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 LOC_Os04g28090.1
Common NameLOC4335542, Os04g0348300, OSNPB_040348300
Organism
Oryza sativa subsp. japonica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza; Oryza sativa
Family MYB
Protein Properties Length: 973aa    MW: 109684 Da    PI: 4.8776
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
LOC_Os04g28090.1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding43.19.7e-14853248
                      SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
   Myb_DNA-binding  2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                      g W   Ede+l+ av ++G+++W++I++ +  ++++kqck rw+ +l
  LOC_Os04g28090.1  8 GVWKNTEDEILKAAVMKYGKNQWARISSLLV-RKSAKQCKARWYEWL 53
                      78*****************************.************986 PP
2Myb_DNA-binding32.81.6e-1060103248
                       SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
   Myb_DNA-binding   2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                         WT eEde+l+++ k++++  W+tIa  +g  Rt+ qc +r+ k+l
  LOC_Os04g28090.1  60 TEWTREEDEKLLHLAKLMPTQ-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:1.10.10.605.6E-18556IPR009057Homeodomain-like
SMARTSM007177.0E-15655IPR001005SANT/Myb domain
CDDcd001675.08E-121053No hitNo description
PfamPF139214.5E-131070No hitNo description
SuperFamilySSF466896.47E-2133108IPR009057Homeodomain-like
CDDcd116591.86E-3055106No hitNo description
Gene3DG3DSA:1.10.10.603.4E-1457104IPR009057Homeodomain-like
PROSITE profilePS5129416.44358107IPR017930Myb domain
SMARTSM007171.7E-1258105IPR001005SANT/Myb domain
PfamPF118315.5E-60406657IPR021786Pre-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
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0009009anatomyplant embryo
PO:0001081developmental stagemature plant embryo stage
PO:0007042developmental stagewhole plant fruit formation stage
Sequence ? help Back to Top
Protein Sequence    Length: 973 aa     Download sequence    Send to blast
MRIMIKGGVW KNTEDEILKA AVMKYGKNQW ARISSLLVRK SAKQCKARWY EWLDPSIKKT  60
EWTREEDEKL LHLAKLMPTQ WRTIAPIVGR TPSQCLERYE KLLDAACAKD ENYEPNDDPR  120
KLRPGEIDPN PESKPARPDP VDMDEDEKEM LSEARARLAN TRGKKAKRKA REKQLEEARR  180
LASLQKRREL KAAGIDTRQR KRKRKGIDYN AEIPFEKRPP PGFYDTVGED RPLEHVQFPT  240
TIEELEGKRR VDIEAQLRKQ DIARNKILQR QDAPAAIMQA NRLNDPEAVT KRSKLMLPPP  300
QISDHELEEI AKMGNAGDPS LVEELGEGST ATRALLSSYS QTPRLGMTPL RTPQRTPAGK  360
GDAIMMEAEN LARLRESQTP LLGGDNPELH PSDFSGVTPR KKEMQTPNPM ATPLASPGPG  420
ATPRIGMTPS RDGSSFGLTP KSTPFRDELR INEEVDMQDT AKLELRRQAE LRKSLRSGFA  480
SIPQPKNEYQ IVMPPITEEE KEEAEEKIED MSDRLARERA EEQARQEALL RKRSKVLQRS  540
LPRPPAASIE ILRQTLIKGG ESRSRSTFVP PTSLEQADEL INEELLRLLE HDNAKYPLDE  600
KTQKDKKKGS KRQANGTPSV PEIEDFDEDE LKEANSMLEE EVQYLRVAMG HESESLEDFV  660
KAHDACQEDL MFFPNNNSYG LASVAGNSDK IAALQYEFEI VKKRMDDEAK KASRLEQKIK  720
LLTQGYQVRA GKLWSQVQDT FKQMDTSATE LECFQELQKQ EQMAASYRIR NLTEEVNKQK  780
ALERTLQSRY GDLLTSYKRI QEQLEEHKRQ LMIQEEMEAQ KRAQEEEEME AQKRTQAEEE  840
KEAAKAEEEA RKMDRAADEE AAGSKQVNED QMDVDNSNAD GDEFVGPIPP GPGTQGDDNV  900
VAVEENSSSQ SGDTATTEDG SCGMIDASKS GGQDHIDSKD ELPTVGASLD DGSAAASSDQ  960
DVSTEVNATV PE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5mqf_L0.027943792Cell division cycle 5-like protein
5xjc_L0.027943792Cell division cycle 5-like protein
5yzg_L0.027943792Cell division cycle 5-like protein
5z56_L0.027943792Cell division cycle 5-like protein
5z57_L0.027943792Cell division cycle 5-like protein
5z58_L0.027943792Cell division cycle 5-like protein
6ff4_L0.027943792Cell division cycle 5-like protein
6ff7_L0.027943792Cell division cycle 5-like protein
6icz_L0.027943792Cell division cycle 5-like protein
6id0_L0.027943792Cell division cycle 5-like protein
6id1_L0.027943792Cell division cycle 5-like protein
6qdv_O0.027943792Cell division cycle 5-like protein
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1185204KRRELKAAGIDTRQRKRKRK
2199204RKRKRK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Os.102020.0callus| leaf| panicle| seed| stem
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO329874570.0
Expression AtlasA0A0P0W9C3-
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed extensively in shoot and root meristems. {ECO:0000269|PubMed:8917598}.
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapLOC_Os04g28090.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Phenotype -- Mutation ? help Back to Top
Source ID
RiceGEOs04g28090
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1022480.0AK102248.1 Oryza sativa Japonica Group cDNA clone:J033088F07, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015636290.10.0cell division cycle 5-like protein
SwissprotP929480.0CDC5L_ARATH; Cell division cycle 5-like protein
TrEMBLA0A0P0W9C30.0A0A0P0W9C3_ORYSJ; Os04g0348300 protein
STRINGOS04T0348300-010.0(Oryza sativa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP44163553
Representative plantOGRP39481723
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]