.
    Angiopoietin-2 mediates thrombin-induced monocyte adhesion and endothelial permeability.
    J. Thromb. Haemost., 2016. 14(8): p. 1655-67
    [PMID:27241812]
  4. Balanzà V,Roig-Villanova I,Di Marzo M,Masiero S,Colombo L
    Seed abscission and fruit dehiscence required for seed dispersal rely on similar genetic networks.
    Development, 2016. 143(18): p. 3372-81
    [PMID:27510967]
  5. 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]
  6. Sehra B,Franks RG
    Redundant CArG Box Cis-motif Activity Mediates SHATTERPROOF2 Transcriptional Regulation during Arabidopsis thaliana Gynoecium Development.
    Front Plant Sci, 2017. 8: p. 1712
    [PMID:29085379]
  7. Ó'Maoiléidigh DS,Stewart D,Zheng B,Coupland G,Wellmer F
    Floral homeotic proteins modulate the genetic program for leaf development to suppress trichome formation in flowers.
    Development, 2018.
    [PMID:29361563]