PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Carubv10028580m
Common NameCARUB_v10028580mg
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 M-type_MADS
Protein Properties Length: 291aa    MW: 33418.5 Da    PI: 9.3829
Description M-type_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10028580mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF69.92.2e-221662349
                     --SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEE CS
           SRF-TF  3 ienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyey 49
                      +n+sn qvtfskRr g++KKA+EL++LC+ae+a+i+fs+  k++ +
  Carubv10028580m 16 MKNESNLQVTFSKRRSGLFKKASELCTLCGAEIAIIVFSPGRKVFSF 62
                     589*************************************9999877 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM004326.9E-32665IPR002100Transcription factor, MADS-box
PROSITE profilePS5006624.376666IPR002100Transcription factor, MADS-box
SuperFamilySSF554556.02E-28787IPR002100Transcription factor, MADS-box
CDDcd002658.96E-35778No hitNo description
PRINTSPR004041.1E-18828IPR002100Transcription factor, MADS-box
PfamPF003193.3E-241662IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-182843IPR002100Transcription factor, MADS-box
PRINTSPR004041.1E-184364IPR002100Transcription factor, MADS-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009960Biological Processendosperm development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 291 aa     Download sequence    Send to blast
MVKKSKGRQK IEMVKMKNES NLQVTFSKRR SGLFKKASEL CTLCGAEIAI IVFSPGRKVF  60
SFGHPNVESV IDRFLNNNPQ PPHQHNNMQL SEVHRNSVVQ DLNIHLTQLL SQLEAEKKKT  120
EELKKIRETT KALGHWWEDP IEELAFNQLR GFKGNLENLK KIVTHEASKF FQANVPNYYV  180
GSSSNAAFGM DDGSRINPDM DMFSQRRMVD INAFNYSQNS MHPSHALPFG YNTHGESFVS  240
EYNMNYRPEY NNLNQNQSFK RENISEYEYH HGQGPQGHPH PHPPHSRSGY *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1egw_A9e-14784176MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B9e-14784176MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C9e-14784176MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D9e-14784176MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor. Required for suppression of cellularization and promotion of nuclear proliferation during early endosperm development. The FERTILIZATION-INDEPENDENT SEED (FIS) polycomb complex is required for suppression of ALG62 expression at the end of the syncytial phase of endosperm development. {ECO:0000269|PubMed:18334668}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10028580m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006282294.10.0agamous-like MADS-box protein AGL62
SwissprotQ9FKK21e-164AGL62_ARATH; Agamous-like MADS-box protein AGL62
TrEMBLR0F0R70.0R0F0R7_9BRAS; Uncharacterized protein
STRINGXP_006282294.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM8628390
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G60440.11e-138AGAMOUS-like 62
Publications ? help Back to Top
  1. Xu W, et al.
    Endosperm and Nucellus Develop Antagonistically in Arabidopsis Seeds.
    Plant Cell, 2016. 28(6): p. 1343-60
    [PMID:27233529]
  2. Figueiredo DD,Batista RA,Roszak PJ,Köhler C
    Auxin production couples endosperm development to fertilization.
    Nat Plants, 2015. 1: p. 15184
    [PMID:27251719]
  3. Figueiredo DD,Batista RA,Roszak PJ,Hennig L,Köhler C
    Auxin production in the endosperm drives seed coat development in Arabidopsis.
    Elife, 2017.
    [PMID:27848912]
  4. Fiume E,Coen O,Xu W,Lepiniec L,Magnani E
    Growth of the Arabidopsis sub-epidermal integument cell layers might require an endosperm signal.
    Plant Signal Behav, 2017. 12(8): p. e1339000
    [PMID:28613109]
  5. Zhang S, et al.
    FERTILIZATION-INDEPENDENT SEED-Polycomb Repressive Complex 2 Plays a Dual Role in Regulating Type I MADS-Box Genes in Early Endosperm Development.
    Plant Physiol., 2018. 177(1): p. 285-299
    [PMID:29523711]