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 Cagra.0534s0022.1.p
Organism
Capsella grandiflora
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 MYB
Protein Properties Length: 484aa    MW: 54344.8 Da    PI: 6.6023
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.0534s0022.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding43.11e-133579348
                         SS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  3 rWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                          WT+eEd++l + +  +G+++W+ Ia+++   ++  qc+ rw++yl
  Cagra.0534s0022.1.p 35 TWTPEEDDILRKHISVHGTENWAIIASKFT-DKSTRQCRRRWYTYL 79
                         6****************************9.*************97 PP
2Myb_DNA-binding44.73.1e-1485128146
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                          rg W++eEd ll +a +++G++ W+ Ia+ +  gRt++ +k+r+ +
  Cagra.0534s0022.1.p  85 RGGWSPEEDTLLCEAQRLFGNR-WTEIAKVVS-GRTDNAVKNRFTT 128
                          789*******************.*********.**********976 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129414.9532879IPR017930Myb domain
SMARTSM007173.0E-133281IPR001005SANT/Myb domain
SuperFamilySSF466895.87E-2632126IPR009057Homeodomain-like
CDDcd001676.27E-133579No hitNo description
Gene3DG3DSA:1.10.10.606.8E-213687IPR009057Homeodomain-like
PfamPF139213.6E-163696No hitNo description
PROSITE profilePS5129420.81280134IPR017930Myb domain
SMARTSM007178.4E-1584132IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.605.4E-1988133IPR009057Homeodomain-like
CDDcd001678.64E-1188129No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009553Biological Processembryo sac development
GO:0010052Biological Processguard cell differentiation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 484 aa     Download sequence    Send to blast
MEETTKQNNN TNTNKKKKLV VNTDDSKKKE RHIVTWTPEE DDILRKHISV HGTENWAIIA  60
SKFTDKSTRQ CRRRWYTYLN SDFKRGGWSP EEDTLLCEAQ RLFGNRWTEI AKVVSGRTDN  120
AVKNRFTTLC KKRAKYEAMA KENSIGCCVN SNNKRLLFPD GISTPRKAES ESPLTKKMRK  180
CHIPNLTEIK SYGDRSHIKV ESAMNQHSRP PFSVVAHNAT GIDGTKEQKQ TGNAKESDGG  240
DKGTQEVFLK KDDSKVTALM QQVELLSSLA QKVNADDTDQ SMDNAWKVLQ DYLNKSKEND  300
LFRYGIPDID FQLEEFKDLV EDLRSSNEDS QTSWRQPDLH DSPASSEYSS GSTVMQHSSG  360
DKTQQPMSDT QTALQKQNEG ELLQAKGIVS DATVEQVDLL TTCQDVLKNP NEIVPMTCDE  420
EFNSPVQVTP LFRSLAAGIP SPQFSESERS FLLKTLGVES PCPCPSANPS QPPPCKRVLL  480
DSL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-243613410108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that binds to DNA in promoters cis-regulatory element 5'-GGCGCGC-3' of cell cycle genes, including cyclins, cyclin-dependent kinases (CDKs), and components of the pre-replication complex (PubMed:20675570, PubMed:24687979). Binds to DNA in promoters cis-regulatory element 5'-AGCCG-3' of auxin regulated genes (e.g. PIN3 and PIN7) (PubMed:26578169). Together with FAMA and MYB124, ensures that stomata contain just two guard cells (GCs) by enforcing a single symmetric precursor cell division before stomatal maturity (PubMed:24571519). Represses the expression of the mitosis-inducing factors CDKB1-1 and CDKA-1, specifically required for the last guard mother cells (GMC) symmetric divisions in the stomatal pathway (PubMed:20675570, PubMed:24687979). Represses CYCA2-3 in newly formed guard cells (PubMed:21772250). Together with MYB88, regulates stomata spacing by restricting divisions late in the stomatal cell lineage thus limiting the number of GMC divisions (PubMed:16155180). In collaboration with CDKB1-1 and CDKB1-2, restrict the G1/S transition and chloroplast and nuclear number during stomatal formation, and normally maintain fate and developmental progression throughout the stomatal cell lineage (PubMed:24123248). Involved in sensing and/or transducing abiotic stress (e.g. drought and salt), probably via the positive regulation of NAC019 (PubMed:21105921). Regulates female reproduction being required for entry into megasporogenesis, probably via the regulation of cell cycle genes (PubMed:22915737). Plays a minor role in lateral roots (LRs) initiation (PubMed:26578065). Involved complementarily in establishing the gravitropic set-point angles of lateral roots by regulating the transcription of PIN3 and PIN7 in gravity-sensing cells of primary and lateral roots (PubMed:26578169). {ECO:0000269|PubMed:16155180, ECO:0000269|PubMed:20675570, ECO:0000269|PubMed:21105921, ECO:0000269|PubMed:21772250, ECO:0000269|PubMed:22915737, ECO:0000269|PubMed:24123248, ECO:0000269|PubMed:24571519, ECO:0000269|PubMed:24687979, ECO:0000269|PubMed:26578065, ECO:0000269|PubMed:26578169}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00259DAPTransfer from AT2G02820Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.0534s0022.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2265750.0AK226575.1 Arabidopsis thaliana mRNA for hypothetical protein, clone: RAFL07-13-I18.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006291006.10.0transcription factor MYB88
SwissprotF4IRB40.0MYB88_ARATH; Transcription factor MYB88
TrEMBLR0H3R40.0R0H3R4_9BRAS; Uncharacterized protein
STRINGCagra.0534s0022.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM33742863
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02820.20.0myb domain protein 88
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Yang K, et al.
    Requirement for A-type cyclin-dependent kinase and cyclins for the terminal division in the stomatal lineage of Arabidopsis.
    J. Exp. Bot., 2014. 65(9): p. 2449-61
    [PMID:24687979]
  4. Yang M
    The FOUR LIPS (FLP) and MYB88 genes conditionally suppress the production of nonstomatal epidermal cells in Arabidopsis cotyledons.
    Am. J. Bot., 2016. 103(9): p. 1559-66
    [PMID:27620181]
  5. Xu Z, et al.
    DGE-seq analysis of MUR3-related Arabidopsis mutants provides insight into how dysfunctional xyloglucan affects cell elongation.
    Plant Sci., 2017. 258: p. 156-169
    [PMID:28330559]
  6. Qu Y, et al.
    Peroxisomal CuAOζ and its product H2O2 regulate the distribution of auxin and IBA-dependent lateral root development in Arabidopsis.
    J. Exp. Bot., 2017. 68(17): p. 4851-4867
    [PMID:28992128]
  7. Xie Y, et al.
    An atypical R2R3 MYB transcription factor increases cold hardiness by CBF-dependent and CBF-independent pathways in apple.
    New Phytol., 2018. 218(1): p. 201-218
    [PMID:29266327]