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 RrC3080_p2
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MIKC_MADS
Protein Properties Length: 249aa    MW: 28506.2 Da    PI: 9.0365
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC3080_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF94.26.1e-302473150
                S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEEEE CS
      SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklyeys 50
                krien++ rqvtf+kRrng+lKKA+ELSvLCdaeva+++fs++g+lyey+
  RrC3080_p2 24 KRIENTTSRQVTFCKRRNGLLKKAYELSVLCDAEVALVVFSTRGRLYEYA 73
                79***********************************************8 PP
2K-box111.96.4e-3796187899
       K-box   8 sleeakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkkle 99 
                  ++ea+++++qqe++kL+++i+ +q+++Rh++Ge+L+sL++keL++Le +Lek+++++RskKnell++++e++ k+e elq++n++Lr+k++
  RrC3080_p2  96 TVTEANTQYYQQEASKLRRQIRDIQNSNRHIVGESLGSLNFKELKNLEGRLEKGISRVRSKKNELLVAEMEYMHKREMELQHDNMYLRAKIA 187
                 4899**************************************************************************************97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006632.0711676IPR002100Transcription factor, MADS-box
SMARTSM004324.0E-381675IPR002100Transcription factor, MADS-box
PROSITE patternPS0035001872IPR002100Transcription factor, MADS-box
SuperFamilySSF554551.28E-311889IPR002100Transcription factor, MADS-box
CDDcd002653.97E-431890No hitNo description
PRINTSPR004045.4E-321838IPR002100Transcription factor, MADS-box
PfamPF003193.9E-262572IPR002100Transcription factor, MADS-box
PRINTSPR004045.4E-323853IPR002100Transcription factor, MADS-box
PRINTSPR004045.4E-325374IPR002100Transcription factor, MADS-box
PfamPF014863.2E-27100186IPR002487Transcription factor, K-box
PROSITE profilePS5129715.15102192IPR002487Transcription 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
MEEGGSSHDP ESNKKLVRGK IEIKRIENTT SRQVTFCKRR NGLLKKAYEL SVLCDAEVAL  60
VVFSTRGRLY EYANNSVKGT IERYKKACSD AVNPPTVTEA NTQYYQQEAS KLRRQIRDIQ  120
NSNRHIVGES LGSLNFKELK NLEGRLEKGI SRVRSKKNEL LVAEMEYMHK REMELQHDNM  180
YLRAKIAHCG RLDPEQQESS VIQGTAVYES GLSSSHDQLQ NYNRSYIPVN LLEPNQQFSG  240
QDQPPLQLV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1egw_A6e-181884268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_B6e-181884268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_C6e-181884268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
1egw_D6e-181884268MADS BOX TRANSCRIPTION ENHANCER FACTOR 2, POLYPEPTIDE A
3kov_A7e-181884268Myocyte-specific enhancer factor 2A
3kov_B7e-181884268Myocyte-specific enhancer factor 2A
3kov_I7e-181884268Myocyte-specific enhancer factor 2A
3kov_J7e-181884268Myocyte-specific enhancer factor 2A
3p57_A7e-181884268Myocyte-specific enhancer factor 2A
3p57_B7e-181884268Myocyte-specific enhancer factor 2A
3p57_C7e-181884268Myocyte-specific enhancer factor 2A
3p57_D7e-181884268Myocyte-specific enhancer factor 2A
3p57_I7e-181884268Myocyte-specific enhancer factor 2A
3p57_J7e-181884268Myocyte-specific enhancer factor 2A
6c9l_A7e-181884369Myocyte-specific enhancer factor 2B
6c9l_B7e-181884369Myocyte-specific enhancer factor 2B
6c9l_C7e-181884369Myocyte-specific enhancer factor 2B
6c9l_D7e-181884369Myocyte-specific enhancer factor 2B
6c9l_E7e-181884369Myocyte-specific enhancer factor 2B
6c9l_F7e-181884369Myocyte-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
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJQ9730840.0JQ973084.1 Brassica napus Shatterproof (SHP1a) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009138935.11e-177PREDICTED: agamous-like MADS-box protein AGL1
RefseqXP_013746379.11e-177agamous-like MADS-box protein AGL1
RefseqXP_022573603.11e-177agamous-like MADS-box protein AGL1
SwissprotP293811e-168AGL1_ARATH; Agamous-like MADS-box protein AGL1
TrEMBLA0A397ZQU61e-175A0A397ZQU6_BRACM; Uncharacterized protein
TrEMBLM4DDI41e-175M4DDI4_BRARP; Uncharacterized protein
STRINGBra014552.1-P1e-176(Brassica rapa)
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
AT3G58780.11e-170MIKC_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]