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 RrC713_p4
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 MYB
Protein Properties Length: 853aa    MW: 96078.8 Da    PI: 6.4951
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC713_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding43.38.3e-14853248
                     SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     g W   Ede+l+ av ++G+++W++I++ +  ++++kqck rw+ +l
        RrC713_p4  8 GVWKNTEDEILKAAVMKYGKNQWARISSLLV-RKSAKQCKARWYEWL 53
                     78*****************************.************986 PP
2Myb_DNA-binding34.45.1e-1160103248
                      SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                        WT eEde+l+++ k+l++  W+tIa  +g  Rt+ qc +r+ k+l
        RrC713_p4  60 TEWTREEDEKLLHLAKLLPTQ-WRTIAPIVG--RTPSQCLERYEKLL 103
                      68*****************99.********8..**********9986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129422.008257IPR017930Myb domain
Gene3DG3DSA:1.10.10.604.7E-18556IPR009057Homeodomain-like
SMARTSM007177.0E-15655IPR001005SANT/Myb domain
CDDcd001678.06E-121053No hitNo description
PfamPF139214.3E-131070No hitNo description
SuperFamilySSF466898.63E-2133109IPR009057Homeodomain-like
CDDcd116592.33E-3055106No hitNo description
Gene3DG3DSA:1.10.10.605.7E-1457104IPR009057Homeodomain-like
PROSITE profilePS5129416.67558107IPR017930Myb domain
SMARTSM007172.3E-1258105IPR001005SANT/Myb domain
PfamPF118311.5E-52407663IPR021786Pre-mRNA splicing factor component Cdc5p/Cef1
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009870Biological Processdefense response signaling pathway, resistance gene-dependent
GO:0010204Biological Processdefense response signaling pathway, resistance gene-independent
GO:0042742Biological Processdefense response to bacterium
GO:0050832Biological Processdefense response to fungus
GO:0009507Cellular Componentchloroplast
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 853 aa     Download sequence    Send to blast
MRIMIKGGVW KNTEDEILKA AVMKYGKNQW ARISSLLVRK SAKQCKARWY EWLDPSIKKT  60
EWTREEDEKL LHLAKLLPTQ WRTIAPIVGR TPSQCLERYE KLLDAACTKD ENYEAADDPR  120
KLRPGEIDPN PESKPARPDP VDMDEDEKEM LSEARARLAN TRGKKAKRKA REKQLEEARR  180
LASLQKRREL KAAGIGNSHR KRKRKGIDYN AEIPFEKRAP AGFYDTADED RPADQVKFPT  240
TIEDLEGKRR ADVEAQLRRQ DVARNKIAER RDAPAAILQA NKLNDPEAVR KRSKLMLPPP  300
QISDHELEEI AKMGYASDLL AENEEMTEGS AATRALLANY SQTPRQGTTP MRTPQRTPAG  360
KGDAIMMEAE NLARLRDSQT PLLGGDNPEL HPSDFTGVTP RKKEIQTPNP MLTPSMTPGG  420
AGLTPRIGGA SLTPRIGGTP SREGSSFAMT PSGTPFRDEL HINEDMDMHE SAKLERQRRE  480
EARMSLRSGL TGLPQPKNEY HIVAQPPPEE SEEPEEKIEE DMSDKIAREK AEEEARYQAL  540
LRKRSKVLQR DLPRPPAASL ELIRNSLLSA SRDKSSVVPP SPVDVADEMV REELLQLLEH  600
DNAKYPLDEK AEKKKGAKNR ASSSGSQVPA IEDFEENELL EADKMIKEEA QFLCAAMGNE  660
SKTFDEFVVA HDDCVKDIMY FPTRNAYGPS SVAVKAEKVA ALQVEMENAK KKMEEDEKKA  720
EHMKAKYKTY TKGHEKRAET VWSQIEASLK QIEIGGTEVE CFKALKRQEE MAASFRKKNL  780
EEEVIKQKET ERKLQARYGE LLSTLEKAEE LMVGFRAQAL KQADVVGDSQ KPKEAKLATG  840
EEDDGAISMD ASA
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5mqf_L0.028023792Cell division cycle 5-like protein
5xjc_L0.028023792Cell division cycle 5-like protein
5yzg_L0.028023792Cell division cycle 5-like protein
5z56_L0.028023792Cell division cycle 5-like protein
5z57_L0.028023792Cell division cycle 5-like protein
5z58_L0.028023792Cell division cycle 5-like protein
6ff4_L0.028023792Cell division cycle 5-like protein
6ff7_L0.028023792Cell division cycle 5-like protein
6icz_L0.028023792Cell division cycle 5-like protein
6id0_L0.028023792Cell division cycle 5-like protein
6id1_L0.028023792Cell division cycle 5-like protein
6qdv_O0.028023792Cell division cycle 5-like protein
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1185204KRRELKAAGIGNSHRKRKRK
2199204RKRKRK
Functional Description ? help Back to Top
Source Description
UniProtComponent of the MAC complex that probably regulates defense responses through transcriptional control and thereby is essential for plant innate immunity. Possesses a sequence specific DNA sequence 'CTCAGCG' binding activity. Involved in mRNA splicing and cell cycle control. May also play a role in the response to DNA damage. {ECO:0000250|UniProtKB:Q99459, ECO:0000269|PubMed:17298883, ECO:0000269|PubMed:17575050, ECO:0000269|PubMed:8917598}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00028SELEXTransfer from AT1G09770Download
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
GenBankAC1893310.0AC189331.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB037O12, complete sequence.
GenBankAC1895190.0AC189519.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrB091G04, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018434413.10.0PREDICTED: cell division cycle 5-like protein
RefseqXP_018434617.10.0PREDICTED: cell division cycle 5-like protein
SwissprotP929480.0CDC5L_ARATH; Cell division cycle 5-like protein
TrEMBLM4DU000.0M4DU00_BRARP; Uncharacterized protein
STRINGBra019993.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM64532742
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G09770.10.0cell division cycle 5
Publications ? help Back to Top
  1. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  2. Li S, et al.
    MAC3A and MAC3B, Two Core Subunits of the MOS4-Associated Complex, Positively Influence miRNA Biogenesis.
    Plant Cell, 2018. 30(2): p. 481-494
    [PMID:29437988]