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 29907.m000663
Common NameLOC8263251, RCOM_1030190
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family MIKC_MADS
Protein Properties Length: 205aa    MW: 23401.3 Da    PI: 8.2091
Description MIKC_MADS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
29907.m000663genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1SRF-TF76.61.8e-24956148
                   S---SHHHHHHHHHHHHHHHHHHHHHHHHHHT-EEEEEEE-TTSEEEE CS
         SRF-TF  1 krienksnrqvtfskRrngilKKAeELSvLCdaevaviifsstgklye 48
                   krien   rqvtf+kRr g+lKKA+ELSvLCdae+ + ifs +gkly+
  29907.m000663  9 KRIENPVHRQVTFCKRRSGLLKKAKELSVLCDAEIGLFIFSAHGKLYD 56
                   79********************************************97 PP
2K-box61.63e-218917811100
          K-box  11 eakaeslqqelakLkkeienLqreqRhllGedLesLslkeLqqLeqqLekslkkiRskKnellleqieelqkkekelqeenkaLrkklee 100
                     ++    ++e++ Lk+eie Lq+ +RhllG +  +++l eL  Le++Le  + +iRs+K+e++ ++i+ l++ke  l+ +n++L+ k+ee
  29907.m000663  89 MQQPLDAKEEISMLKQEIEILQKGLRHLLGGGAAEMTLDELLILEKNLEIWIYHIRSTKMEIMAKEIQLLRNKEGILKAANQYLQDKIEE 178
                    444556799******************************************************************************997 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5006629.674161IPR002100Transcription factor, MADS-box
SMARTSM004328.2E-35160IPR002100Transcription factor, MADS-box
SuperFamilySSF554552.49E-27176IPR002100Transcription factor, MADS-box
CDDcd002656.83E-39276No hitNo description
PRINTSPR004046.1E-27323IPR002100Transcription factor, MADS-box
PfamPF003195.6E-221055IPR002100Transcription factor, MADS-box
PRINTSPR004046.1E-272338IPR002100Transcription factor, MADS-box
PRINTSPR004046.1E-273859IPR002100Transcription factor, MADS-box
PROSITE profilePS5129712.56492182IPR002487Transcription factor, K-box
PfamPF014861.6E-2194176IPR002487Transcription factor, K-box
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0048364Biological Processroot development
GO:0055114Biological Processoxidation-reduction process
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0032440Molecular Function2-alkenal reductase [NAD(P)] activity
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 205 aa     Download sequence    Send to blast
MARGKVQMKR IENPVHRQVT FCKRRSGLLK KAKELSVLCD AEIGLFIFSA HGKLYDLATK  60
GTMSGLIERY MNATGGNSLQ AEDKAKETMQ QPLDAKEEIS MLKQEIEILQ KGLRHLLGGG  120
AAEMTLDELL ILEKNLEIWI YHIRSTKMEI MAKEIQLLRN KEGILKAANQ YLQDKIEENV  180
DITNFAPMTT NFPYPLTIQN EIFQF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6byy_A8e-15159159MEF2 CHIMERA
6byy_B8e-15159159MEF2 CHIMERA
6byy_C8e-15159159MEF2 CHIMERA
6byy_D8e-15159159MEF2 CHIMERA
6bz1_A8e-15159159MEF2 CHIMERA
6bz1_B8e-15159159MEF2 CHIMERA
6bz1_C8e-15159159MEF2 CHIMERA
6bz1_D8e-15159159MEF2 CHIMERA
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription activator that regulates root development by controlling cell proliferation in root meristem. May mediate responses to auxin in the root. May act as promoter of the flowering transition through up-regulation of SOC, FT and LFY. {ECO:0000269|PubMed:18203871}.
Cis-element ? help Back to Top
SourceLink
PlantRegMap29907.m000663
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By auxin in root phloem. {ECO:0000269|PubMed:18203871}.
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_002526423.11e-151agamous-like MADS-box protein AGL12
SwissprotQ388418e-85AGL12_ARATH; Agamous-like MADS-box protein AGL12
TrEMBLB9SKA41e-149B9SKA4_RICCO; Mads box protein, putative
STRINGXP_002526423.11e-150(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF75663144
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G71692.14e-87AGAMOUS-like 12
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. Pacheco-Escobedo MA, et al.
    Longitudinal zonation pattern in Arabidopsis root tip defined by a multiple structural change algorithm.
    Ann. Bot., 2018.
    [PMID:27358290]
  3. García-Cruz KV, et al.
    The MADS-box XAANTAL1 increases proliferation at the Arabidopsis root stem-cell niche and participates in transition to differentiation by regulating cell-cycle components.
    Ann. Bot., 2018.
    [PMID:27474508]